Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023870.1 Corchorus olitorius cultivar O-4 contig23903, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61320
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:1594 original size:321 final size:321
Alignment explanation
Indices: 875--3706 Score: 2855
Period size: 321 Copynumber: 8.9 Consensus size: 321
865 ATTTTCCTTA
* * * * * * * * *
875 AATTTTTTGCCACACTACTTAGAAAAAATATATAATACAACGCCAAAAATATTAAAG-GTTTTTT
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTG-ATTTT
* * * * * * * * * * *
939 CACGCTTCT-TATACCATTTTGCCAACTTTTTCCCGAATTAATTTATAAATAAATCGAAACAAGA
65 CACGATTATAAATATCGTTTT-CCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGA
* * * * * *
1003 TTCAGATGCTCGTAAAAGCAAATTCTTATATCGAATGTAGCTGAGATTTTGTTAGATCAATATAG
129 TTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAG
* *
1068 AAATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACACGTTTTT
194 AAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTT
* * * *
1133 AGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA--AAACAAAGAATTTTTTTTTC
259 AGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCGAA-AATTTTTTTCTC
*
1195 AATTTTTTTCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
* * * * *
1260 ACAATTCTAAATATCGTTTTCCCATATTTTTTTCGAATTAATTTCTAATTAAATCGATATAGGAT
66 ACGATTATAAATATCGTTTTCCCAT-TTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGAT
* * * *
1325 TCAGATACTCGT-AAAATAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGA
130 TCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGA
* *
1389 AATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCATTTTTA
195 AATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTA
* * *
1454 GCCAAAAACCGTGATGGTTAGTACACGATTTCGTCTAAAAACTTACCGGAAAA-TTTTTTATC
260 GCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACC-GAAAATTTTTTTCTC
* *
1516 AATTTTTTGCAACAATATTGAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
1581 ACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
66 ACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
1646 CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAA
131 CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAA
1711 ATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG
196 ATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG
1776 CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAA-TTTTTTCTC
261 CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA-CCGAAAATTTTTTTCTC
1837 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
* *
1902 ACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATT
66 ACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
*
1967 CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATCAATATAGAA
131 CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAA
* *
2032 ATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACATGC-ATTTT
196 ATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAAC--GCGTTTTT
* *
2096 AGTCAAAAACCGTGATGGTTAGTACACGATTTCGTCTAAAAACTGACTCGAAAATTTTTTTCTC
259 AGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC-CGAAAATTTTTTTCTC
*
2160 AAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTT
1 -AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTT
*
2225 CACGATTATAAATATCGTTTTCCCATTTTTTTCCGAACTAATTTCTAATTAAATCGATACAAGAT
65 CACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGAT
* *
2290 TCATATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTACATGAATATAGA
130 TCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGA
* * ** *
2355 AATTTAAATGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTA
195 AATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTA
* ** * * **
2420 TCCAAAAACCACGATGGTTAGTACACGATTT-GGACTAATATA-TGACCCGAAAAATTTTAACTC
260 GCCAAAAACCGTGATGGTTAGTACACGATTTCGG-CTAA-AAACTGA-CCGAAAATTTTTTTCTC
* * * * *** * * ** **
2483 AA-TTTTT-CCACGACGTAGTCGGTTCAAATCAGAT--TCCGGAA-ATGTATTATAATAG-TAAA
1 AATTTTTTGCAAC-A-ATACTCAGAAAAAAT-ATATAATTC--AACA-CCA--A-AA-AGATTGA
** * * * ** *** ** * **
2542 CCCGA-TTT-ACGGTT-TGAA-A--GTTATGGCATTTTTAAGTT--GACCCACCTGC--AGGAAC
56 CGTGATTTTCACGATTATAAATATCGTTTTCCCATTTTT---TTCCGAATTAATTTCTAATTAA-
* *** * * * * ** * * * *** **
2597 TTCAGGCCCAAAATCCA-A-A-ACGT---TAC-ACGCCCT-T-TCGAACG-GTCTTCTA-ACGGT
117 ATC-GATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGT
* * * * * * ** * ** ** *** * **
2651 CCATACG-ATCTATATATGAT-A-TA-TCTATCT-CATCC-GCATCATGC-GTTTTTAGCCAGAA
181 -TAGATGAATATAGAAATTTTAAGGAGTCT-T-TGCGCCCAAAATCATGCAAAATTGAGCC-GGG
*** ** * * * *** * * *** * * **
2709 AAACGTTATG-GTTTATA-CACGATTTCGGCTAAACTTTTGCA-AAAATTGATC--CTAAAAA-T
242 CTCCGGAACGCGTTTTTAGC-CAAAAACCG-TGATGGTTAGTACACGATT--TCGGCTAAAAACT
** **
2768 TTCC-TTAATTTTTTTGCT-
303 GACCGAAAATTTTTTT-CTC
* * * * * * *
2786 -A-------C-ACAAT--TTAGAAAAAATATACAATACAACGCCAAAAAGATTAAAG-GTTTTTT
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTG-ATTTT
* * * * * * *
2839 CACGCTTCT-AATATCATTTTTCCAACTTTTTTCCGAATTAATTTATAATTAAATCGAAACAAGA
65 CACGATTATAAATATC-GTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGA
* * * *
2903 TTCAGATGCTCGTAAAACCAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAG
129 TTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAG
* * * * * ** *
2968 ATATTTCAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGGCTGGCTTTGAAACGCGTTTTT
194 AAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTT
* * *
3033 AGCCAAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAACTTTTTTCTC
259 AGCC-AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA-CCGAAAATTTTTTTCTC
*
3098 AA-TTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTC
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
* * *
3162 ACGATTCTAAATATCGTTTTCCCATTTTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATT
66 ACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
* * *
3227 CAGATACTCGTAAAAACAAACCCTTATATCGAGTGTGGCTGAGATTTGGTTAGATAAATATAGAA
131 CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAA
* * *
3292 ATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAAATTGAGCAGGGCTCCGGAACGCATTTTTAG
196 ATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG
* * * *
3357 CCAAAAACCGTGATGGTTAGTACACGATTTCGTCTAAAAACTGACCCAAAAATTTTTTATC
261 CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCGAAAATTTTTTTCTC
*
3418 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACA-CAAAAAGATTGACGTGATTTCC
1 AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
* * * *
3482 ACTAATATAAATATCGTTTTCCCATTTTTTTCCGAACTAATTTCTAATTAAAACGATACAAGATT
66 ACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
* * * *
3547 CAGATACTCGTAAAAACAAATCCTTTTATCGAATGTGGCTAAGATTTGGTTACATGAATATAGAT
131 CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAA
* * * *
3612 ATTTCAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCTGGAACGCGTTTTTAT
196 ATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG
* *
3677 CCAAAAACTGTTATGGTTAGTACACGATTT
261 CCAAAAACCGTGATGGTTAGTACACGATTT
3707 GGGCAAATAT
Statistics
Matches: 2060, Mismatches: 353, Indels: 198
0.79 0.14 0.08
Matches are distributed among these distances:
287 3 0.00
288 5 0.00
289 4 0.00
290 7 0.00
291 9 0.00
292 6 0.00
293 14 0.01
294 12 0.01
295 4 0.00
296 5 0.00
297 1 0.00
299 1 0.00
300 4 0.00
302 6 0.00
303 13 0.01
304 15 0.01
305 6 0.00
306 28 0.01
307 34 0.02
308 23 0.01
309 17 0.01
310 11 0.01
311 11 0.01
312 14 0.01
313 2 0.00
314 4 0.00
315 2 0.00
318 3 0.00
319 5 0.00
320 514 0.25
321 657 0.32
322 279 0.14
323 83 0.04
324 245 0.12
325 4 0.00
326 7 0.00
327 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (321 bp):
AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
ACGATTATAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAA
ATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG
CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCGAAAATTTTTTTCTC
Found at i:3363 original size:322 final size:320
Alignment explanation
Indices: 2795--5687 Score: 2540
Period size: 322 Copynumber: 9.1 Consensus size: 320
2785 TACACAATTT
* * * * * * *
2795 AGAAAAAATATACAATACAACGCCAAAAAGATTAAAG-GTTTTTTCACGCTTCT-AATATCATTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTG-ATTTTCACGATTCTAAATATC-GTT
* * * * * *
2858 TTCCAACTTTTTTCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCGTAAAACCA
64 TTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACA
* *
2923 AATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGC
129 AATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGC
* * *
2988 ACCCAAAATCATGCAAAATTGAGGCTGGCTTTGAAACGCGTTTTTAGCCAAAAAACTGTGATGGT
194 ACCCAAAATCATGCAAAATTGA-GCGGGCTCTGGAACGCGTTTTTAGCC-AAAAACTGTGATGGT
* *
3053 TAGTACACGATTTCAG-CTAAAAACTGACCCGAAAACTTTTTTCTCAA-TTTTTGCAACAATACT
257 TAGTACACGATTTC-GTCTAAAAACTGACCC-AAAAATTTTTTATCAATTTTTTGCAACAATACT
3116 C
320 C
3117 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
* *
3182 CCCATTTTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACAAA
66 CCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAA
* * * * * * *
3247 CCCTTATATCGAGTGTGGCTGAGATTTGGTTAGATAAATATAGAAATTTTAAGGCGTCTTTGCGC
131 TCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCAC
* * *
3312 CCAAAATCATGCAAAATTGAGCAGGGCTCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAG
196 CCAAAATCATGCAAAATTGAGC-GGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAG
3377 TACACGATTTCGTCTAAAAACTGACCCAAAAATTTTTTATCAATTTTTTGCAACAATACTC
260 TACACGATTTCGTCTAAAAACTGACCCAAAAATTTTTTATCAATTTTTTGCAACAATACTC
* * * * *
3438 AGAAAAAATATATAATTCAACA-CAAAAAGATTGACGTGATTTCCACTAATATAAATATCGTTTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
* *
3502 CCCATTTTTTTCCGAACTAATTTCTAATTAAAACGATACAAGATTCAGATACTCGTAAAAACAAA
66 CCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAA
* * *
3567 TCCTTTTATCGAATGTGGCTAAGATTTGGTTACATGAATATAGATATTTCAAGGAGTCTTTGCAC
131 TCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCAC
* *
3632 CCAAAATCATGCAAAATTGAGCCGGGCTCTGGAACGCGTTTTTATCCAAAAACTGTTATGGTTAG
196 CCAAAATCATGCAAAATTGAG-CGGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAG
* * ** * * * *
3697 TACACGATTTGGGC-AAATATA-TGACCCGAAAAA-TTTAAACTCAA--TTTTACCACGACGTAG
260 TACACGATTTCGTCTAAA-A-ACTGACCC-AAAAATTTTTTA-TCAATTTTTTGCAAC-A-ATAC
3757 TC
319 TC
* *** *** * ** * * * ** * * *
3759 GGTTCAAATCAGT-TTCCTGAA-AGGTATTATAGTAGTAAACCCGA-TAT-ACGGTT-TGAA-A-
1 AGAAAAAAT-A-TATAATTCAACA-CCA-AAAAG-A-TTAACGTGATTTTCACGATTCTAAATAT
* ** * **** * ** * *** * * *
3817 -GTTATGGCA--TTTTT--AAATTGACCCACCTGCAGGAACTTCAGGCCCAAAATCCA-A-A-AC
60 CGTTTTCCCATTTTTTTCCGAATT-A-ATTTCT-AATTAA-ATC-GATACAAGATTCAGATACTC
* * ** ** * * * * * ** ** * * **
3874 GT-TACACGCCAT--TTCGAACGGACTTCTGACGGTCCATACGATCTATATGATGATATATCTAT
120 GTAAAAAC-AAATCCTTATATC-GA-ATGTGGCTG-AGATTTGGT-TAGATGA--ATATAGATAT
* * ** * ** * * * *
3936 CTCAACCGCA-TCACGCGTTTTTAGCCAAAA--AT---ACGTT-A--TGG-T-T-TATACACGAT
178 TTCAA--GGAGT----C-TTTGCACCCAAAATCATGCAAAATTGAGCGGGCTCTGGA-ACGCGTT
* * ** * * *** * *
3989 TTT-GGCTAAAA---T--T--TT-G--CAAAAATT-GATCCGAAAAA-TTTTCCATAATTTTTTT
235 TTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCG-T-CTAAAAACTGACCCAAAAATTTTTT
** ** *
4041 GCCACACAATTTAG-AA-AA-A---
298 ATCA-A-TTTTTTGCAACAATACTC
* * ** * * * * * * *
4060 A-AATATACA-ATACAACGCCAGA-AAG----ATTAAAG-GATTTTTCACGCTTCT-AATATCAT
1 AGAA-A-AAATATATAATTCAACACCAAAAAGATTAACGTGA-TTTTCACGATTCTAAATATC-G
* * * * **
4116 TTTTCCAACTTTTTTCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGACGCTCGTAAAAA
62 TTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAA
* * *
4181 CAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGTCTTT
127 CAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT
* * * * *
4246 GCACCCAAAATCATGTAAAATTGAGCCTGGCTCCGAAACGCGTTTTTAGCCTAAAAACCGTGATG
192 GCACCCAAAATCATGCAAAATTGAG-CGGGCTCTGGAACGCGTTTTTAGCC-AAAAACTGTGATG
* * * * * * *
4311 ATAAGAACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATCTTTTGCAACAATAC
255 GTTAGTACACGATTTCGTCTAAAAACTGACCC-AAAAATTTTTTATCAATTTTTTGCAACAATAC
4376 TC
319 TC
* * * *
4378 AGAAAAAATATATATTTCAACGCCAAAAAGATTGACGTGATTTTCACGCTTCTAAATATCGTTTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
* * * * *
4443 CCCATTTTTTTTCCGAATCAATTTCTAA-AATAATCGAAACAAAATTCATATACTCGTAAAAACA
66 CCCA-TTTTTTTCCGAATTAATTTCTAATTA-AATCGATACAAGATTCAGATACTCGTAAAAACA
* * * * *
4507 AGTCCTTATATCGAATGTGGCTGAGAATTT-GTAAGATGAATAAAGATATTTCAAGGAGTATGTG
129 AATCCTTATATCGAATGTGGCTGAG-ATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTG
* * * * *
4571 CGCCAAAAATCATGC-AAATTGAGCCGGGCTCCGGAACTCGTTTTTAGCCAAAAACCGTGATGGT
193 CACCCAAAATCATGCAAAATTGAG-CGGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGT
*
4635 TAGTACACGATTTCGTCTAAAAACTGACCCAAAAAATTTTTTCTCAATTTTTTGCAACAATACTC
257 TAGTACACGATTTCGTCTAAAAACTGACCC-AAAAATTTTTTATCAATTTTTTGCAACAATACTC
* * *
4700 AGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTGTAAATTTCGTTTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
*
4765 CCCATTTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGAGACTCGTAAAAACAA
66 CCCA-TTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAA
* * * * * *
4830 ATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGCG
130 ATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCA
* *
4895 CCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
195 CCCAAAATCATGCAAAATTGAG-CGGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTA
* * * * * *
4960 -TACACGATTTCGGCTAAAAATTGACCGAAAATTTTTTTCTCAATTTTTTGCAACAATACTA
259 GTACACGATTTCGTCTAAAAACTGACCCAAAAATTTTTTATCAATTTTTTGCAACAATACTC
*
5021 AGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
*
5086 CCCATATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACA
66 CCC--ATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACA
* * * * *
5151 AATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGC
129 AATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGC
* * *
5216 GCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT
194 ACCCAAAATCATGCAAAATTGAG-CGGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGTT
*
5281 AGTACACGATTTCGTCTAAAAACTGACCCGAAAAATTTTTTCTCAATTTTTTGCAACAATACTC
258 AGTACACGATTTCGTCTAAAAACTGACCC-AAAAATTTTTTATCAATTTTTTGCAACAATACTC
*
5345 AGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTT
1 AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
*
5410 CCCATTTCTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACAA
66 CCCATTT-TTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAA
* * * * * *
5475 ATCCTTATCTGGAATGTGGTTGAGATTTGGTTAGATCAATATAGAAATTTTAAGGAGTCTTTGCA
130 ATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCA
* * * * *
5540 TCCAAAATCATGCAGAATTGAGCCGGGCTCCGGAAGGCGTTTTTAGCCAAAAACCGTGA----T-
195 CCCAAAATCATGCAAAATTGAG-CGGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTA
* * * ** * *
5600 GTACACGATTTCAG-CTAAAAATTGACGCGAATTTTTTTTTTCAATTTTTTGAAACAATACTC
259 GTACACGATTTC-GTCTAAAAACTGACCCAAAAATTTTTTATCAATTTTTTGCAACAATACTC
5662 AGAAAAAATATATAATTCAACACCAA
1 AGAAAAAATATATAATTCAACACCAA
5688 GGAGTCTTTG
Statistics
Matches: 2105, Mismatches: 342, Indels: 253
0.78 0.13 0.09
Matches are distributed among these distances:
290 10 0.00
291 3 0.00
292 5 0.00
293 3 0.00
294 9 0.00
295 6 0.00
296 12 0.01
297 8 0.00
298 13 0.01
299 12 0.01
300 20 0.01
301 14 0.01
302 13 0.01
303 4 0.00
304 1 0.00
305 6 0.00
306 15 0.01
307 2 0.00
308 6 0.00
309 5 0.00
310 1 0.00
311 2 0.00
312 10 0.00
313 12 0.01
314 15 0.01
315 1 0.00
316 13 0.01
317 72 0.03
318 49 0.02
319 25 0.01
320 264 0.13
321 214 0.10
322 688 0.33
323 320 0.15
324 228 0.11
325 6 0.00
326 7 0.00
327 1 0.00
328 10 0.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (320 bp):
AGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGATTCTAAATATCGTTTT
CCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAA
TCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCAC
CCAAAATCATGCAAAATTGAGCGGGCTCTGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGT
ACACGATTTCGTCTAAAAACTGACCCAAAAATTTTTTATCAATTTTTTGCAACAATACTC
Found at i:5337 original size:645 final size:642
Alignment explanation
Indices: 4057--5687 Score: 2497
Period size: 645 Copynumber: 2.5 Consensus size: 642
4047 CAATTTAGAA
* * * * * * * * *
4057 AAAAAATATACAATACAACGCCAGAAAGATTAAAG-GATTTTTCACGCTTCT-AATATCATTTTT
1 AAAAAATATATAATTCAACACCAAAAAGATTGACGTGA-TTTTCACGATTCTAAATATCGTTTTC
** * *
4120 CCAACTTTTTTCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGACG-CTCGTAAAAACAA
65 CCATTTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGA-GACTCGTAAAAACAA
* ** *
4184 ATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGTCTTTGCA
129 ATCCTTATATGGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGAGTCTTTGCA
* * * *
4249 CCCAAAATCATGTAAAATTGAGCCTGGCTCCGAAACGCGTTTTTAGCCTAAAAACCGTGATGATA
194 CCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCC-AAAAACCGTGATGGT-
* * *
4314 AGAACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATCTTTTGCAACAATACTCA
257 A-TACACGATTTCGGCTAAAAATTGA-CCGAAAATTTTTTTCTCAATTTTTTGCAACAATACTCA
* * *
4379 GAAAAAATATATATTTCAACGCCAAAAAGATTGACGTGATTTTCACGCTTCTAAATATCGTTTTC
320 GAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTC
* *
4444 CCATTTTTTTTCCGAATCAATTTCTAAAATAATCGAAACAAAATTCATATACTCGTAAAAACAAG
385 CCATTTTTTTTCCGAATCAATTTCTAAAATAATCGAAACAAAATTCAGATACTCGTAAAAACAAA
* * * *
4509 TCCTTATATCGAATGTGGCTGAGAATTTGTAAGATGAATAAAGATATTTCAAGGAGTATGTGCGC
450 TCCTTATATCGAATGTGGCTAAGAATTTGTAACATGAATAAAGAAATTTAAAGGAGTATGTGCGC
*
4574 CAAAAATCATGCAAATTGAGCCGGGCTCCGGAACTCGTTTTTAGCCAAAAACCGTGATGGTTAGT
515 CAAAAATCATGCAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
4639 ACACGATTTCGTCTAAAAACTGACCCAAAAAATTTTTTCTCAATTTTTTGCAACAATACTCAG
580 ACACGATTTCGTCTAAAAACTGACCCAAAAAATTTTTTCTCAATTTTTTGCAACAATACTCAG
* *
4702 AAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTGTAAATTTCGTTTTCC
1 AAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCC
4767 CATTTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGAGACTCGTAAAAACAAAT
66 CATTTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGAGACTCGTAAAAACAAAT
* * * *
4832 CCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGCGCC
131 CCTTATATGGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGAGTCTTTGCACC
4897 CAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTATA
196 CAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGG-TATA
*
4962 CACGATTTCGGCTAAAAATTGACCGAAAATTTTTTTCTCAATTTTTTGCAACAATACTAAGAAAA
260 CACGATTTCGGCTAAAAATTGACCGAAAATTTTTTTCTCAATTTTTTGCAACAATACTCAGAAAA
5027 AATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCCCATA
325 AATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCCCAT-
* * * **
5092 TTTTTTTCCGAATTAATTTCT-AATTAAATCGATACAGGATTCAGATACTCGTAAAAACAAATCC
389 TTTTTTTCCGAATCAATTTCTAAAAT-AATCGAAACAAAATTCAGATACTCGTAAAAACAAATCC
* * * * * *
5156 TTATATGGAATGTGGCTAAG-ATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGCGCCC
453 TTATATCGAATGTGGCTAAGAATTT-GTAACATGAATAAAGAAATTTAAAGGAGTATGTGCGCCA
5220 AAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
517 AAAATCATGC-AAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
*
5285 CACGATTTCGTCTAAAAACTGACCCGAAAAATTTTTTCTCAATTTTTTGCAACAATACTCAG
581 CACGATTTCGTCTAAAAACTGACCCAAAAAATTTTTTCTCAATTTTTTGCAACAATACTCAG
5347 AAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCC
1 AAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCC
* * *
5412 CATTTCTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACAAAT
66 CATTTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGAGACTCGTAAAAACAAAT
* * * *
5477 CCTTATCTGGAATGTGGTTGAGATTTGGTTAGATCAATATAGAAATTTTAAGGAGTCTTTGCATC
131 CCTTATATGGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGAGTCTTTGCACC
* *
5542 CAAAATCATGCAGAATTGAGCCGGGCTCCGGAAGGCGTTTTTAGCCAAAAACCGTGAT-G--TAC
196 CAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTATAC
* * * *
5604 ACGATTTCAGCTAAAAATTGACGCG-AATTTTTTTTTTCAATTTTTTGAAACAATACTCAGAAAA
261 ACGATTTCGGCTAAAAATTGAC-CGAAAATTTTTTTCTCAATTTTTTGCAACAATACTCAGAAAA
5668 AATATATAATTCAACACCAA
325 AATATATAATTCAACACCAA
5688 GGAGTCTTTG
Statistics
Matches: 904, Mismatches: 73, Indels: 22
0.90 0.07 0.02
Matches are distributed among these distances:
641 79 0.09
642 2 0.00
643 109 0.12
644 135 0.15
645 407 0.45
646 172 0.19
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (642 bp):
AAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCC
CATTTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGAGACTCGTAAAAACAAAT
CCTTATATGGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGAGTCTTTGCACC
CAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTATAC
ACGATTTCGGCTAAAAATTGACCGAAAATTTTTTTCTCAATTTTTTGCAACAATACTCAGAAAAA
ATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCCCATTT
TTTTTCCGAATCAATTTCTAAAATAATCGAAACAAAATTCAGATACTCGTAAAAACAAATCCTTA
TATCGAATGTGGCTAAGAATTTGTAACATGAATAAAGAAATTTAAAGGAGTATGTGCGCCAAAAA
TCATGCAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
TTTCGTCTAAAAACTGACCCAAAAAATTTTTTCTCAATTTTTTGCAACAATACTCAG
Found at i:5845 original size:158 final size:155
Alignment explanation
Indices: 5526--5845 Score: 412
Period size: 160 Copynumber: 2.0 Consensus size: 155
5516 TAGAAATTTT
* * * *
5526 AAGGAGTCTTTGCATCCAAAATCATGCAGAATTGAGCCGGGCTCCGGAAGGCGTTTTTAGCCAAA
1 AAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCAGGCTCCGGAACGCG----T-GCCAAA
* * * *
5591 AACCGTGATGTACACGATTTCAGCTAAAAATTGACGCGAATTTTTTTTTTCAATTTTTTGAAACA
61 AACCGTGATGTACAAGATTTCAGCTAAAAACTGACGCGAAATTTTTTTCTCAATTTTTTGAAACA
5656 ATACTCAGAAAAAATATATAATTCAACACC
126 ATACTCAGAAAAAATATATAATTCAACACC
* *
5686 AAGGAGTCTTTGCGCCCAAAATCTTGCAAAATTGAGCCAGGCTCCGGAACGCG-GCCAAAAACCG
1 AAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCAGGCTCCGGAACGCGTGCCAAAAACCG
* *
5750 TGATGGTTAGTACAAGATTTCGGCTAAAAACTGA-GCCGAAATTTTTTTCTCAA-TTTTTGCAAC
66 TGA----T-GTACAAGATTTCAGCTAAAAACTGACG-CGAAATTTTTTTCTCAATTTTTTGAAAC
5813 AATACTCAGAAAAAATATATAATTCAACACC
125 AATACTCAGAAAAAATATATAATTCAACACC
5844 AA
1 AA
5846 AAGATTGACG
Statistics
Matches: 142, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
154 14 0.10
158 44 0.31
159 37 0.26
160 47 0.33
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (155 bp):
AAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCAGGCTCCGGAACGCGTGCCAAAAACCG
TGATGTACAAGATTTCAGCTAAAAACTGACGCGAAATTTTTTTCTCAATTTTTTGAAACAATACT
CAGAAAAAATATATAATTCAACACC
Found at i:6033 original size:797 final size:797
Alignment explanation
Indices: 4881--6481 Score: 2617
Period size: 797 Copynumber: 2.0 Consensus size: 797
4871 TAGAAATTTA
*
4881 AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAA
1 AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGGCTCCGGAACGCG----T-GCCAAA
* *
4946 AACCGTGATGGTTATACACGATTTCGGCTAAAAATTGACCGAAAATTTTTTTCTCAATTTTTTGC
61 AACCGTGATGGTTATACAAGATTTCGGCTAAAAACTGACCGAAAATTTTTTTCTCAATTTTTTGC
5011 AACAATACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAA
126 AACAATACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAA
*
5076 ATATCGTTTTCCCATATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACT
191 ATATCGTTTTCCCATATTCTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACT
5141 CGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAG
256 CGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAG
**
5206 GAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAAC
321 GAGTCAGTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG-TTTTAGCCAAAAAC
*
5271 CGTGATGGTTAGTACACGATTTCGTCTAAAAACTGACCCGAAAAATTTTTTCTCAATTTTTTGCA
385 CGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAA-TTTTTCTCAATTTTTTGCA
*
5336 ACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAA
449 ACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGAATTTCACGATTCTAAA
5401 TATCGTTTTCCCATTTCTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCG
514 TATCGTTTTCCCA--T-TTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCG
* * * * * *
5466 TAAAAACAAATCCTTATCTGGAATGTGGTTGAGATTTGGTTAGATCAATATAGAAATTTTAAGGA
576 TAAAAACAAATCCTTATATGAAATGTGGCTAAGATTTGGTTACATCAATATAGAAATTTAAAGGA
* * * *
5531 GTCTTTGCATCCAAAATCATGCAGAATTGAGCCGGGCTCCGGAAGGCGTTTTTAGCCAAAAACCG
641 GTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCG
* * * ** ** * *
5596 TGA-T-GTACACGATTTCAG-CTAAAAATTGACGCG-AATTTTTTTTTTCAATTTTTTGAAACAA
706 TGAGTAGTACACGATTTC-GTCTAAAAACTAACCCGAAAAATTTTTCCTCAACTTTTGGAAACAA
5657 TACTCAGAAAAAATATATAATTCAACACC
770 TACTCA-AAAAAATATATAATTCAACACC
*
5686 AAGGAGTCTTTGCGCCCAAAATCTTGCAAAATTGAGCCAGGCTCCGGAACGCG-GCCAAAAACCG
1 AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGGCTCCGGAACGCGTGCCAAAAACCG
5750 TGATGGTTAGTACAAGATTTCGGCTAAAAACTGAGCCG-AAATTTTTTTCTCAA-TTTTTGCAAC
66 TGATGGTTA-TACAAGATTTCGGCTAAAAACTGA-CCGAAAATTTTTTTCTCAATTTTTTGCAAC
*
5813 AATACTCAGAAAAAATATATAATTCAACACC-AAAAGATTGACGTGATTTTCACGATTCTAAATA
129 AATACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATA
*
5877 TCGTTTTCCCAT-TTCTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGT
194 TCGTTTTCCCATATTCTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGT
5941 AAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAG
259 AAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAG
*
6006 TCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTAGCCAAAAACCGTG
324 TCAGTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTAGCCAAAAACCGTG
* * *
6071 ATGGTTAGTACATGATTTCGGCTAAAAACTGACTCGAAAAATTTTTCTCAGTTTTTTGCAACAAT
389 ATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCTCAATTTTTTGCAACAAT
6136 ACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGAATTTCACGATTCTAAATATCG
454 ACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGAATTTCACGATTCTAAATATCG
* *
6201 TTTTCCCATTTTTCTGAATTAATTTCTAATTAGATCGATACAGGATTCAGATACTCGTAAAAACA
519 TTTTCCCATTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACA
*
6266 AATCCTTATATGAAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGC
584 AATCCTTATATGAAATGTGGCTAAGATTTGGTTACATCAATATAGAAATTTAAAGGAGTCTTTGC
* *
6331 GCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTT
649 ACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGA--G-T
* *
6396 AGTACACGATTTCGTTTAAAAACTAACCCGAAAAATTTTTCCTCAACTTTTGGCAACAATACTCA
711 AGTACACGATTTCGTCTAAAAACTAACCCGAAAAATTTTTCCTCAACTTTTGGAAACAATACTCA
6461 AAAAAATATATAATTCAACAC
776 AAAAAATATATAATTCAACAC
6482 AAAAAAGATT
Statistics
Matches: 746, Mismatches: 41, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
792 166 0.22
793 1 0.00
795 95 0.13
796 58 0.08
797 203 0.27
798 72 0.10
799 60 0.08
800 37 0.05
801 3 0.00
805 51 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (797 bp):
AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGGCTCCGGAACGCGTGCCAAAAACCG
TGATGGTTATACAAGATTTCGGCTAAAAACTGACCGAAAATTTTTTTCTCAATTTTTTGCAACAA
TACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATC
GTTTTCCCATATTCTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAA
AAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTC
AGTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTAGCCAAAAACCGTGAT
GGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCTCAATTTTTTGCAACAATAC
TCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGAATTTCACGATTCTAAATATCGTT
TTCCCATTTTTCCGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACAAA
TCCTTATATGAAATGTGGCTAAGATTTGGTTACATCAATATAGAAATTTAAAGGAGTCTTTGCAC
CCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGAGTAGTAC
ACGATTTCGTCTAAAAACTAACCCGAAAAATTTTTCCTCAACTTTTGGAAACAATACTCAAAAAA
ATATATAATTCAACACC
Found at i:6264 original size:318 final size:320
Alignment explanation
Indices: 5686--7059 Score: 2064
Period size: 321 Copynumber: 4.4 Consensus size: 320
5676 ATTCAACACC
** * * *
5686 AAGGAGTCTTTGCGCCCAAAATCTTGCAAAATTGAGCCAGGCTCCGGAACGCG------GCCAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* * **
5745 AACCGTGATGGTTAGTACAAGATTTCGGCTAAAAACTGAGCCGAAATTTTTTTCTCAA-TTTTTG
66 AACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCTCAATTTTTTG
*
5809 CAACAATACTCAGAAAAAATATATAATTCAACAC-CAAAAGATTGACGTGATTTTCACGATTCTA
131 CAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCTA
5873 AATATCGTTTTCCCATTTCTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACT
196 AATATCGTTTTCCCA-TT-TTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACT
5938 CGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
259 CGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
6000 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCG-TTTTAGCCAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* * *
6064 AACCGTGATGGTTAGTACATGATTTCGGCTAAAAACTGACTCGAAAAATTTTTCTCAGTTTTTTG
66 AACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCTCAATTTTTTG
* *
6129 CAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGAATTTCACGATTCTA
131 CAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCTA
*
6194 AATATCGTTTTCCCA-TTTTTCTGAATTAATTTCTAATTAGATCGATACAGGATTCAGATACTCG
196 AATATCGTTTTCCCATTTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCG
*
6258 TAAAAACAAATCCTTATATGAAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
261 TAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
** *
6318 AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCAAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
** * * *
6383 AACCGTGATGGTTAGTACACGATTTCGTTTAAAAACTAACCCGAAAAATTTTTCCTCAACTTTTG
66 AACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTT-CTCAATTTTTT
* *
6448 GCAACAATACTCA-AAAAAATATATAATTCAACACAAAAAAGATTGACATGATTTTTACGATTCT
130 GCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCT
*
6512 AAATATCGTTTTCCCATTTTTTTCTGAATTAATTTCTAATTAAATCAATACAGGATTCAGATACT
195 AAATATCGTTTTCCCA-TTTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACT
6577 CGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAA--T-
259 CGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
* * ** *
6636 ------T---T---CCCAAAATCATGCAAAATTGAGCCGGACAACGGAACGCGTTTTTAGGCAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* *
6689 AACCGTGATGGTTAGTACACGATTTCGTCTAAAAACTGACCCGAAAAATTTTTTCCCAATTTTTT
66 AACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAA-TTTTTCTCAATTTTTT
6754 GCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCT
130 GCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCT
* * *
6819 AAATATCGTTATCCCATTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTC
195 AAATATCGTTTTCCCATTTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTC
* * * * * *
6884 GTAAAAACAAATCATTTTATCGAATGTGGCTGAGATTTGGTTACATGAACATAGAAACTTA
260 GTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
* *
6945 AAGGATTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTATCCAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* * *
7010 AACCGTGATGGTTAGTACATGATTTGGGCTAATATA-TGACCCGAAAAATT
66 AACCGTGATGGTTAGTACACGATTTCGGCTAA-AAACTGACCCGAAAAATT
7060 GAAACTCAAT
Statistics
Matches: 966, Mismatches: 65, Indels: 52
0.89 0.06 0.05
Matches are distributed among these distances:
306 210 0.22
307 69 0.07
308 1 0.00
309 1 0.00
312 1 0.00
314 48 0.05
315 1 0.00
318 158 0.16
319 181 0.19
320 63 0.07
321 231 0.24
322 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (320 bp):
AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
AACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCTCAATTTTTTG
CAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCTA
AATATCGTTTTCCCATTTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTCG
TAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
Found at i:7054 original size:627 final size:628
Alignment explanation
Indices: 5686--7059 Score: 2067
Period size: 627 Copynumber: 2.2 Consensus size: 628
5676 ATTCAACACC
** * * *
5686 AAGGAGTCTTTGCGCCCAAAATCTTGCAAAATTGAGCCAGGCTCCGGAACGCG------GCCAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* * * *
5745 AACCGTGATGGTTAGTACAAGATTTCGGCTAAAAACTGAGCCG-AAATTTTTTTCTCAATTTTTG
66 AACCGTGATGGTTAGTACAAGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCAATTTTGG
* *
5809 CAACAATACTCAGAAAAAATATATAATTCAACACCAAAAGATTGACGTGATTTTCACGATTCTAA
131 CAACAATACTCAGAAAAAATATATAATTCAACACAAAAAGATTGACATGATTTTCACGATTCTAA
*
5874 ATATCGTTTTCCCATTTCTTTTCTGAATTAATTTCTAATTAAATCGATACAGGATTCAGATACTC
196 ATATCGTTTTCCCATTTCTTTTCTGAATTAATTTCTAATTAAATCAATACAGGATTCAGATACTC
5939 GTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGG
261 GTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAA-TT-----
* * **
6004 AGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTAGCCAAAAACCG
320 A-T-A-T--GCCCAAAATCATGCAAAATTGAGCCGGACAACGGAACGCGTTTTAGCCAAAAACCG
* * * *
6069 TGATGGTTAGTACATGATTTCGGCTAAAAACTGACTCGAAAAATTTTTCTCAGTTTTTTGCAACA
380 TGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCCCAATTTTTTGCAACA
*
6134 ATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGAATTTCACGATTCTAAATAT
445 ATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACGTGAATTTCACGATTCTAAATAT
* * * *
6199 CGTTTTCCCATTTTTCTGAATTAATTTCTAATTAGATCGATACAGGATTCAGATACTCGTAAAAA
510 CGTTATCCCATTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAA
* * *
6264 CAAATCCTTATATGAAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTA
575 CAAATCATTATATGAAATGTGGCTAAGATTTGGTTACATGAACATAGAAACTTA
** *
6318 AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCAAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* ** *
6383 AACCGTGATGGTTAGTACACGATTTCGTTTAAAAACTAACCCGAAAAATTTTTCCTCAACTTTTG
66 AACCGTGATGGTTAGTACAAGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCAA-TTTTG
*
6448 GCAACAATACTCA-AAAAAATATATAATTCAACACAAAAAAGATTGACATGATTTTTACGATTCT
130 GCAACAATACTCAGAAAAAATATATAATTCAACAC-AAAAAGATTGACATGATTTTCACGATTCT
6512 AAATATCGTTTTCCCATTT-TTTTCTGAATTAATTTCTAATTAAATCAATACAGGATTCAGATAC
194 AAATATCGTTTTCCCATTTCTTTTCTGAATTAATTTCTAATTAAATCAATACAGGATTCAGATAC
6576 TCGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAA-T-T-T
259 TCGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTATAT
*
6638 -CCCAAAATCATGCAAAATTGAGCCGGACAACGGAACGCGTTTTTAGGCAAAAACCGTGATGGTT
324 GCCCAAAATCATGCAAAATTGAGCCGGACAACGGAACGCG-TTTTAGCCAAAAACCGTGATGGTT
*
6702 AGTACACGATTTCGTCTAAAAACTGACCCGAAAAATTTTTTCCCAATTTTTTGCAACAATACTCA
388 AGTACACGATTTCGGCTAAAAACTGACCCGAAAAA-TTTTTCCCAATTTTTTGCAACAATACTCA
*
6767 GAAAAAATATATAATTCAACACAAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTATC
452 GAAAAAATATATAATTCAACACAAAAAAGATTGACGTGAATTTCACGATTCTAAATATCGTTATC
6832 CCATTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATC
517 CCA-TTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATC
* *
6897 ATTTTATCG-AATGTGGCTGAGATTTGGTTACATGAACATAGAAACTTA
581 ATTATAT-GAAATGTGGCTAAGATTTGGTTACATGAACATAGAAACTTA
* *
6945 AAGGATTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTATCCAAA
1 AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
* * *
7010 AACCGTGATGGTTAGTACATGATTTGGGCTAATATA-TGACCCGAAAAATT
66 AACCGTGATGGTTAGTACAAGATTTCGGCTAA-AAACTGACCCGAAAAATT
7060 GAAACTCAAT
Statistics
Matches: 680, Mismatches: 48, Indels: 33
0.89 0.06 0.04
Matches are distributed among these distances:
624 35 0.05
625 55 0.08
626 92 0.14
627 201 0.30
628 3 0.00
630 1 0.00
632 50 0.07
637 1 0.00
638 43 0.06
639 137 0.20
640 62 0.09
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (628 bp):
AAGGAGTCAGTGCGCCCAAAATCATGCAAAATTGAGTCGGGCTCCGGAACGCGTTTTTAGCCAAA
AACCGTGATGGTTAGTACAAGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCAATTTTGG
CAACAATACTCAGAAAAAATATATAATTCAACACAAAAAGATTGACATGATTTTCACGATTCTAA
ATATCGTTTTCCCATTTCTTTTCTGAATTAATTTCTAATTAAATCAATACAGGATTCAGATACTC
GTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGAATATAGAAATTATATGC
CCAAAATCATGCAAAATTGAGCCGGACAACGGAACGCGTTTTAGCCAAAAACCGTGATGGTTAGT
ACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCCCAATTTTTTGCAACAATACTCAGAAA
AAATATATAATTCAACACAAAAAAGATTGACGTGAATTTCACGATTCTAAATATCGTTATCCCAT
TTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCATTAT
ATGAAATGTGGCTAAGATTTGGTTACATGAACATAGAAACTTA
Found at i:7903 original size:323 final size:320
Alignment explanation
Indices: 7353--11567 Score: 4579
Period size: 323 Copynumber: 13.0 Consensus size: 320
7343 TCCGAAAAAA
* * * * * * *
7353 TTTTCTTAATTTTTTGCCACACAAT--TTAGAAAAAATATACAATACAACGCCAAAAAGATTAAA
1 TTTTCTAAATTTTTTG-CA-ACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAC
* * * ** * *
7416 GCT-TTTTTCACGCTTCT-AATATCATTTTTCCAACATTTTTCTGAATTAATTTATAATTAAATC
64 G-TGATTTTCACGCTTCTAAATATC-GTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATC
* * * *
7479 GAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGA
127 GATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGA
** * * * * * * *
7544 TGAATATAGATCTTTCAAGGAGTTTTTGCACCCAAAATCATGTAAAATTGAGTCTGGTTCCGAAA
192 TGAATATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAA
* *
7609 CGCATTTTTAGCCTAAAAACTGTGATGGTTATTACACGATTTCTGCTAAAAACTGACCCGAAAAT
256 CGCGTTTTTAGCC-AAAAACTGTGATGGTTAGTACACGATTTC-GCTAAAAACTGACCCGAAAAT
7674 TT
319 TT
* * *
7676 TTTTCTAAATCTTTTGCAACAATACTCAGGAAAAATATATAATTCAACGCCAAAAAGATTGACGT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
* * *
7741 GATTTTCACGCTGCTAAATATCGTTTTCCCATTTTTTTCCGAATCAATTTCTAATTTAATCGATA
66 GATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATA
* * * * *
7806 CAAGATTCAGATACTCGTAAAAACAAGTCCTTATTTCGAATCTGGCTAAGATTTGGTTACATGAA
131 CAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
* * *
7871 TATAGAAATTTAATGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGGCTTCGGAACTCG
196 TATAGAAATTTAA-GGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
7936 TTTTTAGCCAAAAACCGTGATGGTTATTGGTTAGTACACGATTTCGACTAAAAACTGACCCGAAA
260 TTTTTAGCCAAAAA-C-TG-T-G--A-TGGTTAGTACACGATTTCG-CTAAAAACTGACCCGAAA
8001 ATTTT
317 A-TTT
* *
8006 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACATCAAAAAGATTGACGT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
*
8071 GATTTTCACGATTCTAAATATCGTTTTCCCATATTTTTTCCGAATTAATTTCTAATTAAATCGAT
66 GATTTTCACGCTTCTAAATATCGTTTTCCCAT-TTTTTTCCGAATTAATTTCTAATTAAATCGAT
* * * *
8136 ACAGGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATGA
130 ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGA
*
8201 ATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAAGGC
195 ATATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGC
* * * *
8266 GTATTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAACTAAAAACTGACCCGAAAAGTT
259 GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC-GCTAAAAACTGACCCGAAAATTT
* * * *
8329 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATA-AAATAACACACCAAAAAGATTGACT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCA-ACACCAAAAAGATTGACG
** *
8393 TGATTTTCACAATTCTAAATATCGTTTTCCCATATTTTTTTCGAATTAATTTCTAATTAAATCGA
65 TGATTTTCACGCTTCTAAATATCGTTTTCCCAT-TTTTTTCCGAATTAATTTCTAATTAAATCGA
* * * * * *
8458 TATAGGATTCAGATACTCGT-AAAATAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATG
129 TACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATG
8522 AATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACG
194 AATATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACG
* * * *
8587 CG-----AGCCAAAAACCGTGATGGTTAGTATACGATTTCGGCTAAAAACTGAGCCGAAAA-AT
258 CGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC-GCTAAAAACTGACCCGAAAATTT
*
8645 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
*
8710 GATTTTCACGATTCTAAATATCGTTTTCCCATTTCTTTTCCGAATTAATTTCTAATTAAATCGAT
66 GATTTTCACGCTTCTAAATATCGTTTTCCCATTT-TTTTCCGAATTAATTTCTAATTAAATCGAT
* * * * *
8775 ACATGATTCAGATACTCGTAAAAACAAATCCTTATCTGGAATGTGGCTGAGATTTGGCTACATGA
130 ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGA
* *
8840 ATATAGAAATTAAAGGAGTCTTTCCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
195 ATATAGAAATTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
* * *
8905 TTTTTATCCAAAAA-TCGTGACGGTTAGTACACGATTTCGTCTAAAATTTTGAAAAAGTTGACCC
260 TTTTTAGCCAAAAACT-GTGATGGTTAGTACACGATTTCG-C--------T-AAAAA-CTGACCC
* *
8969 TAAAA-GT
313 GAAAATTT
* * * * * * * * *
8976 TTTCCTCAATTTTTTTTGCCACACTACTCATAAAAAATATATAATCCAACGCCAAAAAGATTAAA
1 TTTTCT-AA-ATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAC
* * * * *
9041 G-GTTTTTTCACGCTTCT-AATATCATTTTTCCAACTTTTTCCCGAATTAATTTCTAATTAAATC
64 GTG-ATTTTCACGCTTCTAAATATC-GTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATC
* * * *
9104 G-TAACAAGATTCAGATGCTAGTAAAAA-AAATCCTTCTATCGAATGTGGATGAGATTTGGTTAG
127 GAT-ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAG
* * * *
9167 ATCAATATAGAAATTTTAAGGCA-TCTTTGCTCCCAAAATCATGAAAAATTGAGACGGGCTCCGG
191 ATGAATATAGAAA-TTTAAGG-AGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGG
* *
9231 AACGCGTTTATAGCCAAAAACTGTGATGGTTAGTACATGATTTCAGCT-AAAACTGACCCGAAAA
254 AACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC-GCTAAAAACTGACCCGAAAA
**
9295 AAT
318 TTT
* * ** *
9298 TTTTCTCAATTTTTTGCAACAATACTTAGAAAAAATATATAATTCAACACGTAAAAGATTGACTT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
* *
9363 GATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCCGAATTAATTTCTAATTAAACCGAT
66 GATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTT-CCGAATTAATTTCTAATTAAATCGAT
* * *
9428 ACAAGATTAAGATACTCGTAAAAACAAATCCTTATATCGAGTGTGGCTGAGATTTGGTTACATGA
130 ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGA
* *
9493 ATATAGAAATTTAAAGGAGTCTTTGTGCCCAAAATCATGCAAAATTGAGCCGGGCTTCGGAACGC
195 ATATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGC
* * * * *
9558 ATTTTTATCCAAAAAATCGTGATGGTTAGTACACGTTTTCGTCTAAAATTTTGCAAAAGTTGACC
259 GTTTTTAGCCAAAAACT-GTGATGGTTAGTACACGATTTCG-CT---A------AAAA-CTGACC
* *
9623 CTAAAA-AT
312 CGAAAATTT
* * * * * * *
9631 TTTCCTCAATATTTTTTGCCACACTACTCAGAAAAAATATATAATCCAACGCCAAAAAGATTAAA
1 TTTTCT-AA-ATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAC
* * * * * *
9696 G-GTTTTTCCATGCTTCT-AATATCATTTTTCCAACTTTTTCCCGAATTAATTTCTAATTAAAAT
64 GTGATTTT-CACGCTTCTAAATATC-GTTTTCCCATTTTTTTCCGAATTAATTTCTAATT-AAAT
* * *
9759 -GAAACAAGATTCATATACTCGTAAAAACAAGTCCTTATATCGAATGTGGCTGAGATTTGGTTAG
126 CGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAG
** * *
9823 ATGAATATAGAAATTTTAAGTCGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGAGCTCCGGA
191 ATGAATATAGAAA-TTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGA
* * * * *
9888 ACGCGTTTTTAGCCAAAAAGC-ATGATGG-TA-T--GCGATTTGGCTAAAAACTGACCCGTAAAG
255 ACGCGTTTTTAGCCAAAAA-CTGTGATGGTTAGTACACGATTTCGCTAAAAACTGACCCGAAAAT
9948 TT
319 TT
* * ** * * *
9950 TTTACTCAATTTTTTTGTGACAATACTCAGAAAAAATATATAATTTAACACCGAAAAGATTGATG
1 TTTTCT-AAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACG
* * * * *
10015 AGATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCAAATTGATTTCTAATTAAATCAAA
65 TGATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAT
* * * * * *
10080 ATAAGATTCAGATGCTCGTAAAATCAAATCCTTATATCTAATGT-GCATGAGATTTGGTTTGATA
130 ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGC-TGAGATTTGGTTAGATG
* * * ** * ** ** * * * * *
10144 AATATAGATATTTCAATGAGACTTTGATCGC---AT--T-CAAACCTGATACAGTCTACGAAATG
194 AATATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACG
* ** * * *
10203 CGTTTTTAGGCAAAAAAAAGAAGTAATTGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAATT
258 CGTTTTTA-GC--CAAAAA-CTGTGATGGTTAGTACACGATTTC-GC--------T--AAAAACT
**
10268 GACCTAAAAAGTTT
308 GACCCGAAAA-TTT
* * ** * * * ** *
10282 TTCCTCCATTTTTTTTGGCAA-AATACTCAGAAAAAGTAAAAAATTCAA-TGC-AAAAGATT-AA
1 TT-TTCTAAATTTTTT-GCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAC
* * *** *
10343 ATGATTTTTCACGCTTCT-AATATCGTTTTTCCAACGCTTTTCCTAATTAATTTCTAATTAAATC
64 GTGA-TTTTCACGCTTCTAAATATCG-TTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATC
* * ** ** * * *
10407 GAAACAAGAATCAGATGTTCGTAAAAATGAATTCTTAAATCCAATGTGGCTGAGATTTGGTTAGA
127 GATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGA
* * * * * * * *
10472 TAAATATAGATATTTCACGGAATCTTTGCACCCAAAATCATGCCAAATGGAGCTGGGCTCCGGAA
192 TGAATATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAA
* **
10537 CGTGTTTTTAGCCAAAAACTGTGAT-GCAACGTACACGATTTCGGCTAAAAACTGACCC-AAAAT
256 CGCGTTTTTAGCCAAAAACTGTGATGGTTA-GTACACGATTTC-GCTAAAAACTGACCCGAAAAT
10600 TT
319 TT
* * * * *
10602 TTTTCTCAATTATTTGCAGCAATACTCAGAAATAATATATAATTCAACACCAAAAAGATTGACAT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
*** *
10667 GATTTTCAAAATTCTAAATATCGTTTTCCCA-TTTTTTCTGAATTAATTTCTAATTAAATCGATA
66 GATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATA
* * *
10731 CAAGTTTCAGATACTCGTAAAAACAAATCCTTATATTGAATGTGGCTGAGATTTGGTTAGATCAA
131 CAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
* * *
10796 TATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATTATGCAAAATTGAGCCGGACTCCGGAACGCG
196 TATAGAAA-TTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
* **
10861 TTTTTAGCCAAAAATCCGTGATGGTTAGTACACGATTTCGTCTAAAAACTGACCCGTAAAAAAT
260 TTTTTAGCCAAAAA-CTGTGATGGTTAGTACACGATTTCG-CTAAAAACTGACCCG-AAAATTT
* * * *
10925 TTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTGACC
1 TTTTCT-AAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACG
*
10990 TGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAT
65 TGATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAT
* * * *
11055 ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATGTGGCTGATATTTGGTTAAATCA
130 ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGA
* *
11120 ATATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCC-GAACAC
195 ATATAGAAA-TTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGC
* * * **
11184 GTTTATAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAAACTGACCCGAAAAAGT
259 GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC-GCTAAAAACTGACCCGAAAATTT
* * * * *
11247 TTTTCTCAATTTTTTGCAACATTACTCCGAAAAAATATATAATTCAACACCAAAAATATTGACAT
1 TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
* * *
11312 GATTTTCACGCTTTTATATATCATTTTCCCATTTTTTT-CG-ATTAATTTCTAATTAAATCGATA
66 GATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATA
* * *
11375 CAAGTTTGAGATACTCGTATAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
131 CAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
* *
11440 TATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATTCAAAATTGAGCCGGGCTCCGGAACGCG
196 TATAGAAATTT-AAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
* * ** * * *
11505 TTTTTATCC-AAAATTCGTGAT--AAAGTACACGATTTTGGCTAAAAACTAACCAGAAAATTT
260 TTTTTAGCCAAAAACT-GTGATGGTTAGTACACGA-TTTCGCTAAAAACTGACCCGAAAATTT
11565 TTT
1 TTT
11568 AACTCAAACT
Statistics
Matches: 3316, Mismatches: 445, Indels: 267
0.82 0.11 0.07
Matches are distributed among these distances:
312 23 0.01
313 3 0.00
315 10 0.00
316 191 0.06
317 117 0.04
318 202 0.06
319 192 0.06
320 248 0.07
321 252 0.08
322 272 0.08
323 419 0.13
324 148 0.04
325 151 0.05
326 1 0.00
327 1 0.00
328 5 0.00
329 55 0.02
330 229 0.07
331 239 0.07
332 195 0.06
333 99 0.03
334 170 0.05
335 74 0.02
336 20 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (320 bp):
TTTTCTAAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGT
GATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATA
CAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
TATAGAAATTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGT
TTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGCTAAAAACTGACCCGAAAATTT
Found at i:9247 original size:970 final size:959
Alignment explanation
Indices: 7353--11504 Score: 4618
Period size: 970 Copynumber: 4.3 Consensus size: 959
7343 TCCGAAAAAA
* * * * * *
7353 TTTTCTTAATTTTTTGCCACACAAT--TTAGAAAAAATATACAATACAACGCCAAAAAGATTAAA
1 TTTTCTCAATTTTTTG-CA-ACAATACTCAGAAAAAATATAAAATTCAACACCAAAAAGATT-GA
* * ** *
7416 GCTT--TTTTCACGCTTCT-AATATCATTTTTCCAACATTTTTCTGAATTAATTTATAATTAAAT
63 -CTTGATTTTCACGCTTCTAAATATCGTTTTCCCAATTTTTTTC-GAATTAATTTCTAATTAAAT
* * * *
7478 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
126 CGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAG
** * * * * * * *
7543 ATGAATATAGATCTTTCAAGGAGTTTTTGCACCCAAAATCATGTAAAATTGAGTCTGGTTCCGAA
191 ATGAATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGA
* * * * *
7608 ACGCATTTTTAGCCTAAAAACTGTGATGGTTATTACACGATTTCTGCTAAAAACTGACCCGAAAA
256 ACGC-----GAGCCAAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAA
* * * * *
7673 TTTTTTTCTAAATCTTTTGCAACAATACTCAGGAAAAATATATAATTCAACGCCAAAAAGATTGA
316 TATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGA
* * * *
7738 CGTGATTTTCACGCTGCTAAATATCGTTTTCCCATTTTTTTCCGAATCAATTTCTAATTTAATCG
381 CGTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCG
* * * *
7803 ATACAAGATTCAGATACTCGTAAAAACAAGTCCTTATTTCGAATCTGGCTAAGATTTGGTTACAT
446 ATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTACAT
* * *
7868 GAATATAGAAATTTAATGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGGCTTCGGAAC
511 GAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAAC
* * *
7933 TCGTTTTTAGCCAAAAACCGTGATGGTTATTGGTTAGTACACGATTTCGACTAAAAACTGACCCG
576 GCGTTTTTAGCCAAAAATC--G-T-G--A-TGGTTA-T--ACGATTTCGTCTAAAAACTGACCCG
* * *
7998 -AAAATTTTTTTTCTCAA-TTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACATCAAAA
631 TAAAA--GTTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAA
* *
8061 AGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCCCATATTTTTTCCGAATTAATTTCTAA
694 AGATTAACGTGATTTTCACGATTCTAAATATCGTTTTCCAAT-TTTTTTCCGAATTAATTTCTAA
* * * *
8126 TTAAATCGATACAGGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATGTGGCTAAGATTT
758 TTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGATGAGATTT
* * * *
8191 GGTTACATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGC
823 GGTTAGATCAATATAGAAATTTTAAGGA-TCTTTGCGCCCAAAATCATGCAAAATTGAGACGGGC
*
8256 TCCGGAAGGCGTATT-TAGCCAAAAACCGTGATGGTTAGTACACGATTTCAACTAAAAACTGACC
887 TCCGGAACGCGT-TTATAGCCAAAAACCGTGATGGTTAGTACACGATTTCAACTAAAAACTGACC
8320 CGAAAAGTT
951 CGAAAAGTT
*
8329 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATAAAA-TAACACACCAAAAAGATTGACT
1 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATAAAATTCA-ACACCAAAAAGATTGACT
**
8393 TGATTTTCACAATTCTAAATATCGTTTTCCCATATTTTTTTCGAATTAATTTCTAATTAAATCGA
65 TGATTTTCACGCTTCTAAATATCGTTTTCCCA-ATTTTTTTCGAATTAATTTCTAATTAAATCGA
* * * * * *
8458 TATAGGATTCAGATACTCGT-AAAATAAATCCTTATATGGAATGTGGCTAAGATTTGGTTACATG
129 TACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATG
*
8522 AATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACG
194 AATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACG
* *
8587 CGAGCC-AAAAACCGTGATGGTTAGTATACGATTTCGGCTAAAAACTGAGCCGAAAA-ATTTTTC
259 CGAGCCAAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAATATTTTTC
8650 TCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTT
324 TCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTT
*
8715 TCACGATTCTAAATATCGTTTTCCCATTTCTTTTCCGAATTAATTTCTAATTAAATCGATACATG
389 TCACGATTCTAAATATCGTTTTCCCATTT-TTTTCCGAATTAATTTCTAATTAAATCGATACAAG
* * *
8780 ATTCAGATACTCGTAAAAACAAATCCTTATCTGGAATGTGGCTGAGATTTGGCTACATGAATATA
453 ATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTACATGAATATA
*
8845 GAAA-TTAAAGGAGTCTTTCCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTT
518 GAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTT
* * *
8909 TATCCAAAAATCGTGACGGTTAGTACACGATTTCGTCTAAAATTTTGAAAAAGTTGACCC-TAAA
583 TAGCCAAAAATCGTGATGGTTA-T--ACGATTTCGTC--------T-AAAAA-CTGACCCGTAAA
* * * * *
8973 AGTTTTCCTCAATTTTTTTTGCCACACTACTCATAAAAAATATATAATCCAACGCCAAAAAGATT
635 AGTTTTCCTCAA-TTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATT
* * * * * *
9038 AAAG-GTTTTTTCACGCTTCT-AATATCATTTTTCCAACTTTTTCCCGAATTAATTTCTAATTAA
699 AACGTG-ATTTTCACGATTCTAAATATC-GTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAA
* * *
9101 ATCG-TAACAAGATTCAGATGCTAGTAAAAA-AAATCCTTCTATCGAATGTGGATGAGATTTGGT
762 ATCGAT-ACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGATGAGATTTGGT
* *
9164 TAGATCAATATAGAAATTTTAAGGCATCTTTGCTCCCAAAATCATGAAAAATTGAGACGGGCTCC
826 TAGATCAATATAGAAATTTTAAGG-ATCTTTGCGCCCAAAATCATGCAAAATTGAGACGGGCTCC
* * *
9229 GGAACGCGTTTATAGCCAAAAACTGTGATGGTTAGTACATGATTTCAGCT-AAAACTGACCCGAA
890 GGAACGCGTTTATAGCCAAAAACCGTGATGGTTAGTACACGATTTCAACTAAAAACTGACCCGAA
**
9293 AAAAT
955 AAGTT
* * **
9298 TTTTCTCAATTTTTTGCAACAATACTTAGAAAAAATATATAATTCAACACGTAAAAGATTGACTT
1 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATAAAATTCAACACCAAAAAGATTGACTT
* *
9363 GATTTTCACGATTCTAAATATCGTTTTCCC-ATTTTTTTCCCGAATTAATTTCTAATTAAACCGA
66 GATTTTCACGCTTCTAAATATCGTTTTCCCAATTTTTTT--CGAATTAATTTCTAATTAAATCGA
* * *
9427 TACAAGATTAAGATACTCGTAAAAACAAATCCTTATATCGAGTGTGGCTGAGATTTGGTTACATG
129 TACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATG
** *
9492 AATATAGAAATTTAAAGGAGTCTTTGTGCCCAAAATCATGCAAAATTGAGCCGGGCTTCGGAACG
194 AATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACG
* * * * * *
9557 CATTTTTATCCAAAAAATCGTGATGGTTAGTACACGTTTTCGTCTAAAATTTTGCAAAAGTTGAC
259 C-----GAGCCAAAAAACCGTGATGGTTAGTACACGATTTCGGCT---A------AAAA-CTGAC
* * * * * *
9622 CCTAAAA-ATTTTCCTCAATATTTTTTGCCACACTACTCAGAAAAAATATATAATCCAACGCCAA
309 CCGAAAATATTTTTCTC-A-ATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAA
* * * * * * * * *
9686 AAAGATTAAAG-GTTTTTCCATGCTTCT-AATATCATTTTTCCAACTTTTTCCCGAATTAATTTC
372 AAAGATTGACGTGATTTT-CACGATTCTAAATATC-GTTTTCCCATTTTTTTCCGAATTAATTTC
* * *
9749 TAATTAAAAT-GAAACAAGATTCATATACTCGTAAAAACAAGTCCTTATATCGAATGTGGCTGAG
435 TAATT-AAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAG
* * ** *
9813 ATTTGGTTAGATGAATATAGAAATTTTAAGTCGTCTTTGCACCCAAAATCATGCAAAATTGAGCC
499 ATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCC
* * * * *
9878 GAGCTCCGGAACGCGTTTTTAGCCAAAAAGCATGATGG-TATGCGATTT-GGCTAAAAACTGACC
564 GGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTATACGATTTCGTCTAAAAACTGACC
* ** * *
9941 CGT-AAAGTTTTTACTCAATTTTTTTGTGACAATACTCAGAAAAAATATATAATTTAACACCGAA
629 CGTAAAAG-TTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAA
* * * * * * *
10005 AAGATTGATGAGATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCAAATTGATTTCTAA
693 AAGATTAACGTGATTTTCACGATTCTAAATATCGTTTTCCAATTTTTTTCCGAATTAATTTCTAA
* * * * * * *
10070 TTAAATCAAAATAAGATTCAGATGCTCGTAAAATCAAATCCTTATATCTAATGTGCATGAGATTT
758 TTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGATGAGATTT
* * * * ** * ** * * *
10135 GGTTTGATAAATATAGATATTTCAATGAGA-CTTTGATCGC---AT--T-CAAACCTGATACAGT
823 GGTTAGATCAATATAGAAATTTTAA-G-GATCTTTGCGCCCAAAATCATGCAAAATTGAGACGGG
* * * * * ** * * *
10193 CTACGAAATGCGTTTTTAGGCAAAAAAAAGAAGTAATTGTTAGTACACGATTTCAGCTAAAATTT
886 CTCCGGAACGCGTTTATA-GC--CAAAAA-CCGTGATGGTTAGTACACGATTT---C---AA--C
* **
10258 TGCAAAAATTGACCTAAAAAGTT
939 T--AAAAACTGACCCGAAAAGTT
* * * * **
10281 TTTCCTCCATTTTTTTTGGCAA-AATACTCAGAAAAAGTAAAAAATTCAA-TGC-AAAAGATT-A
1 TTTTCT-CA-ATTTTTT-GCAACAATACTCAGAAAAAATATAAAATTCAACACCAAAAAGATTGA
** * ** * *
10342 AATGATTTTTCACGCTTCT-AATATCGTTTTTCCAACGCTTTTCCTAATTAATTTCTAATTAAAT
63 CTTGA-TTTTCACGCTTCTAAATATCGTTTTCCCAA-TTTTTTTCGAATTAATTTCTAATTAAAT
* * ** ** * * *
10406 CGAAACAAGAATCAGATGTTCGTAAAAATGAATTCTTAAATCCAATGTGGCTGAGATTTGGTTAG
126 CGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAG
* * * * * * * *
10471 ATAAATATAGATATTTCACGGAATCTTTGCACCCAAAATCATGCCAAATGGAGCTGGGCTCCGGA
191 ATGAATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGA
* * **
10536 ACGTGTTTTTAGCC-AAAAACTGTGAT-GCAACGTACACGATTTCGGCTAAAAACTGACCC-AAA
256 ACGCG-----AGCCAAAAAACCGTGATGGTTA-GTACACGATTTCGGCTAAAAACTGACCCGAAA
* * * *
10598 ATTTTTTTCTCAATTATTTGCAGCAATACTCAGAAATAATATATAATTCAACACCAAAAAGATTG
315 ATATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTG
* ** *
10663 ACATGATTTTCAAAATTCTAAATATCGTTTTCCCA-TTTTTTCTGAATTAATTTCTAATTAAATC
380 ACGTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATC
* * *
10727 GATACAAGTTTCAGATACTCGTAAAAACAAATCCTTATATTGAATGTGGCTGAGATTTGGTTAGA
445 GATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTACA
* * * * *
10792 TCAATATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATTATGCAAAATTGAGCCGGACTCCGGAA
510 TGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAA
10857 CGCGTTTTTAGCCAAAAATCCGTGATGGTTAGTACACGATTTCGTCTAAAAACTGACCCGTAAAA
575 CGCGTTTTTAGCCAAAAAT-CGTGATGGTTA-T--ACGATTTCGTCTAAAAACTGACCCGT-AAA
* * *
10922 AATTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGATTG
635 AGTTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTA
* *
10987 ACCTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATC
700 ACGTGATTTTCACGATTCTAAATATCGTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATC
* * * *
11052 GATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATGTGGCTGATATTTGGTTAAA
765 GATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGATGAGATTTGGTTAGA
* *
11117 TCAATATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCC-GAA
830 TCAATATAGAAATTTTAAGG-ATCTTTGCGCCCAAAATCATGCAAAATTGAGACGGGCTCCGGAA
* * **
11181 CACGTTTATAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAAACTGACCCGAAAAAG
894 CGCGTTTATAGCCAAAAACCGTGATGGTTAGTACACGATTTCAACTAAAAACTGACCCG-AAAAG
11246 -T
958 TT
* * * * *
11247 TTTTCTCAATTTTTTGCAACATTACTCCGAAAAAATATATAATTCAACACCAAAAATATTGACAT
1 TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATAAAATTCAACACCAAAAAGATTGACTT
* * *
11312 GATTTTCACGCTTTTATATATCATTTTCCC-ATTTTTTTCG-ATTAATTTCTAATTAAATCGATA
66 GATTTTCACGCTTCTAAATATCGTTTTCCCAATTTTTTTCGAATTAATTTCTAATTAAATCGATA
* * *
11375 CAAGTTTGAGATACTCGTATAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
131 CAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
*
11440 TATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATTCAAAATTGAGCCGGGCTCCGGAACGCG
196 TATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
11505 TTTTTATCCA
Statistics
Matches: 2665, Mismatches: 398, Indels: 238
0.81 0.12 0.07
Matches are distributed among these distances:
962 19 0.01
963 5 0.00
964 159 0.06
965 9 0.00
966 37 0.01
967 34 0.01
968 183 0.07
969 373 0.14
970 404 0.15
971 88 0.03
972 98 0.04
973 131 0.05
974 104 0.04
975 202 0.08
976 199 0.07
977 56 0.02
978 11 0.00
979 3 0.00
980 13 0.00
981 36 0.01
982 149 0.06
983 42 0.02
984 12 0.00
985 33 0.01
986 22 0.01
987 104 0.04
988 139 0.05
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (959 bp):
TTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATAAAATTCAACACCAAAAAGATTGACTT
GATTTTCACGCTTCTAAATATCGTTTTCCCAATTTTTTTCGAATTAATTTCTAATTAAATCGATA
CAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAA
TATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCG
AGCCAAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAATATTTTTCTC
AATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGTGATTTTC
ACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATT
CAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTACATGAATATAGAA
ATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG
CCAAAAATCGTGATGGTTATACGATTTCGTCTAAAAACTGACCCGTAAAAGTTTTCCTCAATTTT
TTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTAACGTGATTTTCACGAT
TCTAAATATCGTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGAT
ACTCGTAAAAACAAATCCTTATATCGAATGTGGATGAGATTTGGTTAGATCAATATAGAAATTTT
AAGGATCTTTGCGCCCAAAATCATGCAAAATTGAGACGGGCTCCGGAACGCGTTTATAGCCAAAA
ACCGTGATGGTTAGTACACGATTTCAACTAAAAACTGACCCGAAAAGTT
Found at i:9390 original size:653 final size:646
Alignment explanation
Indices: 7334--11525 Score: 4806
Period size: 653 Copynumber: 6.5 Consensus size: 646
7324 AAAATTTTGC
* * * * *
7334 AAAAATTGATCCGAAAAAA-TTTTCTTAATTTTTTGCCACACAAT--TTAGAAAAAATATACAAT
1 AAAAACTGACCCGAAAAAATTTTTCTCAATTTTTTG-CA-ACAATACTCAGAAAAAATATATAAT
* * * * * * ** *
7396 ACAACGCCAAAAAGATTAAAGCTT--TTTTCACGCTTCT-AATATCATTTTTCCAACATTTTTCT
64 TCAACACCAAAAAGATT-GA-CTTGATTTTCACGATTCTAAATATC-GTTTTCCCATTTTTTTCC
* * * * *
7458 GAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA
126 GAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAA
** * * * *
7523 TGTGGCTGAGATTTGGTTAGATGAATATAGATCTTTCAAGGAGTTTTTGCACCCAAAATCATGTA
191 TGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCA
* * * * * *
7588 AAATTGAGTCTGGTTCCGAAACGCATTTTTAGCCTAAAAA-CTGTGATGGTTATTACACGATTTC
256 AAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCC-AAAAATC-GTGATGGTTAGTACACGATTTC
* ** * * *
7652 -TGC---TAAAAACTGACCCGAAAA-TTTTTTTCTAAATCTTTTGCAACAATACTCAGGAAAAAT
319 GT-CAATTAAAAACTGACCCTAAAAGTTTTCCTC-AATTTTTTTGCAACAATACTCAGAAAAAAT
* * * * * *
7712 ATATAATTCAACGCCAAAAAGATTGACGTGATTTTCACGCTGCTAAATATCGTTTTCCCATTTTT
382 ATATAATTCAACGCCAAAAAGATTAACGT-TTTTTCACGCTTCTAAATATCTTTTTCCAACTTTT
* * * *
7777 TTCCGAATCAATTTCTAATTTAATCGATACAAGATTCAGATACTCGTAAAAACAAGTCCTTATTT
446 TTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATAT
* * *
7842 CGAATCTGGCTAAGATTTGGTTACATGAATATAGAAA-TTTAATGG-AGTCTTTGCGCCCAAAAT
511 CGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAA-GGCA-TCTTTGCGCCCAAAAT
* * *
7905 CATGCAAAATTGAGCCAGGCTTCGGAACTCGTTTTTAGCCAAAAACCGTGATGGTTATTGGTTAG
574 CATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAA-C-TG-T-G--A-TGGTTAG
*
7970 TACACGATTTCGACT
632 TACACGATTTCGGCT
**
7985 AAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATT
1 AAAAACTGACCCGAAAA-AATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATT
* *
8050 CAACATCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCCCATATTTTTTCCGAA
65 CAACACCAAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCAT-TTTTTTCCGAA
* *
8115 TTAATTTCTAATTAAATCGATACAGGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATGT
129 TTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGT
* *
8180 GGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAA
194 GGCTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAA
* * *
8245 TTGAGCCGGGCTCCGGAAGGCGTATTTAGCCAAAAACCGTGATGGTTAGTACACGA-TT--TCAA
259 TTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGTCAA
* * *
8307 CTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTTGCAACAATACTCAGAAAAAATATA-AA
324 TTAAAAACTGACCCTAAAAG-TTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAA
* * * * ** *
8370 ATAACACACCAAAAAGATTGAC-TTGATTTTCACAATTCTAAATATCGTTTTCCCATA-TTTTTT
388 TTCA-ACGCCAAAAAGATTAACGTT--TTTTCACGCTTCTAAATATC-TTTTTCCA-ACTTTTTT
* * * * *
8433 TCGAATTAATTTCTAATTAAATCGATATAGGATTCAGATACTCGT-AAAATAAATCCTTATATGG
448 CCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCG
* * *
8497 AATGTGGCTAAGATTTGGTTACATGAATATAGAAATTTAAAGG-AGTCTTTGCGCCCAAAATCAT
513 AATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGCA-TCTTTGCGCCCAAAATCAT
* *
8561 GCAAAATTGAGCCGGGCTCCGGAACGCG-----AGCCAAAAACCGTGATGGTTAGTATACGATTT
577 GCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTT
8621 CGGCT
642 CGGCT
*
8626 AAAAACTGAGCCG-AAAAATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTC
1 AAAAACTGACCCGAAAAAATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTC
*
8690 AACACCAAAAAGATTGACGTGATTTTCACGATTCTAAATATCGTTTTCCCATTTCTTTTCCGAAT
66 AACACCAAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCATTT-TTTTCCGAAT
* * *
8755 TAATTTCTAATTAAATCGATACATGATTCAGATACTCGTAAAAACAAATCCTTATCTGGAATGTG
130 TAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTG
* * *
8820 GCTGAGATTTGGCTACATGAATATAGAAA-TTAAAGGAGTCTTTCCGCCCAAAATCATGCAAAAT
195 GCTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAAT
* *
8884 TGAGCCGGGCTCCGGAACGCGTTTTTATCCAAAAATCGTGACGGTTAGTACACGATTTCGTCTAA
260 TGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGTC---
* * * *
8949 AATTTTGAAAAAGTTGACCCTAAAAGTTTTCCTCAATTTTTTTTGCCACACTACTCATAAAAAAT
322 AA--TT-AAAAA-CTGACCCTAAAAGTTTTCCTCAA-TTTTTTTGCAACAATACTCAGAAAAAAT
* *
9014 ATATAATCCAACGCCAAAAAGATTAAAGGTTTTTTCACGCTTCT-AATATCATTTTTCCAACTTT
382 ATATAATTCAACGCCAAAAAGATT-AACGTTTTTTCACGCTTCTAAATATC-TTTTTCCAACTTT
* * * *
9078 TTCCCGAATTAATTTCTAATTAAATCG-TAACAAGATTCAGATGCTAGTAAAAA-AAATCCTTCT
445 TTTCCGAATTAATTTCTAATTAAATCGAT-ACAAGATTCAGATACTCGTAAAAACAAATCCTTAT
* * *
9141 ATCGAATGTGGATGAGATTTGGTTAGATCAATATAGAAATTTTAAGGCATCTTTGCTCCCAAAAT
509 ATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGCATCTTTGCGCCCAAAAT
* * * *
9206 CATGAAAAATTGAGACGGGCTCCGGAACGCGTTTATAGCCAAAAACTGTGATGGTTAGTACATGA
574 CATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGA
*
9271 TTTCAGCT
639 TTTCGGCT
*
9279 -AAAACTGACCCGAAAAAATTTTTCTCAATTTTTTGCAACAATACTTAGAAAAAATATATAATTC
1 AAAAACTGACCCGAAAAAATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTC
**
9343 AACACGTAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCCGAAT
66 AACACCAAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTT-CCGAAT
* * *
9408 TAATTTCTAATTAAACCGATACAAGATTAAGATACTCGTAAAAACAAATCCTTATATCGAGTGTG
130 TAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTG
* *
9473 GCTGAGATTTGGTTACATGAATATAGAAATTTAAAGGAGTCTTTGTGCCCAAAATCATGCAAAAT
195 GCTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAAT
* * * *
9538 TGAGCCGGGCTTCGGAACGCATTTTTATCCAAAAAATCGTGATGGTTAGTACACGTTTTCGTCTA
260 TGAGCCGGGCTCCGGAACGCGTTTTTAGCC-AAAAATCGTGATGGTTAGTACACGATTTCGTC--
** * * *
9603 AAATTTTGCAAAAGTTGACCCTAAAAATTTTCCTCAATATTTTTTGCCACACTACTCAGAAAAAA
322 -AA--TT--AAAAACTGACCCTAAAAGTTTTCCTCAAT-TTTTTTGCAACAATACTCAGAAAAAA
* * * *
9668 TATATAATCCAACGCCAAAAAGATTAAAGGTTTTTCCATGCTTCT-AATATCATTTTTCCAACTT
381 TATATAATTCAACGCCAAAAAGATT-AACGTTTTTTCACGCTTCTAAATATC-TTTTTCCAACTT
* * * *
9732 TTTCCCGAATTAATTTCTAATTAAAAT-GAAACAAGATTCATATACTCGTAAAAACAAGTCCTTA
444 TTTTCCGAATTAATTTCTAATT-AAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTA
* * *
9796 TATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGTCGTCTTTGCACCCAAAA
508 TATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGCATCTTTGCGCCCAAAA
* * *
9861 TCATGCAAAATTGAGCCGAGCTCCGGAACGCGTTTTTAGCCAAAAAGC-ATGATGG-TA-T--GC
573 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAA-CTGTGATGGTTAGTACAC
9921 GATTT-GGCT
637 GATTTCGGCT
* * **
9930 AAAAACTGACCCG-TAAAGTTTTTACTCAATTTTTTTGTGACAATACTCAGAAAAAATATATAAT
1 AAAAACTGACCCGAAAAAATTTTT-CTCAA-TTTTTTGCAACAATACTCAGAAAAAATATATAAT
* * * * *
9994 TTAACACCGAAAAGATTGA-TGAGATTTTCACGCTTCTAAATATCGTTTTCCCATTTTTTTCCAA
64 TCAACACCAAAAAGATTGACT-TGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGA
* * * * * * *
10058 ATTGATTTCTAATTAAATCAAAATAAGATTCAGATGCTCGTAAAATCAAATCCTTATATCTAATG
128 ATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATG
* * * * * * ** *
10123 T-GCATGAGATTTGGTTTGATAAATATAGATATTTCAATGAGACTTTGATCGC---AT--T-CAA
193 TGGC-TGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAA
** ** * * * * * * ** * *
10181 ACCTGATACAGTCTACGAAATGCGTTTTTAGGCAAAAAAAAGAAGTAATTGTTAGTACACGATTT
257 AATTGAGCCGGGCTCCGGAACGCGTTTTTA-GC--CAAAAA-TCGTGATGGTTAGTACACGATTT
* * *
10246 CAGCTAAAATTTTGCAAAAATTGA-CCTAAAAAGTTTTTCCTCCATTTTTTTTGGCAA-AATACT
318 C-G-T-CAA--TT--AAAAACTGACCCT-AAAAG-TTTTCCT-CAATTTTTTT-GCAACAATACT
* * * * * *
10309 CAGAAAAAGTAAAAAATTCAATG-C-AAAAGATTAAATGATTTTTCACGCTTCT-AATATCGTTT
372 CAGAAAAAATATATAATTCAACGCCAAAAAGATT-AACGTTTTTTCACGCTTCTAAATATC-TTT
** * * * ** **
10371 TTCCAACGCTTTTCCTAATTAATTTCTAATTAAATCGAAACAAGAATCAGATGTTCGTAAAAATG
435 TTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACA
* * * * * * * *
10436 AATTCTTAAATCCAATGTGGCTGAGATTTGGTTAGATAAATATAGATATTTCACGGAATCTTTGC
500 AATCCTTATATCGAATGTGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGCATCTTTGC
* * * * * **
10501 ACCCAAAATCATGCCAAATGGAGCTGGGCTCCGGAACGTGTTTTTAGCCAAAAACTGTGAT-GCA
565 GCCCAAAATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTT
10565 ACGTACACGATTTCGGCT
630 A-GTACACGATTTCGGCT
** * * *
10583 AAAAACTGACCC-AAAATTTTTTTCTCAATTATTTGCAGCAATACTCAGAAATAATATATAATTC
1 AAAAACTGACCCGAAAAAATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTC
* ** *
10647 AACACCAAAAAGATTGACATGATTTTCAAAATTCTAAATATCGTTTTCCCA-TTTTTTCTGAATT
66 AACACCAAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATT
* *
10711 AATTTCTAATTAAATCGATACAAGTTTCAGATACTCGTAAAAACAAATCCTTATATTGAATGTGG
131 AATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGG
* * * *
10776 CTGAGATTTGGTTAGATCAATATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATTATGCAAAATT
196 CTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATT
*
10841 GAGCCGGACTCCGGAACGCGTTTTTAGCCAAAAATCCGTGATGGTTAGTACACGATTTCGTC---
261 GAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAAT-CGTGATGGTTAGTACACGATTTCGTCAAT
*
10903 TAAAAACTGACCCGTAAAAAATTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAA
325 TAAAAACTGACCC-T-AAAAGTTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAA
* * * * * * * * *
10968 TTCAACACAAAAAAGATTGACCTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGA
388 TTCAACGCCAAAAAGATTAACGT-TTTTTCACGCTTCTAAATATCTTTTTCCAACTTTTTTCCGA
*
11033 ATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATG
452 ATTAATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATG
* * * *
11098 TGGCTGATATTTGGTTAAATCAATATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAA
517 TGGCTGAGATTTGGTTAGATGAATATAGAAATTTTAAGGCATCTTTGCGCCCAAAATCATGCAAA
* * * *
11163 ATTGAGCCGGGCTCC-GAACACGTTTATAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCT
582 ATTGAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGGCT
* * *
11227 AAAAACTGACCCGAAAAAGTTTTTCTCAATTTTTTGCAACATTACTCCGAAAAAATATATAATTC
1 AAAAACTGACCCGAAAAAATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTC
* * * * * *
11292 AACACCAAAAATATTGACATGATTTTCACGCTTTTATATATCATTTTCCCATTTTTTT-CG-ATT
66 AACACCAAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATT
* * *
11355 AATTTCTAATTAAATCGATACAAGTTTGAGATACTCGTATAAACAAATCCTTATATCGAATGTGG
131 AATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGG
* *
11420 CTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATTCAAAATT
196 CTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATT
* *
11485 GAGCCGGGCTCCGGAACGCGTTTTTATCCAAAATTCGTGAT
261 GAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGAT
11526 AAAGTACACG
Statistics
Matches: 3056, Mismatches: 386, Indels: 206
0.84 0.11 0.06
Matches are distributed among these distances:
638 86 0.03
639 199 0.07
640 3 0.00
641 34 0.01
642 5 0.00
643 47 0.02
644 220 0.07
645 257 0.08
646 37 0.01
647 25 0.01
648 369 0.12
649 98 0.03
650 146 0.05
651 122 0.04
652 157 0.05
653 623 0.20
654 275 0.09
655 205 0.07
656 147 0.05
657 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (646 bp):
AAAAACTGACCCGAAAAAATTTTTCTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTC
AACACCAAAAAGATTGACTTGATTTTCACGATTCTAAATATCGTTTTCCCATTTTTTTCCGAATT
AATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGG
CTGAGATTTGGTTAGATGAATATAGAAATTTAAAGGAGTCTTTGCGCCCAAAATCATGCAAAATT
GAGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGTCAATT
AAAAACTGACCCTAAAAGTTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTC
AACGCCAAAAAGATTAACGTTTTTTCACGCTTCTAAATATCTTTTTCCAACTTTTTTCCGAATTA
ATTTCTAATTAAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGTGGC
TGAGATTTGGTTAGATGAATATAGAAATTTTAAGGCATCTTTGCGCCCAAAATCATGCAAAATTG
AGCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGGCT
Found at i:12287 original size:322 final size:314
Alignment explanation
Indices: 11891--12501 Score: 766
Period size: 322 Copynumber: 1.9 Consensus size: 314
11881 CACTACTTAG
* **
11891 AAAAAATATATAATACAATGCAAAAGATTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAA
1 AAAAAATATATAATACAACGCAAAAGATTAAAGGGATTTTCACGCTTCTAATATCATTTTTCCAA
* *
11956 CTGTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTCGTAAAAACAAATCCT
66 CTGTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATACTCGTAAAAACAAATCCT
* * * *
12021 TAAATCCAATGTGGCTGAG-ATTCGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCACCCA
131 TAAATCCAATGCGGCTGAGAAGT-GATTAGATGAATATAGAAATTTCAAGGAGTCTTTGCACCCA
** * * * *
12085 AAATCATGTGAAACTGAGTCTGGCTCC-GAAACGCGTTTTTAGCCAAAAAAAACCGTGATGGTTC
195 AAATCATGCAAAACTGAGCCAGACTCCAG-AACGCGTTTTTAGCC---AAAAACCATGAT-G---
* *
12149 GTACACGATTTTCGGCTAAAAACTGACCCGAAAAATTTTTTCTCAATCTTTTGCAATAATAATC
252 ATACACAATTTT-GGCTAAAAACTGACCCGAAAAATTTTTTCTCAATCTTTTGCAATAATAATC
* * * *
12213 AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACGCTTTTAA-AT-ATGGTTTT
1 AAAAAATATATAATACAACG-C-AAAAGATTAAAGGGATTTTCACGCTTCTAATATCAT--TTTT
* * * *
12276 CCCA-T-TTTTCCGAATTAATTTCTAATTTAATCGAAACAAGATTCATATACTCGTAAAAACAAG
62 CCAACTGTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATACTCGTAAAAACAAA
* * * *
12339 TCCTTATATCGAATGCGGCTGAGAAGTGATTAGATGAATATAGAAATTTTAAGGAGTCTTTGCGC
127 TCCTTAAATCCAATGCGGCTGAGAAGTGATTAGATGAATATAGAAATTTCAAGGAGTCTTTGCAC
* *
12404 CCAAAATCATGCAAAATTGAGCCAGACTCCAGAACGTGTTTTTAGCCAAAAACCATGATGATACA
192 CCAAAATCATGCAAAACTGAGCCAGACTCCAGAACGCGTTTTTAGCCAAAAACCATGATGATACA
*
12469 CAATTTTGGCTAAAAACTGACCCGAAAAGTTTT
257 CAATTTTGGCTAAAAACTGACCCGAAAAATTTT
12502 AACTCAATTT
Statistics
Matches: 251, Mismatches: 32, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
314 25 0.10
315 10 0.04
318 1 0.00
319 11 0.04
322 165 0.66
323 7 0.03
324 32 0.13
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (314 bp):
AAAAAATATATAATACAACGCAAAAGATTAAAGGGATTTTCACGCTTCTAATATCATTTTTCCAA
CTGTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATACTCGTAAAAACAAATCCT
TAAATCCAATGCGGCTGAGAAGTGATTAGATGAATATAGAAATTTCAAGGAGTCTTTGCACCCAA
AATCATGCAAAACTGAGCCAGACTCCAGAACGCGTTTTTAGCCAAAAACCATGATGATACACAAT
TTTGGCTAAAAACTGACCCGAAAAATTTTTTCTCAATCTTTTGCAATAATAATC
Found at i:12852 original size:934 final size:936
Alignment explanation
Indices: 10919--13094 Score: 2916
Period size: 934 Copynumber: 2.3 Consensus size: 936
10909 CTGACCCGTA
* * * *
10919 AAAAATTTTCCTCAATTTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACAAAAAAGA
1 AAAAATTTTCCTCAATTTTTTTGCCACACTACTCAGAAAAAATATATAATACAACACGAAAAAGA
* ** * * * * *
10984 TT-GACCTGATTTTCACGATTCTAAATATC-GTTTTCCCATTTTTTTCCGAATTAATTTCTAATT
66 TTAAAGGT-TTTTTCACGCTTCT-AATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATT
* * * *
11047 AAATCGATACAAGATTCAGATACTCGTAAAAACAAATCCTTATATGGAATGTGGCTGATATTTGG
129 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGG
* * * *
11112 TTAAATCAATATAGAAATTTTAAGGCGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGGGCTC
194 TTAGATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAG-CTGGCTC
* * *
11177 CGAACACGTTTATAGCC-AAAAACCGTGATGGTTAGTACATGA-TTTCGGCTAAAAACTGACCCG
258 CGAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCG
* * * *
11240 AAAAAGTTTTTCTCAATTTTTTGCAACATTACTCCGAAAAAATATATAATTCAACACCAAAAATA
323 AAAAAGTTTTTCTCAATCTTTTGCAACAATAATCCGAAAAAATATATAATTCAACACCAAAAAGA
* * *
11305 TTGACATGATTTTCACGCTTTTATATATCATTTTCCCATTTTTTTCGATTAATTTCTAATTAAAT
388 TTGACAGGATTTTCACGCTTTTAAATATCATTTTCCCATTTTTTCCGATTAATTTCTAATTAAAT
* * * * * ** *
11370 CGATACAAGTTTGAGATACTCGTATAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTAG
453 CGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGCGGCTGAGAAGTGATTAG
* * * *
11435 ATGAATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATTCAAAATTGAGCCGGGCTCCGGA
518 ATGAATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCAGACTCCAGA
* ** * * *
11500 ACGCGTTTTTATCCAAAATTCGTGATAAAGTACACGATTTTGGCTAAAAACTAACCAGAAAATTT
583 ACGCGTTTTTAGCCAAAAACCATGATAAAGTACACAATTTTGGCTAAAAACTAACCAGAAAATGT
* *
11565 TTTAACTCAAACTTTACCACAACGTACTCGGTTCAATTCAGTCTCCGGAAAGCTATTATAATAGT
648 TTTAACTCAAACTTTACCACAACGTACTCGGTCCAAATCAGTCTCCGGAAAGCTATTATAATAGT
* * * *
11630 AAAACTGATTTACGGTTTGAAACTTATGGCAATTTAAGTTGACCGACATGCAGGAACTTTAGGCC
713 AAAACTGATTTACAGTTAGAAACTTATGGCAATTTAAGTTAACCCACATGCAGGAACTTTAGGCC
* *
11695 CAAAATCCAAAATGTTACACGCCCTTTCGAACGGATTTCTGACGGTCCATACGATCCATATATGA
778 AAAAATCCAAAATGTTACACGCCCTTTCGAACGGATTTCTGACGATCCATACGATCCATATATGA
* * * *
11760 TATATCTATGATCTCATCAGCATCACGCATTTTTAGCCAAAAAAAACGTGTTGGTTAGTACACGA
843 TATATC-ATGATCACATCAGCATCACGCATTTTTAGCCAAAAAAAAAGTGATAGTTAGTACACGA
* *
11825 TTTCGGCTAAAATTTTGAAATATTGGTCCG
907 TTTCGGCTAAAATTTTGAAAAATTGGACCG
* * * * *
11855 AAATATTTTCCTTAATTTTTTTGCCACACTACTTAGAAAAAATATATAATAC-A-ATGCAAAAGA
1 AAAAATTTTCCTCAATTTTTTTGCCACACTACTCAGAAAAAATATATAATACAACACGAAAAAGA
*
11918 TTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAACTGTTTTCCGAATTAATTTCTAATTAA
66 TTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTAA
* * * * *
11983 ATTGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTCGGTT
131 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTT
* * * ** *
12048 AGATGAATATAGATATTTCAAGGAGTCTTTGCACCCAAAATCATGTGAAACTGAGTCTGGCTCCG
196 AGATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAG-CTGGCTCCG
*
12113 AAACGCGTTTTTAGCCAAAAAAAACCGTGATGGTTCGTACACGATTTTCGGCTAAAAACTGACCC
260 -AACGCGTTTTTAGCC--AAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCC
* * *
12178 GAAAAATTTTTTCTCAATCTTTTGCAATAATAAT-C-AAAAAATATATAATTCAACGCCAAAAAG
322 GAAAAAGTTTTTCTCAATCTTTTGCAACAATAATCCGAAAAAATATATAATTCAACACCAAAAAG
* ** *
12241 ATTGACGGGATTTTCACGCTTTTAAATATGGTTTTCCCA-TTTTTCCGAATTAATTTCTAATTTA
387 ATTGACAGGATTTTCACGCTTTTAAATATCATTTTCCCATTTTTTCCG-ATTAATTTCTAATTAA
* *
12305 ATCGAAACAAGATTCATATACTCGTAAAAACAAGTCCTTATATCGAATGCGGCTGAGAAGTGATT
451 ATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGCGGCTGAGAAGTGATT
* *
12370 AGATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGACTCCA
516 AGATGAATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCAGACTCCA
* * * *
12435 GAACGTGTTTTTAGCCAAAAACCATGAT-GA-TACACAATTTTGGCTAAAAACTGACCCGAAAA-
581 GAACGCGTTTTTAGCCAAAAACCATGATAAAGTACACAATTTTGGCTAAAAACTAACCAGAAAAT
** * * * * * *
12497 GTTTTAACTCAATTTTTACCATAGCGTAGTTGGTCCAAATCAGTCTCCGGAGAGGTATTATAA-A
646 GTTTTAACTCAAACTTTACCACAACGTACTCGGTCCAAATCAGTCTCCGGAAAGCTATTATAATA
* * *
12561 GTAAAACTGATTTACAGTTAGAAAGTTATGGCATTTTTAAGTTAACCCACCTGCAGGAACTTTAG
711 GTAAAACTGATTTACAGTTAGAAACTTATGGCA-ATTTAAGTTAACCCACATGCAGGAACTTTAG
12626 GCCAAAAATCCAAAATGTTACACGCCCTTTCGAACGG-TCTTCTGACGATCCATACGATCCATAT
775 GCCAAAAATCCAAAATGTTACACGCCCTTTCGAACGGAT-TTCTGACGATCCATACGATCCATAT
* * * *
12690 ATGATATATC-T-ATCACATCCGTATCACGCGTTTTTGGCCAAAAAAAAAGTGATAGTTAGTACA
839 ATGATATATCATGATCACATCAGCATCACGCATTTTTAGCCAAAAAAAAAGTGATAGTTAGTACA
12753 CGATTTCGGCTAAAATTTT-ATAAAAGTT-GACCTG
904 CGATTTCGGCTAAAATTTTGA-AAAA-TTGGACC-G
*
12787 AAAAATTTTCCTCAATTTTTTTTGCCACACTACTCAG-AAAAATATATAATCCAACACGAAAAAG
1 AAAAATTTTCCTCAA-TTTTTTTGCCACACTACTCAGAAAAAATATATAATACAACACGAAAAAG
*
12851 ATTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTTCGAATTAATTTC------
65 ATTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTA
* *
12910 --TCGAAACAAGATTTAGATGCTAGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGT
130 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGT
* * *
12973 TAGATGAACATAGAAATTTTAAGGAGTCTTTTCGCCCAAAATTATGCAAAATTGAGCTGGGCTCC
195 TAGATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCT-GGCTCC
* * *
13038 GGGACGCGTTTTTAG-CAAAAAATCGTGATGGTTAGTACACAATTTT-GGCTAAAAACT
259 -GAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAAAACT
13095 TTCCTGAAAA
Statistics
Matches: 1083, Mismatches: 139, Indels: 50
0.85 0.11 0.04
Matches are distributed among these distances:
922 11 0.01
923 27 0.02
925 3 0.00
926 121 0.11
927 1 0.00
930 1 0.00
931 69 0.06
932 31 0.03
933 59 0.05
934 376 0.35
935 45 0.04
936 54 0.05
937 212 0.20
938 24 0.02
939 49 0.05
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (936 bp):
AAAAATTTTCCTCAATTTTTTTGCCACACTACTCAGAAAAAATATATAATACAACACGAAAAAGA
TTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTAA
ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTT
AGATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCTGGCTCCGA
ACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCGAAA
AAGTTTTTCTCAATCTTTTGCAACAATAATCCGAAAAAATATATAATTCAACACCAAAAAGATTG
ACAGGATTTTCACGCTTTTAAATATCATTTTCCCATTTTTTCCGATTAATTTCTAATTAAATCGA
AACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCGAATGCGGCTGAGAAGTGATTAGATG
AATATAGAAATTTAAAGGAGTCTTTGCACCCAAAATCATGCAAAATTGAGCCAGACTCCAGAACG
CGTTTTTAGCCAAAAACCATGATAAAGTACACAATTTTGGCTAAAAACTAACCAGAAAATGTTTT
AACTCAAACTTTACCACAACGTACTCGGTCCAAATCAGTCTCCGGAAAGCTATTATAATAGTAAA
ACTGATTTACAGTTAGAAACTTATGGCAATTTAAGTTAACCCACATGCAGGAACTTTAGGCCAAA
AATCCAAAATGTTACACGCCCTTTCGAACGGATTTCTGACGATCCATACGATCCATATATGATAT
ATCATGATCACATCAGCATCACGCATTTTTAGCCAAAAAAAAAGTGATAGTTAGTACACGATTTC
GGCTAAAATTTTGAAAAATTGGACCG
Found at i:13340 original size:608 final size:603
Alignment explanation
Indices: 12306--13694 Score: 1625
Period size: 604 Copynumber: 2.3 Consensus size: 603
12296 TCTAATTTAA
* * * * ** *
12306 TCGAAACAAGATTCATATACTCGTAAAAACAAGTCCTTATATCGAATGCGGCTGAGAAGTGATTA
1 TCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTA
** *
12371 GATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCAGACTCCAG
66 GATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCTGGGCTCCAG
* * *
12436 AACGTGTTTTTAGCCAAAAACCATGAT-G-ATACACAATTTTGGCTAAAAACTGACCCGAAAAGT
131 AACGCGTTTTTAGCCAAAAACCGTGATGGTATACACAATTTTGGCTAAAAACTGACCCGAAAACT
* * * * *
12499 TTTAACTCAATTTTTACCATAGCGTAGTTGGTCCAAATCAGTCTCCGGAGAGGTATTATAAAGTA
196 TTTAACCCAATTTTTACCACAGCGTAGTCGGTCCAAATCAGTCTCCGGAAAGATATTATAAAGTA
* * *
12564 AAACTGATTTACAGTTAGAAAGTTATGGCATTTTTAAGTTAACCCACCTGCAGGAACTTTAGGCC
261 AAACCGATTTACAGTTAGAAAGTTATGGCATTTTTAAGTTAACCCACCTGCAGGAACTTCAAGCC
* * * *
12629 AAAAATCCAAAATGTTACACGCCCTTTCGAACGGTCTTCTGACGATCCATACGATCCATATATGA
326 AAAAATCCAAAACGTTACACGCCCTTTCAAACGGACTTCTGACGATCCATACGATCCATATATAA
* * *
12694 TATATCTATCACATCCGTATCACGCGTTTTTGGCCAAAAAAAAAGTGATAGTTAGTACACGATTT
391 TATATCTATCACATCCGCATCACACGTTTTTAGCC--AAAAAAAGTGATAGTTAGTACACGATTT
* * * * *
12759 CGGCTAAAATTTTATAAAAGTTGACCTGAAAAATTT-TCCTCAATTTTTTTTGCCACACTACTCA
454 CGGCTAAAATTTTACAAAAGATGACC-CAAAAATTTCTCCTCAA--TTTTTGGCCACAATACTCA
* * * ** *
12823 -GAAAAATATATAA-TCCAACACGAAAAAGATTAAAGGTTTTTTCACGCTTCTAATATCA-TTTT
516 TAAAAAATAAATAACT-CAACACCAAAAAGATTAAAGGCCTTCTCACGCTTCTAATATCATTTTT
*
12885 TCCAACTTTTTTTC-GAATTAATTTC
580 TCC--CTATTTTTCTGAATTAATTTC
* * *
12910 TCGAAACAAGATTTAGATGCTAGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTA
1 TCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTA
* * * *
12975 GATGAACATAGAAATTTTAAGGAGTCTTTTCGCCCAAAATTATGCAAAATTGAGCTGGGCTCCGG
66 GATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCTGGGCTCCAG
* * * ** *
13040 GACGCGTTTTTAGCAAAAAATCGTGATGGTTAGTACACAATTTTGGCTAAAAACTTTCCTGAAAA
131 AACGCGTTTTTAGCCAAAAACCGTGATGG-TA-TACACAATTTTGGCTAAAAACTGACCCG-AAA
* * *
13105 ACTTTT-ACCCAATTCTTT-CTACAGCGTAGTCGGTTCAAATCATTCTCCGGAAAGATATTATAT
193 ACTTTTAACCCAATT-TTTACCACAGCGTAGTCGGTCCAAATCAGTCTCCGGAAAGATATTATA-
* * * ** * *
13168 TAGTAAAACCGATTTACGGTTTGGTAGTTATGGCATTTTTAATTTGACCCACCTAG-AGGAACTT
256 AAGTAAAACCGATTTACAGTTAGAAAGTTATGGCATTTTTAAGTTAACCCACCT-GCAGGAACTT
* *
13232 CAAGCCCAAAATCCAAAACGTTACACG-CCTTTCAAACGGACTTCTGACGGTCCATACGATCCAT
320 CAAGCCAAAAATCCAAAACGTTACACGCCCTTTCAAACGGACTTCTGACGATCCATACGATCCAT
* * *
13296 ATATAATATATCTATCTCATCCGCATCACACGTTTTTAGCCAAAAAACGTGATGGTTAGTACACG
385 ATATAATATATCTATCACATCCGCATCACACGTTTTTAGCCAAAAAAAGTGATAGTTAGTACACG
* * * * *
13361 ATTTCGGCTAAAATTTTGCAAAAGATGACCCAAAATTTTCTCCTCAATTTTTGGGCATAATACTT
450 ATTTCGGCTAAAATTTTACAAAAGATGACCCAAAAATTTCTCCTCAATTTTTGGCCACAATACTC
* *
13426 ATAAAAAATAAATAACTCAACGCCAAAAAGATTGAAGGCCTTCTCACGCTTCTAATATCATTTTT
515 ATAAAAAATAAATAACTCAACACCAAAAAGATTAAAGGCCTTCTCACGCTTCTAATATCATTTTT
*
13491 TTCCTATTTTTCTGAATTAATTTC
580 TCCCTATTTTTCTGAATTAATTTC
** * * * *
13515 TAATTAAATCAAAACCGGATTGAAATGCTCGT-AAAACTAAATCCTTA-ATCCAATGTGCCAGAG
1 T--CGAAA-C--AA---GATTCAAATGCTCGTAAAAAC-AAATCCTTATATCGAATGTGGCTGAG
* * * * * * * *
13578 ATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTT
57 ATTTGGTTAGATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCT
* * *
13643 GGGATCTCAGAACACGTTTTTAGCCAAAAACCGTGATGGTAATACACGATTT
122 GGGCTC-CAGAACGCGTTTTTAGCCAAAAACCGTGATGGT-ATACACAATTT
13695 CTATTAAATT
Statistics
Matches: 660, Mismatches: 101, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
604 158 0.24
605 68 0.10
606 63 0.10
607 4 0.01
608 140 0.21
609 88 0.13
610 3 0.00
612 87 0.13
613 49 0.07
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (603 bp):
TCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTATATCGAATGTGGCTGAGATTTGGTTA
GATGAATATAGAAATTTTAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCTGGGCTCCAG
AACGCGTTTTTAGCCAAAAACCGTGATGGTATACACAATTTTGGCTAAAAACTGACCCGAAAACT
TTTAACCCAATTTTTACCACAGCGTAGTCGGTCCAAATCAGTCTCCGGAAAGATATTATAAAGTA
AAACCGATTTACAGTTAGAAAGTTATGGCATTTTTAAGTTAACCCACCTGCAGGAACTTCAAGCC
AAAAATCCAAAACGTTACACGCCCTTTCAAACGGACTTCTGACGATCCATACGATCCATATATAA
TATATCTATCACATCCGCATCACACGTTTTTAGCCAAAAAAAGTGATAGTTAGTACACGATTTCG
GCTAAAATTTTACAAAAGATGACCCAAAAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAA
AATAAATAACTCAACACCAAAAAGATTAAAGGCCTTCTCACGCTTCTAATATCATTTTTTCCCTA
TTTTTCTGAATTAATTTC
Found at i:13948 original size:281 final size:281
Alignment explanation
Indices: 13444--13953 Score: 746
Period size: 281 Copynumber: 1.8 Consensus size: 281
13434 TAAATAACTC
*
13444 AACGCCAAAAAGATTGAAGGCCTTCTCACGCTTCTAATATCATTTTTTTCCTATTTTTCTGAATT
1 AACGCCAAAAAGATTGAAGGCCTTCTCACGCTTCTAATATCA-TTTTTTCCTATTTTTCCGAATT
** *
13509 AATTTCTAATTAAATCAAAACCGGATTGAAATGCTCGTAAAACTAAATCCTTAATCCAATGTGCC
65 AATTTCTAATTAAATCAAAACAAGATTCAAATGCTCGTAAAACTAAATCCTTAATCCAATGTGCC
* * * *
13574 AGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTG
130 AGAGATTTCGTTAAATGAATATAGATATTTCAAGGAGTCGTGGCGCCAAAAATCATGCAAAACTA
*
13639 AGTTGGGATCTCAGAACACGTTTTTAGCCAAAAACCGTGATGGTAATACACGATTTCTATTAAAT
195 AGCTGGGATCTCAGAACACGTTTTTAGCCAAAAACCGTGATGGTAATACACGATTTCTATTAAAT
13704 TTTTGCAAAATATATATAATTT
260 TTTTGCAAAATATATATAATTT
13726 AACGCCAAAAAGATTGAACGG-CTAT-TCACG-TCTCTAATATCA-TTTTTCCTATTTTTCCGAA
1 AACGCCAAAAAGATTGAA-GGCCT-TCTCACGCT-TCTAATATCATTTTTTCCTATTTTTCCGAA
* *
13787 TTAATTTCTAATTAAATCAAAATAAGATTCAGATGCTCGTAATAAC-AAATCCTTAAATCCAATG
63 TTAATTTCTAATTAAATCAAAACAAGATTCAAATGCTCGTAA-AACTAAATCCTT-AATCCAATG
* * * *
13851 TG-GATGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGTCGTGGCGCCAAAATTTATGCAA
126 TGCCA-GAGATTTCGTTAAATGAATATAGATATTTCAAGGAGTCGTGGCGCCAAAAATCATGCAA
**
13915 AACTAAGCCTGGGA-CTCAGAACGTGTTTTTAGCCAAAAA
190 AACTAAG-CTGGGATCTCAGAACACGTTTTTAGCCAAAAA
13954 TTGTGATAGT
Statistics
Matches: 204, Mismatches: 17, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
280 64 0.31
281 97 0.48
282 40 0.20
283 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (281 bp):
AACGCCAAAAAGATTGAAGGCCTTCTCACGCTTCTAATATCATTTTTTCCTATTTTTCCGAATTA
ATTTCTAATTAAATCAAAACAAGATTCAAATGCTCGTAAAACTAAATCCTTAATCCAATGTGCCA
GAGATTTCGTTAAATGAATATAGATATTTCAAGGAGTCGTGGCGCCAAAAATCATGCAAAACTAA
GCTGGGATCTCAGAACACGTTTTTAGCCAAAAACCGTGATGGTAATACACGATTTCTATTAAATT
TTTGCAAAATATATATAATTT
Found at i:14319 original size:334 final size:334
Alignment explanation
Indices: 13710--14473 Score: 920
Period size: 334 Copynumber: 2.3 Consensus size: 334
13700 AAATTTTTGC
* * * *
13710 AAAATATATATAATTTAACGCCAAAAAGATTGAACGGCTATTCACG-TCTCTAATATCATTTTTC
1 AAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGCTATTCACGCT-TCTAATATCGTTTTTC
* *
13774 CTA--TTTTTCCGAATTAATTTCTAATTAAATCAAAATAAGATTCAGATGCTCGTAATAACAAAT
65 CTATTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATACAGATGCTCGTAATAACAAAT
*
13837 CCTTAAATCCAATGTGGATGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGTCGTGGCGCC
130 CCTTAAATCCAATGTGGATGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGACGTGGCGCC
* * * * * *
13902 AAAATTTATGCAAAACTAAGCCTGGGACTCAGAACGTGTTTTTAGCCAAAAATTGTGATAGTTAG
195 AAAAGTCATGCAAAACTAAGCCTAGGACTCAGAACGCGTTTTTAGCCAAAAACTGTGATAGTAAG
* * ** * * * *
13967 TACACGAATTCGTCTAAAATTTTGTAAAAATTTACCCGAAAGAATTTTCC-TCAATTGTTGGGCA
260 TAAACGAATTCATCTAAAATTTTACAAAAATTGACCCGAAA-AATTTCCCAGCAATTGTTGGCCA
** * *
14031 TGATGCTTATA
324 CAATACTCATA
* * * *
14042 AAAAAATATATAATTCAACACCAAAAATATTGAAAGGCTATTCACGCTTTTAATATTGTTTTTCC
1 AAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGCTATTCACGCTTCTAATATCGTTTTTCC
* * *
14107 TATTTTTTTCCGAATTAATTTCTAATTGAATCGAAACATGATACAGATGCTCGTAA-AAGCAAAT
66 TATTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATACAGATGCTCGTAATAA-CAAAT
* * * * *
14171 CCTTAAATCCAATGTGCG-TTAGATTTGGTTAGATGGATATAGATATTTCAATGAGACTTGGCGC
130 CCTTAAATCCAATGTG-GATGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGACGTGGCGC
* * * * *
14235 CAAAAGTCATGCAAAAC-ATAGTCTAGG-CTCCATAATGCGTTTTTAGTCAGAAACTGTGAT-GT
194 CAAAAGTCATGCAAAACTA-AGCCTAGGACT-CAGAACGCGTTTTTAGCCAAAAACTGTGATAGT
* *
14297 AACGTAAACGAGTTCATCTAAAATTTTACAAAAATTGACCCGAAAAATTTCCCAGCAATTTTTGG
257 AA-GTAAACGAATTCATCTAAAATTTTACAAAAATTGACCCGAAAAATTTCCCAGCAATTGTTGG
*
14362 CCACAATACTCGTA
321 CCACAATACTCATA
*
14376 AAAAAATATATAAATCAACGCCAAAAAGATTGAATA-GCT-TCTCACGCTTCTAATATCGTTTTT
1 AAAAAATATATAATTCAACGCCAAAAAGATTGAA-AGGCTAT-TCACGCTTCTAATATCGTTTTT
*
14439 CCTATACCTTTTTTCTGAATTAATTTCTAATTAAA
64 CCTAT---TTTTTTCCGAATTAATTTCTAATTAAA
14474 AATTTGTATT
Statistics
Matches: 366, Mismatches: 52, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
332 57 0.16
333 17 0.05
334 265 0.72
335 2 0.01
337 25 0.07
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (334 bp):
AAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGCTATTCACGCTTCTAATATCGTTTTTCC
TATTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATACAGATGCTCGTAATAACAAATC
CTTAAATCCAATGTGGATGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGACGTGGCGCCA
AAAGTCATGCAAAACTAAGCCTAGGACTCAGAACGCGTTTTTAGCCAAAAACTGTGATAGTAAGT
AAACGAATTCATCTAAAATTTTACAAAAATTGACCCGAAAAATTTCCCAGCAATTGTTGGCCACA
ATACTCATA
Found at i:14607 original size:27 final size:27
Alignment explanation
Indices: 14543--14608 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
14533 AAAAATACAC
* *
14543 AAAATTATATTTTAATAATGTCATTGTT
1 AAAATT-TATTTTAATAATGGCAATGTT
*
14571 AAAATATATTTTAATAATGGCAAT-TT
1 AAAATTTATTTTAATAATGGCAATGTT
14597 AAGAATTTATTT
1 AA-AATTTATTT
14609 GAAAAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.12
27 24 0.73
28 5 0.15
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (27 bp):
AAAATTTATTTTAATAATGGCAATGTT
Found at i:33512 original size:41 final size:40
Alignment explanation
Indices: 33456--33566 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
33446 ATATAGAAAT
33456 TGCCCTTGTGTTATAATTGTGTTTAGGGATTTTAGTATAGA
1 TGCCCTTGTGTTATAATTGTGTTT-GGGATTTTAGTATAGA
** * *
33497 TG-CCTATGTGTTATAAACGTGTTTGAGGACTTTTAGAAAAGA
1 TGCCCT-TGTGTTATAATTGTGTTTG-GGA-TTTTAGTATAGA
33539 TTGCCCTTGTGTTATAATTGTGTTTGGG
1 -TGCCCTTGTGTTATAATTGTGTTTGGG
33567 GACTTTGATA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
40 4 0.07
41 21 0.36
42 12 0.20
43 19 0.32
44 3 0.05
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (40 bp):
TGCCCTTGTGTTATAATTGTGTTTGGGATTTTAGTATAGA
Found at i:33549 original size:84 final size:85
Alignment explanation
Indices: 33453--33660 Score: 269
Period size: 84 Copynumber: 2.4 Consensus size: 85
33443 GCCATATAGA
* * *
33453 AATTGCCCTTGTGTTATAATTGTGTTTAGGGA-TTTTAGTATAG-ATGCCTATGTGTTATAAACG
1 AATTGCCCTTGTGTTATAATTGTGTTTGGGGACTTTGA-TATAGAATGCCTATGTGCTATAAACG
*
33516 TGTTTGAGGACTTTTAGAAAAG
65 TGATTGAGGACTTTTA-AAAAG
*
33538 -ATTGCCCTTGTGTTATAATTGTGTTTGGGGACTTTGATATAGATATGCCTCTGTGCTATAAACG
1 AATTGCCCTTGTGTTATAATTGTGTTTGGGGACTTTGATATAGA-ATGCCTATGTGCTATAAACG
* *
33602 TGATTGGGGACTTTTAAAGAG
65 TGATTGAGGACTTTTAAAAAG
* * *
33623 AATCGCCCCCTGTATTATAATTGTGTTTGGGGACTTTG
1 AATTG-CCCTTGTGTTATAATTGTGTTTGGGGACTTTG
33661 GGGAGGGAGA
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
84 35 0.32
85 8 0.07
86 35 0.32
87 30 0.28
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (85 bp):
AATTGCCCTTGTGTTATAATTGTGTTTGGGGACTTTGATATAGAATGCCTATGTGCTATAAACGT
GATTGAGGACTTTTAAAAAG
Found at i:33654 original size:44 final size:42
Alignment explanation
Indices: 33456--33659 Score: 160
Period size: 43 Copynumber: 4.8 Consensus size: 42
33446 ATATAGAAAT
* * * *
33456 TGCCCTTGTGTTATAATTGTGTTTAGGGA-TTTTAGTATAG-A
1 TGCCCCTGTGTTATAATTGTGTTTGGGGACTTTTA-AAAAGAA
** ** * *
33497 TGCCTATGTGTTATAAACGTGTTTGAGGACTTTTAGAAAAGAT
1 TGCCCCTGTGTTATAATTGTGTTTGGGGACTTTTA-AAAAGAA
* * * *
33540 TGCCCTTGTGTTATAATTGTGTTTGGGGACTTTGATATAGATA
1 TGCCCCTGTGTTATAATTGTGTTTGGGGACTTTTAAAAAGA-A
* * ** * *
33583 TGCCTCTGTGCTATAAACGTGATTGGGGACTTTTAAAGAGAA
1 TGCCCCTGTGTTATAATTGTGTTTGGGGACTTTTAAAAAGAA
*
33625 TCGCCCCCTGTATTATAATTGTGTTTGGGGACTTT
1 T-G-CCCCTGTGTTATAATTGTGTTTGGGGACTTT
33660 GGGGAGGGAG
Statistics
Matches: 125, Mismatches: 33, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
41 23 0.18
42 15 0.12
43 62 0.50
44 25 0.20
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (42 bp):
TGCCCCTGTGTTATAATTGTGTTTGