Skip to content

Instantly share code, notes, and snippets.

@cschin

cschin/example

Created July 8, 2021 16:09
Show Gist options

  • Select an option

    Learn more about clone URLs
  • Save cschin/2cfe0bbbf7f7fee87d3669d2f307fffa to your computer and use it in GitHub Desktop.

Select an option

Learn more about clone URLs
Save cschin/2cfe0bbbf7f7fee87d3669d2f307fffa to your computer and use it in GitHub Desktop.
Download ZIP
maybe a bug in WFA
Raw
example
❯ ./wfa_adapt
s0 len: 16179, s1 len: 16326 Alignment contains 16168 matches 46 mismatches, 149 insertions, and 2 deletions
The alignment length is not consitent with sequence length:
16168 + 46 + 2 = 16216 != 16179
16168 + 46 + 149 = 16363 != 16326
Raw
wfa_adapt.c
/*
* The MIT License
*
* Wavefront Alignments Algorithms
* Copyright (c) 2017 by Santiago Marco-Sola <[email protected]>
*
* This file is part of Wavefront Alignments Algorithms.
*
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
*
* The above copyright notice and this permission notice shall be included in all
* copies or substantial portions of the Software.
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
* AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
* LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
* OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
* SOFTWARE.
*
* PROJECT: Wavefront Alignments Algorithms
* AUTHOR(S): Santiago Marco-Sola <[email protected]>
* DESCRIPTION: WFA Sample-Code
*/
#include "gap_affine/affine_wavefront_align.h"
int main(int argc,char* argv[]) {
// Patter & Text
char* pattern = "GTATAATTCTAGGGGTATCTGCAGATCCTTCAACCCAAAAATCCTCCCCATCAGCCTGCTTCAGATGCCTCCAGGTCTTTAGCTGTGACATTATCCTCTGTTGAATGCTAACATCCTTGGGAGGTAATCTAGGAAGTTTTTTTTGTTTGTTTGTTTGTTTTTTTGAGATAGAGTTTCACTCTTGTTGCCCAGGCTGGAGTGCGATCTCAGCTCACTGCAACCTCTGCCTCCGGGTTCAAGTGATTCTTCTGCCTCAGCCTCTTGAGTAGCTGGGATTACTGGCACCCACCACCATGCTTGGCTAATTTTTGTATTTTTAGTAGAAATGGGGTTTCACCATTTTGGTCAGCCTGATCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGCCGTCTAGGAAGCTTTTAACAGCTTAGAGTGCATTTGCATTAATTGATCTGATCCCCTTTTACCTGAGCACTAACCATTAGCAGTTTCCGGCAGGGAGGGGCCTCCAGGTCCTTCTTCCCGCCTCCCCAGGCTTTTGAGGTTCTACCACCCTCCAAACTATACAGTCTTGACTAAGGGTCTTGGGAACCTGGACAGCATCAGAACATTACATTCCTGTCTAAAGAATGGGGAAGACTAGCTCTACCCAAGGCTCACTTTATGTGTAACATTCTGCACTAGGTAATCTCTATAATCTCCAGTACTAGGACTGCCTGCTAGCAGGTTCTCCCAGGACATCAACAGAGTTTGGGTTAAATGTTGGGAACCACCAGAACCTCATACATGGGAGTGTAAAGTGGTATAACCAACTTTGGAGAACAATTTGGCAATATCTAATAAAGTGTGTGCATCAGACATTCCTTGCCTAGAAACATAAATCCCAAACATTTGTTCACCAGAAGACAGTCCTCAATGTTCACAGCAGCAGTATCCATAACAGCCCCAAACTGGAAACCACCCAAACGCCGGGTGTTTGTACGTTCACACCACGGAGAGTGAACAACCTACAACTGTACACAACGCGCACGGAGAATGAACAATCTACAGCTATACACAACATGAACAAATTTCAGAATGACACAGGTGAGCAAAAGAAACTAGTCACAAAACACTACACGCTGAGTGATTCCACTTATAAAAAGTATAAAAACCCAGGCCGGGTGTGGTGGCGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCAACGCGGGTGGATCACCGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAAAAAAAAAAAAAGCCAGGTGTGGTGGTGCATGCCTGTAATCCCGGCTACTGTGGAGGCTGAGGCAGGAGAATCTCTTGAACCCGGGAGTTGGAGGTTGCAGTGAGCTGAGAACGCGCCACTTCACTCCAGCCTGGGCAAAAGAGCGAAACTCCATTTCAGAAACAAACAAACAAAAAAAGTATAAAAACCCACAAAACTGTCGTGTTGGAATCAGGAGAGTGGGTACCCTTAGGGGGAATAGTGACTAGAAGGGAAGGTGATGAGGCGAGGGTGTTGGTCACATGTTCTGTTTCTTGCTCTAGTTGCTGATTTCACAGGAGTGTTCAGTTTGTGAAAATTCACCACGCTGTGTAATTGTGATATGTTCTTTTATATGTTTACTGCACATCAGTTAAAAAGATTTCTTTTTAAGTGCTTTCTTAAAGAAATGACTGAGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGGGCGGGTGGATCACCTGAGGTCAGGCGTTCAAGACCAGCCTGACCAATATGGTGAAACCCCATCGTTACTAAAAATACAAAAATTAGCAGGGCGTGGTGGCATGCACCTGTTGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCAGAGGCTGCAGTGAGCCGAGATCACGCCACTGTACTCCAGCCTGGGCAACAGAGCGAGACTCCATCTCAAAAAAAAATGACTGTTTACCTTACAAGGTATTTGGGAACTTTTACATCCAGGTGGGAACCCCAAACATCAGAGTTCTAGACCCTAGATGGAAAGAAGGCTGGGCTTTTGAGCATGTAGAGGGTGTCCCTGAGGTATGAGACCTACCCCTAACCTTGGAGAATAGGGAGAAAAGGAGGAGGGGCAGGTTGTTTATCTGCAGGCTGTACCGAGATGGTTTGTCTCTAAAGGACAGTATATCTGCCCAGAAGCCCTTCGTGAGCTGAGAACAGATGAGCAAACAGCATCCTATTCCTGTTCTCCAAGGCAGGGCACTTCCACCTGGGCTGGAACATGCACTGATTGTTTGATGGGTTTTTGGCATCTCTTTCCCTGGTTTCCCCTCCAAAAGACTGGAATCAGACTGTGCTGAAGAAACTTTGCTTCCCCACACCTTTCATCCCTGTCATCTCTGCAAGTGTCTGAAAGTGCCCTTCAGACCAGAAGGGCGGAACCAAACTATTTATTTGCCCAGAGGTCTTTGATAAGGGAAAATAATAAAAGCAGTGATGCTGTCCATGTGTCCGCAGGTGAAGCAAATCATGGAGGAGGCTGTCACCAGGAAGTTTGTGCATGAAGACAGCAGCCACATCATTGCTTTATGTGGTGAGTGAGTGACTGAAGGATGATGGGAGGTCGGTCTAGAGCCGAGGACACTGGCCTGGGGCCAGGAAAAGATGAGTCCTCAGGTGCAGTAGCTCTCAAATCTGGCTGCAAGTCCAAATCAACCTGGAAGCTTTTGAAATCCTCTTTGGCCCCATTTGCAGACCTACTAAATCAGGTTCTTCAGGGGTCAAGAATCTGCGTATTTTTTGTTCCCCAGGATAGTAATTCTCACATTTTAGCATGTATCAGAGTCACCTGAAGGGCTTGGTAGAACACAGATTTCTGGGTCCCAACCCTGGAGTTTCTGATTCTAGTAGGTCTGGGGACCCCACTTTGAGAGCCGCTGCCCTAGGTCATTTGAGTTCAGGAACCAGTGCTCTGACTGATTTTGATTTTGACTTCAGGGAGGGGTTTGTGCTTTTCGGATGCTCTGTGCCACTTTCCCTTTGTTTCCCACCCGTGTTGCTCCATGATCCTAACCCCAAGCCCTTGACTGGATGCAAAGGAGCCTGAGCGTGGGCTAGGAGAGGTGGCTAAGGCTTCCAGCCTCAGAAGGGACTCTCTCATCACCTCCTTCTCAGTGTGGCCAAGCCTTCCAGCCCCAGAAAGGAGAGAGTCGCTTATAAACCATTTCCGCCTCCTCAGCCTGAAGACTTTTGCTTTGTAGGAGCAAGCCTATCCCTACGCACAGACTCTTCTTGGATTTCTAGGAATTTCAGCTTCCTCTCAACCCCCCATCTGAAGGGACAGGGAACCATTCACCTTCTCTGTGTTGTATTCCTTGGCCTCTGAGATTGGTGTTGGGGTTTGTGGAGGGAAAATAATGAAAGAACAGATAAGGGAAGGGATGCTTTGGACGGTAGTGTGGCACAGCAGATACAGCTGCCCTTCCCCTCATCCAGCAGCAGATCCCCACCAAGGGCTCACCAGGTGCCAGACACCGTTCACCGTGCAAGGAAATGGCAGTGACAAGATGGACAGAGTCTCTGCCGCAGGAGCTTACATTCTGTTGGGGAGACAGACAGGAAACAAATGCGCAAGTAAATATGTCATCCAATAACTTGGCATGTGATAAGAGCTAGGAAGAAAAAACATGTGGGAGGGCAGTCGGAGAGGCAGCCTCTGAGCAGAGTCTGAGTGACAGACTGGGGTTTGAATCCTGGCGTCCTGCCTTTTAAGTCGTCTTGGACAAGTTTCTTAACTTCTCTCACCCTCAGTTTGCTCCTCTAAAAACAGACTGATGATTCCCACCTCAAGGAACTTTCGTGGGGATTGAGATGATGTGTGTAAATGTTCATTCGTTCGTAGCATTGTAAGCACTCAAAGAATATTCGTCTCTCCTCCTTTGGCTGTTGAGGCTGAAGGTAGGTTTGTAGGACTTGAGTTCATACCATGTCCGTTTGGGAAGGTTTCCCCAGTTCTTTGAGATGGTGGAATAATGATTCCTAGGTTTACAAGACACAGCCTGACCTCAGTTTTTCTCAGCAGAACCTATGCTCTGGAAAAAAAAAAGGCATGCCAGTATTATGATAAGCAACTTTGAAGAGTATTAGAATTCTCGGCCGGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGTGAGGCAGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACTTGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCAGGGCGTGGTGGCGGGCGCCTGTAATCCCAGCACTTTGGGAGGTGGAGGTGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCAAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAATTCCTACTTTTTAAATACTGACAGCTAATTCCCATTTAAAAAAAAATTGTGTGGGCCACACAAAAGACATCTGCCAGCCTCTGCCAGTGTGCAGCCTCTGTTTTGGGTTCGGTACAGTCACGGAGAACAGGAGCAGGAGAGGTTCCAACAGTATCGGGCTAAGTCAGGCCAGGGTATCTCAGGGCCTACAGACAGAGAAATCCTTATGCTTTGTCAAAATTGGTGCTCAGTGGTGAGCTAAATCCCAATTTGGGCTGAAACTGAGGCTCGTTGAAAGCATTGATTATCAACCTTTTTCCTCTGCCTGCAAAGCAGCTTCCTTGCATTGCATGGTGGAATCACGAGAGACTCTTGCGGGGGACGGGGAGGGAAGACTAGCAAGGTATGGATCAAAAACACCACCCCTCTCTGCCTTTTTGGAGATTCTGATGTGCCAGTCTCCCTCAGTCCCTGGAAAAATGCTCTGAAATGCATTTTTAGTCTGAAGTTGATCCAGACTTAAACTGTGCCTTGCTACTGTCCTAGCCACGTCCGAATTCAGCTTTGTTGTGGGAGAAATGGGAGTATAGAGAACGTGCTGAGAGGTCAAGAGCAGAGTGAAGTCTGTGGAGACTGGATTACCAGCCTAGCGACACCACGGTCCCTAGTTTCAAGGGACCCTTGTGTACTGGGCCCCTCAACTCCACACCGACCCATGGTTCTTGGCAGAGGAGGGTTGGGGGTGACTGAGGAGAGCCAGGCCTAGGCAATACAAGCTTCTCTGAGCTTCTTAGAATGCAGACATTTAAACAGAAAACACAGAGCCTTCCTGGAGAGCCTTCCTGAAGAATCACTGTGTCAAGACCTGACCATGGGCAAACCCAGGAAAGTTTGCAGCCAGATCCCCATTCCTGTTACCCAACGGGAGGGGCAAGACTCCTAGGACTGGCTAGAAAATTGCTTTGTTGAGTGTTTGCTGTGGTTGTTCCTAAACCTGTCTGTCCAGAAGCTGGACATGCAGTAGGCCCCTGCGAGTAGAAACTTTCCTTGTGTGGAAGTTTTCGCTGGCAAACCAGTCTGGCGGCAGCAGGGGGGTGGGTGGGGTTCTCTGTGTGCTGTTCCCAGGCCCGAGGATCAGAACCTATGTAACTGCCACCTCCGTGCCAGTGGAGGGTGGCGCTAGGAGAATGGACTCAAAACTACCACTATGGGGCCAGGCATGGTGACTCACACCTGCAATCCCAGTGCTCTGGGAGGCTGAGGCGGGAGGATCCCTTGAGACCAGAAGCTTGAGACCAGCCTGGGCAATATTACAGGATGCAGTCTCTACAAAAAAATAAATAACTCGCTGGGCATGGTGGTGCACGCCTGTAGTCCCAGCTACTCCAGAGGCTGAGGTAGGAGGATCACTTGAGCCCGGGAGGTTGAGGCTGCAGTGAGCTATGATTGCACCACTGCCCTCCAGCTTGGGCAACAGAGAGAGAGAGAGACCCTGTCTCGTTTGTTTGTTTATTTATTTATTTATTTAGAGACGGAGTCTCACTCTGCTGCCCAGGCTGGAGTTCTGTGGTGCTATCTCAGCTCACTGCAACCTCCGCCTCTCAGGTTCAAGCAATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCTGCCACCACACCTAGCTAATTTTTGTATTTTTAGTAGAGACAGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAACCATCACACCCGGCCTCATTTTTTTTTTTTTTTTTTAAACAAAATCCAAAAACTACCACTGTTGGGGAGAGGTCTTTGATATATCCTTTTATCCTTTTTATCTTAAAACATCACATCAAGTTTACATTTTTCTCTATCATATGGTTTTTGGATTTTTTTTCATTTTAATATAAAGACTTACTGTTGAATTAAAGTATAGGCTGGTATCTCCTGTCGCCCCCTCCCCTGGAGGGGAAGGTGCTTTTGTTTTTTCTTTTTTTTTTTTTCCAGATGAGGTCTTGCTATGTTGCCAAGATTGGTCTCAAACTCGTGGGCTCCAGGTATGCTCCTGCCTTGGCATCCCAAGTAACTGGGATTACAGGTGCATACCACCGCCCGAGGTCCATAGTGTTTTATTTACCCTATTCCGATTGGGCACTGAGTTTGCATTTTAACCTTTGGCTGGTAGAGCAGGTTTCAGAGGCTCACAGAGAGGCTTCTGGCCAGGCAGAGCAGGTTCTCAGGCCAATCATATCTCCCAGGACCTCAGCCTCCCCACCCCCCAGGGATTGGGGCAGACACCAGCCTGCCTCCTCAGTCACCAGATTCCCTGCCCTGCTGTGTGCAAGTGGGTCAACATGAGGGTTGCTTCAGACTGAGGATGAGCTGTAATTCGAGAAGGGTGGAATCTGTGGAGCCGGGAATAACATCAGGCTTTATTAACCAGCTCCCTGTTGCTAGGCAGCTTTCATTAGCCAGGAAGGTCTGCCCTGCAGTGAGCTCCTTCAGGGAATGGCAAGGAGATGCTAATAAGCTGGGAGAGAAGCCGGTGCTAGGGAAGGCTTGCCTCTCCCCTGGGATATTGCAGCCAGCGATATTTCAGCACATTCTGAGATTTGGACTCCAGGCAGTCTTCAGCCTGTCTCTTTTCAGTAAAAGGGATTCCTGGAGGCTGAGGTGGGAGGATCCCTTGCAGGAGTTCGAGACCAGCCTGAGCAAAAAAGACCCCATCGCCACAAAAAGGAGGAGCGGGTTCCTCCTCCTTCCCACCCACAGGGAATGAATAGCTCATTCTCTTGCTATCTAACTCGTGCCTTCCATCTAGAAATGATCTAAGAGGAAGGAGGGAGCTCTGAAGGAGCTGACTCCCCTCACTCTATCTTGGGGCATTGCGGAGGGCATATGGGGATGTTCATAGCTGGGACTTTGGGGTCACACAGACCTGGGTTCACATCCTGGCTGTGCCACGAAGTGTGTAGCCGTGCTTACTCATCTCTGAGCCTACCCCAGAAGGCAGATGTAAGGAACAGAAGAGCAATGCAGGCAACACACACAGCATGGATCTGAGTATGCAGAAGGTGCTCAATCGCATTCTACTTTGGTTTTTATTTTGTTTTGTTTCGTTTTGTTTGAGATGGAGTCTCACTCTGTCTCCCCGCTGGAGTGCAGTGGTGTGATCATAGCTCACTCAGCCTCGACCTTCTGGGTTCAGGCGATCCTCTCACTTCAGCCTCCTGAGTAGCTGGGTCTACAGGTCTACGCGCCACCACACTCGGCTACTTTTTTGTATTTTTGTAGAGACGGGGTTTCGCCATGTTGCCCAGGCTGGTCTCAAACTCCTGACCTCAAGTGATCTACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCACCCCACCCCACATCTGCTTTGTTTTTGAAAGGGAGCATAGGCCGGGCACAGTGGCTCACGCCTGCAATCCCAGCACTTTGGGAGGCTCAGCTGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAAAATGGCGAAGCCCCATCTGTACTAAAAATACAAAAATTAGCTGGGCATCATGGTGCACGCCTGTAATCCCAGCTCTTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCTGAGAGATGGAGGTTTCAGTGAGCGAGATTGTGCTGCTGCACTCCAGCCTGGGCGACAGAGCGAGACTTGGTCTAAAAAAAAAAAGTGACCTTACAACCTTTCCTATAAAGCCTCCTCGAGCCTTCCCCAGGATTCCATCTGGGAATCTGTGTTTCTGGAAGTTTGGAGCATCTGGAGAATCAGAAATTTGAACATCAGGAACTCAATAAGGAAATTTGATAATATAAAGGAATTGTTACCAATTTTGTCAGTGTAATAGAGGTATAAGTGCATGTTTTTAAGAGTCCTCTTTCAGAGATAAATATATATGATGTCTAAAATTTGCTTCAGAATAATCCAGTGGTAGGAAACAATGGTTGCAGGCGGAGGAGCTGAAGCAAGATGGTCGTGACTTGATCATTGTTGAAGCTGGGTAATGAGTACATGGGCAGCTGTTATACTGTCCCCTTTTCCTTCTGTATATGGTTGGAATTTTCCCTAGTGAAATGTTTTGTTTTTTTTTTTTGAGATGGAGTCTCCCTCTGTCGCCCAGGCTGGAGTGCAATGGAGCGGTCTTGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACACCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCGCCCACCACCACGCTCGGCTAATTTTTTGTATTTTTAGTAGACATGGGGTTTCACCGTGTTAGCCAGGATGGTCTCAATCTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACCACGCCTGGCCTAATTTTTGTATTTTAGTAGAGATGGGATTTCACCATGATGCCCAGACTGGTCTCAAACTCCTGACCTCAGGTGATCCACCTGCCTCGGTCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCATTTGGCCTAGAATGTTTATATTCACATGGGAAGTATCTAATAGGGAAAAATTGCAGGCATAAAAAAGAGAAGAGAAGTTTGCTGGAGGAGCGTCTTTGAAAAGGTGCAAGGGAGGTGGGGTGCGGTGGCTCACACCTGTAATCGCAGCACTTTGAGAGGCCAAGGCAGGTGGATCACCTGAGGTCAGGAGTTCTAGACCAGCCTGGCCAATATAGTGAAACCCTGTCTCTACAAAAAATACAAAAATGTGCCGGGTGTGGTGGCGCACGTCTATAATTCCAACTGCTGGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGTGGTGGAGGTTGCAGTGAGCCGAGACCGTACCACTGCACCACTGTACTCCAGCCTGGGCGACAGAGTGAGACTCTGTCTCAAAAAAAACAAAAAAACAAGACATAAGAAATGGTGCAGGGGCAGCACTCCAGCCTCCAGCGTGCCGGTGGAAGGTGACCTCAGAGACAAGTCCAACTAGACCATCCCTAGGAACGAGAGGAAGGCAGGGACTGGGCATGAGGTGCAGGGAGGGAAGGCACCTGCATTCATCAGTCCCCTTCGGTGTGGTAGGCAGGGGCCGAGAAGCCTTTCACACCTTGGGATATGCTGTTACTTTTCATCACCCAGCATCCATTGAGGTAGACCCTGATTTTCTCCCTAATTACATCAGAAGCTCAGAGAGGTTTAGTGACTTGACCAAAGTCAAACAGCCAGTAAGGAGAGGAGCCCGTGGGCTGGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGAGGGTGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCATCATGGTAAAACCCCTTCTCTACTAAAAATACAAAAATTAGCCGGCCATGATGGTGGGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCTGGCAGGCGGAGATTGCAGTAAGCCAAGATCACGTCACTGCACTCCGACCTGGGCAATAGATCGAGACTCAGTCTCAAAAAAAAAAAAAGGAGAGGAGCTAGTGTTTGAACCCACCTCTGTCTTGCTCCAGACTCTGTGCTGCCCAGGGATTGGTCTGCCTGTGAGGCCTACCCAGGAGTAGAGACTAGAGGGGCGGCGGCATTGAGGAGTTGGCCCTCATGCAGACGAAGCTCTGGTCATTGAACTGTGGGCTTATGGTGTCCAGAGACACTCTAGGAGACTGTGGCTTCCTTACCCAGCCAGCTGAGTGTGCCCACATCAGTGTCCACTGCATGAGAGGCTGGCCCTGGCCTGGTTCCCTGGGTAGCCGCCATGAGCACTGTGCATGCGGACCCTGTCTTGCATCTCCAGCAGGACAAGGACAATGGGATGTGTAGCATGGATTTCATTTCCCCCTCCTTGGTTCTAGGTTCTGGGTTCAGGCGATCTCTCACTTCAGCCTCCTGAGTAGCTGGGTCTGCAGGTCTACGCACCACCACGCTCGGCTACTTTTTTGTATTTTTGTAGAGACGGGGTTTCGCCATGTTGCCCAGGCTGGTCTCAAACTCCTGACCTCAAGTGACCTACCCGCCTCAGGACAGTTCTTTATCCTCCCAATCAGAGTCCAGTTGCGAATGTTGCTTTCTTGTTTTGGGGGTTGAGCAGGGCTGAATGCCTTCCAAAGTTGAAGCAAACAACCAGTATCACCAGTGCAGGCTGAGAGAAAATGCACCCTAGTTACCGCAGAAACGCTCATCTGAGTAAAGGCAGCCACTACAAATCCCTGGGTGGAAATAGCCAGGGAGAGAAGCGGGGAAGAGAGGGGCAGGTCACACTTGGCGATGGCCCTTCGCTCCTCTCACCTTGTCTGTGGCAGATGAAACACTGGCTCCTTCCACCGGCAGTTGGAGTAAAGATACTTGATGCTTCTTCTCCTTCAGTTGTTACTTGAAAGAGGCGGGTCCTCCCACCCATTCCTTTATCTCCAGGAAGGCTGCTCCTCTCCGGCATTGTTGGTTCCACCATCCAGGGACCTGAACCACTGGCCCCCAGGCAGGCATTGGGCTTTTGAATTCTGCTCTAATTAGCGTCTCCCAAAGCCCCAGGTCCAGAATGGACTACCTGAGGCTGGCTGCCCTGCTTGCACTTCCTCGCTTGGGTTCTGTGTGGCAGCGGTGGCTGAACTCCCCTGTCGTGCAGATGGCAGCTGGTAGCAAAAGGTGAAACCGGGCCGGAGGTGGGGAGCAAGCCACACCTGCCAACTTGCTGTCCTCCCATTCCCAACTCCGGGCCCAGCATCTCAGGCCCAGTTTCATGTTGAGTTGTGCTAACTCTGTCCCTGTACCTCAAGCAAACTAGGCTAGTCCTCTGAAGGCCACTGAGTGGTTCCCACTGTTACCAGGCTGGGCTTGTCCAGGCTGCTGAGTGCAGCTTTCAACGTAGATATATATGCACATGAGAGCCAAGGCAGAATGCAGGTGCAGAGACCCAGCCCTGCTTCTGAGGCTCCCTGGGCTGACTGATGACCCTCCTAACCACTGCTGCATTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCTGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGTCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTAGCCAGGATGGTCTGGATCTCCTGACCTCGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACTGCTGCATATTCTAGCAGCCGAGCTATAGTTCATTTCTGTGAGCTCCTGAGACACCTTAGCTTGTCTCAGCCCTCTGGATCGTTTCTCTAATCCCTGCCCCGCTCAGGTCACCTGCTGCTGCCCTAAGCAGAGCCCACATGCGCCCCCTAGTGGTGGGAAACCAAACGATTCCACAGATCCTGTTTGTTGAGGGAGGAGGTGAAACGAGATGCCCACGGGCGACCCAGCCTTCCTGGGTTTTGTGAATTCTGATTCACACCTAGATTGGAGAGACTCTCTGGCATCATCTCATGATGGGAACCCTAGTGCTGGTCACCCACTCAATTATTATAATTAATTTTGCATTCATAATATATTTAACTGGTTCAAAAATCAAAACCATATAAAAAGGATACAGTGGGGCCGGGCACATTGGCTCACACCTGTAATCCCAGCACCTTGGAAGGCTGAGACGGGCAGATTGCTTGAGCTCAGGAGTTCGAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCTACTAAAAATTTTTAAAAATTAGCCAGGCATGGTAGTGCACGCCTGCAGTCCCAGCTACTCAGCAGGCTGAGGTAGGAGGATCACTTGAGCCTGGGAGGCAGAGGTTACGGTGAACAGAGATTGTGCCCACTGCAGTCCAGCCTGGGTGACAGACTGAGACTCTGTCTTTAAAAAAAAAAGCGTGCAGTGAAAAGTCTCACTCCTTTCTCTGCTCTTATTCACCCACTTCCTGTCTATGTACGAGTCCCACACAGGTAACCACTTTTGTTTCTCATGCATCCTTCTAGAGGTTTTCTTATGTTGGTTTTTTGTTTGTTTGGTTGTTTTTTGAGACAGGGTTTCATTCTGTCACCCAGGCTGGAGTGCAATGGTGCAATCTCAGCTCACTGCAACCTCCTGGGCTGGGCTCAAGCAATCCTCCCACCTCCACCTCCTGAGTAGCTAGAATACAGGCTCATGTCACCACACCCAGCTAGTTTTTAAATTTTTTGTAGAGATGGGGTCTCCCTGTGTTGCCTAGGCTGGTCTCAAACTTCTGGGCTCAAGTGATCTTCCCACCTTGGCCTCCCAAACTGTTGGGACTATAGATGTGAGCCACTGCACCTGACCTAGAGTTTTTTTGTTTGTTTTTTAGTAGAGACGGGGTTTCACTATGTTACCCAGGATAGTCTCAATCTCCTGACCTCGTGACCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCCAAGTTTTTTATACTAATAAAAAAGATTGTATTCTTTGTTCACACCTCCCTTTTTGTAATTAAAAGGTGTCATGCAATTATACCATTCTGCATCTTGCTGTTGGCGAGCTTTCCATTATTCATTCCTAGAGAGCATCCTCATTCTTTTTCAGAGTTGCATGATATTCTGCTAGAGATGTACCATATTTACTTCACCTGTCCCCTATTGATGGGCATGTGGATGACTTCCAGTCTTTTGCTGTTATAACTAAATAATCACGCAGTTATATCTGTAGGACGGATTCTCAGAAGAGGGGTTACTGGATCAGAGGTTATTTGCAGCATTAGTGGAGAGGGCCATATTGCGTCTATACGGGTTGCAGCATCTTGCCTACCTACCAGCAATATATGAATGGATTCAGCAGCTCCCCACGTCCCTTCCATCTGTGTCTTCCTGGCGTCTCCTCTACTCTAAATTGGGTCTCTTGGAATGGTGAAATCAGTGTGTAAGGGTTGGGGGCAGGGACCCTATATCTTAGAATGGTGGAATCGGGGTGTAAGCGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGCGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTAGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTAGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGCAGGGGCCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGACCCCATATCTTAAAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGATCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATTGGGGTGTAAGGGTTAGGGAAGGGACCCCATATCTTAGAATGGTGGAATTGGGGTGTAAGGGTTGGGGTGCCCATAGGATTCCATCAGCATCTGTGGTCTCCAGCCGTGTGTAGCATTTGTTAGGCTGCAGAACTTGATGGCTTTGAGGTCACATCGGGGCTGGTGAAGGGAGCCCCAGGGCTAGTCTGGGTCTGTAG";
char* text = "GTATAATTCTAGGGGTATCTGCAGATCCTTCAACCCAAAAATCCTCCCCATCAGCCTGCTTCAGATGCCTCCAGGTCTTTAGCTGTGACATTATCCTCTGTTGAATGCTAACATCCTTGGGAGGTAATCTAGGAAGTTTTTTTTGTTTGTTTGTTTGTTTTTTTGAGATAGAGTTTCACTCTTGTTGCCCAGGCTGGAGTGCGATCTCAGCTCACTGCAACCTCTGCCTCCGGGTTCAAGTGATTCTTCTGCCTCAGCCTCTTGAGTAGCTGGGATTACTGGCACCCACCACCATGCTTGGCTAATTTTTGTATTTTTAGTAGAAATGGGGTTTCACCATTTTGGTCAGCCTGATCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGCCGTCTAGGAAGCTTTTAACAGCTTAGAGTGCATTTGCATTAATTGATCTGATCCCCTTTTACCTGAGCACTAACCATTAGCAGTTTCCGGCAGGGAGGGGCCTCCAGGTCCTTCTTCCCGCCTCCCCAGGCTTTTGAGGTTCTACCACCCTCCAAACTATACAGTCTTGACTAAGGGTCTTGGGAACCTGGACAGCATCAGAACATTACATTCCTGTCTAAAGAATGGGGAAGACTAGCTCTACCCAAGGCTCACTTTATGTGTAACATTCTGCACTAGGTAATCTCTATAATCTCCAGTACTAGGACTGCCTGCTAGCAGGTTCTCCCAGGACATCAACAGAGTTTGGGTTAAATGTTGGGAACCACCAGAACCTCATACATGGGAGTGTAAAGTGGTATAACCAACTTTGGAGAACAATTTGGCAATATCTAATAAAGTGTGTGCATCAGACATTCCTTGCCTAGAAACATAAATCCCAAACATTTGTTCACCAGAAGACAGTCCTCAATGTTCACAGCAGCAGTATCCATAACAGCCCCAAACTGGAAACCACCCAAACGCCGGGTGTTTGTACGTTCACACCACGGAGAGTGAACAACCTACAACTGTACACAACGCGCACGGAGAATGAACAATCTACAGCTATACACAACATGAACAAATTTCAGAATGACACAGGTGAGCAAAAGAAACTAGTCACAAAACACTACACGCTGAGTGATTCCACTTATAAAAAGTATAAAAACCCAGGCCGGGTGTGGTGGCGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCAACGCGGGTGGATCACCGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAAAAAAAAAAAAAGCCAGGTGTGGTGGTGCATGCCTGTAATCCCGGCTACTGTGGAGGCTGAGGCAGGAGAATCTCTTGAACCCGGGAGTTGGAGGTTGCAGTGAGCTGAGAACGCGCCACTTCACTCCAGCCTGGGCAAAAGAGCGAAACTCCATTTCAGAAACAAACAAACAAAAAAAGTATAAAAACCCACAAAACTGTCGTGTTGGAATCAGGAGAGTGGGTACCCTTAGGGGGAATAGTGACTAGAAGGGAAGGTGATGAGGCGAGGGTGTTGGTCACATGTTCTGTTTCTTGCTCTAGTTGCTGATTTCACAGGAGTGTTCAGTTTGTGAAAATTCACCACGCTGTGTAATTGTGATATGTTCTTTTATATGTTTACTGCACATCAGTTAAAAAGATTTCTTTTTAAGTGCTTTCTTAAAGAAATGACTGAGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGGGCGGGTGGATCACCTGAGGTCAGGCGTTCAAGACCAGCCTGACCAATATGGTGAAACCCCATCGTTACTAAAAATACAAAAATTAGCAGGGCGTGGTGGCATGCACCTGTTGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCAGAGGCTGCAGTGAGCCGAGATCACGCCACTGTACTCCAGCCTGGGCAACAGAGCGAGACTCCATCTCAAAAAAAAATGACTGTTTACCTTACAAGGTATTTGGGAACTTTTACATCCAGGTGGGAACCCCAAACATCAGAGTTCTAGACCCTAGATGGAAAGAAGGCTGGGCTTTTGAGCATGTAGAGGGTGTCCCTGAGGTATGAGACCTACCCCTAACCTTGGAGAATAGGGAGAAAAGGAGGAGGGGCAGGTTGTTTATCTGCAGGCTGTACCGAGATGGTTTGTCTCTAAAGGACAGTATATCTGCCCAGAAGCCCTTCGTGAGCTGAGAACAGATGAGCAAACAGCATCCTATTCCTGTTCTCCAAGGCAGGGCACTTCCACCTGGGCTGGAACATGCACTGATTGTTTGATGGGTTTTTGGCATCTCTTTCCCTGGTTTCCCCTCCAAAAGACTGGAATCAGACTGTGCTGAAGAAACTTTGCTTCCCCACACCTTTCATCCCTGTCATCTCTGCAAGTGTCTGAAAGTGCCCTTCAGACCAGAAGGGCGGAACCAAACTATTTATTTGCCCAGAGGTCTTTGATAAGGGAAAATAATAAAAGCAGTGATGCTGTCCATGTGTCCGCAGGTGAAGCAAATCATGGAGGAGGCTGTCACCAGGAAGTTTGTGCATGAAGACAGCAGCCACATCATTGCTTTATGTGGTGAGTGAGTGACTGAAGGATGATGGGAGGTCGGTCTAGAGCCGAGGACACTGGCCTGGGGCCAGGAAAAGATGAGTCCTCAGGTGCAGTAGCTCTCAAATCTGGCTGCAAGTCCAAATCAACCTGGAAGCTTTTGAAATCCTCTTTGGCCCCATTTGCAGACCTACTAAATCAGGTTCTTCAGGGGTCAAGAATCTGCGTATTTTTTGTTCCCCAGGATAGTAATTCTCACATTTTAGCATGTATCAGAGTCACCTGAAGGGCTTGGTAGAACACAGATTTCTGGGTCCCAACCCTGGAGTTTCTGATTCTAGTAGGTCTGGGGACCCCACTTTGAGAGCCGCTGCCCTAGGTCATTTGAGTTCAGGAACCAGTGCTCTGACTGATTTTGATTTTGACTTCAGGGAGGGGTTTGTGCTTTTCGGATGCTCTGTGCCACTTTCCCTTTGTTTCCCACCCGTGTTGCTCCATGATCCTAACCCCAAGCCCTTGACTGGATGCAAAGGAGCCTGAGCGTGGGCTAGGAGAGGTGGCTAAGGCTTCCAGCCTCAGAAGGGACTCTCTCATCACCTCCTTCTCAGTGTGGCCAAGCCTTCCAGCCCCAGAAAGGAGAGAGTCGCTTATAAACCATTTCCGCCTCCTCAGCCTGAAGACTTTTGCTTTGTAGGAGCAAGCCTATCCCTACGCACAGACTCTTCTTGGATTTCTAGGAATTTCAGCTTCCTCTCAACCCCCCATCTGAAGGGACAGGGAACCATTCACCTTCTCTGTGTTGTATTCCTTGGCCTCTGAGATTGGTGTTGGGGTTTGTGGAGGGAAAATAATGAAAGAACAGATAAGGGAAGGGATGCTTTGGACGGTAGTGTGGCACAGCAGATACAGCTGCCCTTCCCCTCATCCAGCAGCAGATCCCCACCAAGGGCTCACCAGGTGCCAGACACCGTTCACCGTGCAAGGAAATGGCAGTGACAAGATGGACAGAGTCTCTGCCGCAGGAGCTTACATTCTGTTGGGGAGACAGACAGGAAACAAATGCGCAAGTAAATATGTCATCCAATAACTTGGCATGTGATAAGAGCTAGGAAGAAAAAACATGTGGGAGGGCAGTCGGAGAGGCAGCCTCTGAGCAGAGTCTGAGTGACAGACTGGGGTTTGAATCCTGGCGTCCTGCCTTTTAAGTCGTCTTGGACAAGTTTCTTAACTTCTCTCACCCTCAGTTTGCTCCTCTAAAAACAGACTGATGATTCCCACCTCAAGGAACTTTCGTGGGGATTGAGATGATGTGTGTAAATGTTCATTCGTTCGTAGCATTGTAAGCACTCAAAGAATATTCGTCTCTCCTCCTTTGGCTGTTGAGGCTGAAGGTAGGTTTGTAGGACTTGAGTTCATACCATGTCCGTTTGGGAAGGTTTCCCCAGTTCTTTGAGATGGTGGAATAATGATTCCTAGGTTTACAAGACACAGCCTGACCTCAGTTTTTCTCAGCAGAACCTATGCTCTGGAAAAAAAAAAGGCATGCCAGTATTATGATAAGCAACTTTGAAGAGTATTAGAATTCTCGGCCGGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGTGAGGCAGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACTTGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCAGGGCGTGGTGGCGGGCGCCTGTAATCCCAGCACTTTGGGAGGTGGAGGTGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCAAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAATTCCTACTTTTTAAATACTGACAGCTAATTCCCATTTAAAAAAAAATTGTGTGGGCCACACAAAAGACATCTGCCAGCCTCTGCCAGTGTGCAGCCTCTGTTTTGGGTTCGGTACAGTCACGGAGAACAGGAGCAGGAGAGGTTCCAACAGTATCGGGCTAAGTCAGGCCAGGGTATCTCAGGGCCTACAGACAGAGAAATCCTTATGCTTTGTCAAAATTGGTGCTCAGTGGTGAGCTAAATCCCAATTTGGGCTGAAACTGAGGCTCGTTGAAAGCATTGATTATCAACCTTTTTCCTCTGCCTGCAAAGCAGCTTCCTTGCATTGCATGGTGGAATCACGAGAGACTCTTGCGGGGGACGGGGAGGGAAGACTAGCAAGGTATGGATCAAAAACACCACCCCTCTCTGCCTTTTTGGAGATTCTGATGTGCCAGTCTCCCTCAGTCCCTGGAAAAATGCTCTGAAATGCATTTTTAGTCTGAAGTTGATCCAGACTTAAACTGTGCCTTGCTACTGTCCTAGCCACGTCCGAATTCAGCTTTGTTGTGGGAGAAATGGGAGTATAGAGAACGTGCTGAGAGGTCAAGAGCAGAGTGAAGTCTGTGGAGACTGGATTACCAGCCTAGCGACACCACGGTCCCTAGTTTCAAGGGACCCTTGTGTACTGGGCCCCTCAACTCCACACCGACCCATGGTTCTTGGCAGAGGAGGGTTGGGGGTGACTGAGGAGAGCCAGGCCTAGGCAATACAAGCTTCTCTGAGCTTCTTAGAATGCAGACATTTAAACAGAAAACACAGAGCCTTCCTGGAGAGCCTTCCTGAAGAATCACTGTGTCAAGACCTGACCATGGGCAAACCCAGGAAAGTTTGCAGCCAGATCCCCATTCCTGTTACCCAACGGGAGGGGCAAGACTCCTAGGACTGGCTAGAAAATTGCTTTGTTGAGTGTTTGCTGTGGTTGTTCCTAAACCTGTCTGTCCAGAAGCTGGACATGCAGTAGGCCCCTGCGAGTAGAAACTTTCCTTGTGTGGAAGTTTTCGCTGGCAAACCAGTCTGGCGGCAGCAGGGGGGTGGGTGGGGTTCTCTGTGTGCTGTTCCCAGGCCCGAGGATCAGAACCTATGTAACTGCCACCTCCGTGCCAGTGGAGGGTGGCGCTAGGAGAATGGACTCAAAACTACCACTATGGGGCCAGGCATGGTGACTCACACCTGCAATCCCAGTGCTCTGGGAGGCTGAGGCGGGAGGATCCCTTGAGACCAGAAGCTTGAGACCAGCCTGGGCAATATTACAGGATGCAGTCTCTACAAAAAAATAAATAACTCGCTGGGCATGGTGGTGCACGCCTGTAGTCCCAGCTACTCCAGAGGCTGAGGTAGGAGGATCACTTGAGCCCGGGAGGTTGAGGCTGCAGTGAGCTATGATTGCACCACTGCCCTCCAGCTTGGGCAACAGAGAGAGAGAGAGACCCTGTCTCGTTTGTTTGTTTATTTATTTATTTATTTAGAGACGGAGTCTCACTCTGCTGCCCAGGCTGGAGTTCTGTGGTGCTATCTCAGCTCACTGCAACCTCCGCCTCTCAGGTTCAAGCAATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCTGCCACCACACCTAGCTAATTTTTGTATTTTTAGTAGAGACAGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAACCATCACACCCGGCCTCATTTTTTTTTTTTTTTTTTAAACAAAATCCAAAAACTACCACTGTTGGGGAGAGGTCTTTGATATATCCTTTTATCCTTTTTATCTTAAAACATCACATCAAGTTTACATTTTTCTCTATCATATGGTTTTTGGATTTTTTTTCATTTTAATATAAAGACTTACTGTTGAATTAAAGTATAGGCTGGTATCTCCTGTCGCCCCCTCCCCTGGAGGGGAAGGTGCTTTTGTTTTTTCTTTTTTTTTTTTTCCAGATGAGGTCTTGCTATGTTGCCAAGATTGGTCTCAAACTCGTGGGCTCCAGGTATGCTCCTGCCTTGGCATCCCAAGTAACTGGGATTACAGGTGCATACCACCGCCCGAGGTCCATAGTGTTTTATTTACCCTATTCCGATTGGGCACTGAGTTTGCATTTTAACCTTTGGCTGGTAGAGCAGGTTTCAGAGGCTCACAGAGAGGCTTCTGGCCAGGCAGAGCAGGTTCTCAGGCCAATCATATCTCCCAGGACCTCAGCCTCCCCACCCCCCAGGGATTGGGGCAGACACCAGCCTGCCTCCTCAGTCACCAGATTCCCTGCCCTGCTGTGTGCAAGTGGGTCAACATGAGGGTTGCTTCAGACTGAGGATGAGCTGTAATTCGAGAAGGGTGGAATCTGTGGAGCCGGGAATAACATCAGGCTTTATTAACCAGCTCCCTGTTGCTAGGCAGCTTTCATTAGCCAGGAAGGTCTGCCCTGCAGTGAGCTCCTTCAGGGAATGGCAAGGAGATGCTAATAAGCTGGGAGAGAAGCCGGTGCTAGGGAAGGCTTGCCTCTCCCCTGGGATATTGCAGCCAGCGATATTTCAGCACATTCTGAGATTTGGACTCCAGGCAGTCTTCAGCCTGTCTCTTTTCAGTAAAAGGGATTCCTGGAGGCTGAGGTGGGAGGATCCCTTGCAGGAGTTCGAGACCAGCCTGAGCAAAAAAGACCCCATCGCCACAAAAAGGAGGAGCGGGTTCCTCCTCCTTCCCACCCACAGGGAATGAATAGCTCATTCTCTTGCTATCTAACTCGTGCCTTCCATCTAGAAATGATCTAAGAGGAAGGAGGGAGCTCTGAAGGAGCTGACTCCCCTCACTCTATCTTGGGGCATTGCGGAGGGCATATGGGGATGTTCATAGCTGGGACTTTGGGGTCACACAGACCTGGGTTCACATCCTGGCTGTGCCACGAAGTGTGTAGCCGTGCTTACTCATCTCTGAGCCTACCCCAGAAGGCAGATGTAAGGAACAGAAGAGCAATGCAGGCAACACACACAGCATGGATCTGAGTATGCAGAAGGTGCTCAATCGCATTCTACTTTGGTTTTTATTTTGTTTTGTTTCGTTTTGTTTGAGATGGAGTCTCACTCTGTCTCCCCGCTGGAGTGCAGTGGTGTGATCATAGCTCACTCAGCCTCGACCTTCTGGGTTCAGGCGATCCTCTCACTTCAGCCTCCTGAGTAGCTGGGTCTACAGGTCTACGCGCCACCACACTCGGCTACTTTTTTGTATTTTTGTAGAGACGGGGTTTCGCCATGTTGCCCAGGCTGGTCTCAAACTCCTGACCTCAAGTGATCTACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCACCCCACCCCACATCTGCTTTGTTTTTGAAAGGGAGCATAGGCCGGGCACAGTGGCTCACGCCTGCAATCCCAGCACTTTGGGAGGCTCAGCTGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAAAATGGCGAAGCCCCATCTGTACTAAAAATACAAAAATTAGCTGGGCATCATGGTGCACGCCTGTAATCCCAGCTCTTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCTGAGAGATGGAGGTTTCAGTGAGCGAGATTGTGCTGCTGCACTCCAGCCTGGGCGACAGAGCGAGACTTGGTCTAAAAAAAAAAAGTGACCTTACAACCTTTCCTATAAAGCCTCCTCGAGCCTTCCCCAGGATTCCATCTGGGAATCTGTGTTTCTGGAAGTTTGGAGCATCTGGAGAATCAGAAATTTGAACATCAGGAACTCAATAAGGAAATTTGATAATATAAAGGAATTGTTACCAATTTTGTCAGTGTAATAGAGGTATAAGTGCATGTTTTTAAGAGTCCTCTTTCAGAGATAAATATATATGATGTCTAAAATTTGCTTCAGAATAATCCAGTGGTAGGAAACAATGGTTGCAGGCGGAGGAGCTGAAGCAAGATGGTCGTGACTTGATCATTGTTGAAGCTGGGTAATGAGTACATGGGCAGCTGTTATACTGTCCCCTTTTCCTTCTGTATATGGTTGGAATTTTCCCTAGTGAAATGTTTTGTTTTTTTTTTTTGAGATGGAGTCTCCCTCTGTCGCCCAGGCTGGAGTGCAATGGAGCGGTCTTGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACACCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCGCCCACCACCACGCTCGGCTAATTTTTTGTATTTTTAGTAGACATGGGGTTTCACCGTGTTAGCCAGGATGGTCTCAATCTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACCACGCCTGGCCTAATTTTTGTATTTTAGTAGAGATGGGATTTCACCATGATGCCCAGACTGGTCTCAAACTCCTGACCTCAGGTGATCCACCTGCCTCGGTCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCATTTGGCCTAGAATGTTTATATTCACATGGGAAGTATCTAATAGGGAAAAATTGCAGGCATAAAAAAGAGAAGAGAAGTTTGCTGGAGGAGCGTCTTTGAAAAGGTGCAAGGGAGGTGGGGTGCGGTGGCTCACACCTGTAATCGCAGCACTTTGAGAGGCCAAGGCAGGTGGATCACCTGAGGTCAGGAGTTCTAGACCAGCCTGGCCAATATAGTGAAACCCTGTCTCTACAAAAAATACAAAAATGTGCCGGGTGTGGTGGCGCACGTCTATAATTCCAACTGCTGGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGTGGTGGAGGTTGCAGTGAGCCGAGACCGTACCACTGCACCACTGTACTCCAGCCTGGGCGACAGAGTGAGACTCTGTCTCAAAAAAAACAAAAAAACAAGACATAAGAAATGGTGCAGGGGCAGCACTCCAGCCTCCAGCGTGCCGGTGGAAGGTGACCTCAGAGACAAGTCCAACTAGACCATCCCTAGGAACGAGAGGAAGGCAGGGACTGGGCATGAGGTGCAGGGAGGGAAGGCACCTGCATTCATCAGTCCCCTTCGGTGTGGTAGGCAGGGGCCGAGAAGCCTTTCACACCTTGGGATATGCTGTTACTTTTCATCACCCAGCATCCATTGAGGTAGACCCTGATTTTCTCCCTAATTACATCAGAAGCTCAGAGAGGTTTAGTGACTTGACCAAAGTCAAACAGCCAGTAAGGAGAGGAGCCCGTGGGCTGGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGAGGGTGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCATCATGGTAAAACCCCTTCTCTACTAAAAATACAAAAATTAGCCGGCCATGATGGTGGGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCTGGCAGGCGGAGATTGCAGTAAGCCAAGATCACGTCACTGCACTCCGACCTGGGCAATAGATCGAGACTCAGTCTCAAAAAAAAAAAAAGGAGAGGAGCTAGTGTTTGAACCCACCTCTGTCTTGCTCCAGACTCTGTGCTGCCCAGGGATTGGTCTGCCTGTGAGGCCTACCCAGGAGTAGAGACTAGAGGGGCGGCGGCATTGAGGAGTTGGCCCTCATGCAGACGAAGCTCTGGTCATTGAACTGTGGGCTTATGGTGTCCAGAGACACTCTAGGAGACTGTGGCTTCCTTACCCAGCCAGCTGAGTGTGCCCACATCAGTGTCCACTGCATGAGAGGCTGGCCCTGGCCTGGTTCCCTGGGTAGCCGCCATGAGCACTGTGCATGCGGACCCTGTCTTGCATCTCCAGCAGGACAAGGACAATGGGATGTGTAGCATGGATTTCATTTCCCCCTCCTTGGTTCTAGGTTCTGGGTTCAGGCGATCTCTCACTTCAGCCTCCTGAGTAGCTGGGTCTGCAGGTCTACGCACCACCACGCTCGGCTACTTTTTTGTATTTTTGTAGAGACGGGGTTTCGCCATGTTGCCCAGGCTGGTCTCAAACTCCTGACCTCAAGTGACCTACCCGCCTCAGGACAGTTCTTTATCCTCCCAATCAGAGTCCAGTTGCGAATGTTGCTTTCTTGTTTTGGGGGTTGAGCAGGGCTGAATGCCTTCCAAAGTTGAAGCAAACAACCAGTATCACCAGTGCAGGCTGAGAGAAAATGCACCCTAGTTACCGCAGAAACGCTCATCTGAGTAAAGGCAGCCACTACAAATCCCTGGGTGGAAATAGCCAGGGAGAGAAGCGGGGAAGAGAGGGGCAGGTCACACTTGGCGATGGCCCTTCGCTCCTCTCACCTTGTCTGTGGCAGATGAAACACTGGCTCCTTCCACCGGCAGTTGGAGTAAAGATACTTGATGCTTCTTCTCCTTCAGTTGTTACTTGAAAGAGGCGGGTCCTCCCACCCATTCCTTTATCTCCAGGAAGGCTGCTCCTCTCCGGCATTGTTGGTTCCACCATCCAGGGACCTGAACCACTGGCCCCCAGGCAGGCATTGGGCTTTTGAATTCTGCTCTAATTAGCGTCTCCCAAAGCCCCAGGTCCAGAATGGACTACCTGAGGCTGGCTGCCCTGCTTGCACTTCCTCGCTTGGGTTCTGTGTGGCAGCGGTGGCTGAACTCCCCTGTCGTGCAGATGGCAGCTGGTAGCAAAAGGTGAAACCGGGCCGGAGGTGGGGAGCAAGCCACACCTGCCAACTTGCTGTCCTCCCATTCCCAACTCCGGGCCCAGCATCTCAGGCCCAGTTTCATGTTGAGTTGTGCTAACTCTGTCCCTGTACCTCAAGCAAACTAGGCTAGTCCTCTGAAGGCCACTGAGTGGTTCCCACTGTTACCAGGCTGGGCTTGTCCAGGCTGCTGAGTGCAGCTTTCAACGTAGATATATATGCACATGAGAGCCAAGGCAGAATGCAGGTGCAGAGACCCAGCCCTGCTTCTGAGGCTCCCTGGGCTGACTGATGACCCTCCTAACCACTGCTGCATTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCTGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGTCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTAGCCAGGATGGTCTGGATCTCCTGACCTCGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACTGCTGCATATTCTAGCAGCCGAGCTATAGTTCATTTCTGTGAGCTCCTGAGACACCTTAGCTTGTCTCAGCCCTCTGGATCGTTTCTCTAATCCCTGCCCCGCTCAGGTCACCTGCTGCTGCCCTAAGCAGAGCCCACATGCGCCCCCTAGTGGTGGGAAACCAAACGATTCCACAGATCCTGTTTGTTGAGGGAGGAGGTGAAACGAGATGCCCACGGGCGACCCAGCCTTCCTGGGTTTTGTGAATTCTGATTCACACCTAGATTGGAGAGACTCTCTGGCATCATCTCATGATGGGAACCCTAGTGCTGGTCACCCACTCAATTATTATAATTAATTTTGCATTCATAATATATTTAACTGGTTCAAAAATCAAAACCATATAAAAAGGATACAGTGGGGCCGGGCACATTGGCTCACACCTGTAATCCCAGCACCTTGGAAGGCTGAGACGGGCAGATTGCTTGAGCTCAGGAGTTCGAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCTACTAAAAATTTTTAAAAATTAGCCAGGCATGGTAGTGCACGCCTGCAGTCCCAGCTACTCAGCAGGCTGAGGTAGGAGGATCACTTGAGCCTGGGAGGCAGAGGTTACGGTGAACAGAGATTGTGCCCACTGCAGTCCAGCCTGGGTGACAGACTGAGACTCTGTCTTTAAAAAAAAAAGCGTGCAGTGAAAAGTCTCACTCCTTTCTCTGCTCTTATTCACCCACTTCCTGTCTATGTACGAGTCCCACACAGGTAACCACTTTTGTTTCTCATGCATCCTTCTAGAGGTTTTCTTATGTTGGTTTTTTGTTTGTTTGGTTGTTTTTTGAGACAGGGTTTCATTCTGTCACCCAGGCTGGAGTGCAATGGTGCAATCTCAGCTCACTGCAACCTCCTGGGCTGGGCTCAAGCAATCCTCCCACCTCCACCTCCTGAGTAGCTAGAATACAGGCTCATGTCACCACACCCAGCTAGTTTTTAAATTTTTTGTAGAGATGGGGTCTCCCTGTGTTGCCTAGGCTGGTCTCAAACTTCTGGGCTCAAGTGATCTTCCCACCTTGGCCTCCCAAACTGTTGGGACTATAGATGTGAGCCACTGCACCTGACCTAGAGTTTTTTTGTTTGTTTTTTAGTAGAGACGGGGTTTCACTATGTTACCCAGGATAGTCTCAATCTCCTGACCTCGTGACCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCCAAGTTTTTTATACTAATAAAAAAGATTGTATTCTTTGTTCACACCTCCCTTTTTGTAATTAAAAGGTGTCATGCAATTATACCATTCTGCATCTTGCTGTTGGCGAGCTTTCCATTATTCATTCCTAGAGAGCATCCTCATTCTTTTTCAGAGTTGCATGATATTCTGCTAGAGATGTACCATATTTACTTCACCTGTCCCCTATTGATGGGCATGTGGATGACTTCCAGTCTTTTGCTGTTATAACTAAATAATCACGCAGTTATATCTGTAGGACGGATTCTCAGAAGAGGGGTTACTGGATCAGAGGTTATTTGCAGCATTAGTGGAGAGGGCCATATTGCGTCTATACGGGTTGCAGCATCTTGCCTACCTACCAGCAATATATGAATGGATTCAGCAGCTCCCCACGTCCCTTCCATCTGTGTCTTCCTGGCGTCTCCTCTACTCTAAATTGGGTCTCTTGGAATGGTGAAATCAGTGTGTAAGGGTTGGGGGCAGGGACCCTATATCTTAGAATGGTGGAATCGGGGTGTAAGCGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGCGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTAGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTAGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGAGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGCAGGGGCCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGACCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGATTGGGGAAGGGATCCCATATCTTAGAATGGTGGAATCGGGGTGTAAGGGTTGGGGGAAGGGACCCCATATCTTAGAATGGTGGAATTGGGGTGTAAGGGTTAGGGAAGGGACCCCATATCTTAGAATGGTGGAATTGGGGTGTAAGGGTTGGGGTGCCCATAGGATTCCATCAGCATCTGTGGTCTCCAGCCGTGTGTAGCATTTGTTAGGCTGCAGAACTTGATGGCTTTGAGGTCACATCGGGGCTGGTGAAGGGAGCCCCAGGGCTAGTCTGGGTCTGTAG";
// Allocate MM
mm_allocator_t* const mm_allocator = mm_allocator_new(BUFFER_SIZE_8M);
// Set parameters
affine_penalties_t affine_penalties = {
.match = 0,
.mismatch = 4,
.gap_opening = 6,
.gap_extension = 2,
};
const int min_wavefront_length = 10;
const int max_distance_threshold = 50;
// Init Affine-WFA
affine_wavefronts_t* affine_wavefronts = affine_wavefronts_new_reduced(
strlen(pattern),strlen(text),&affine_penalties,
min_wavefront_length,max_distance_threshold,NULL,mm_allocator);
// Align
affine_wavefronts_align(
affine_wavefronts,pattern,strlen(pattern),text,strlen(text));
// Count mismatches, deletions, and insertions
int i, mc=0, misms=0, ins=0, del=0;
edit_cigar_t* const edit_cigar = &affine_wavefronts->edit_cigar;
for (i=edit_cigar->begin_offset;i<edit_cigar->end_offset;++i) {
switch (edit_cigar->operations[i]) {
case 'M': ++mc; break;
case 'X': ++misms; break;
case 'D': ++del; break;
case 'I': ++ins; break;
}
}
fprintf(stderr,
"s0 len: %ld, s1 len: %ld "
"Alignment contains %d matches %d mismatches, %d insertions, "
"and %d deletions\n",strlen(pattern), strlen(text), mc, misms,ins,del);
// Free
affine_wavefronts_delete(affine_wavefronts);
mm_allocator_delete(mm_allocator);
}
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment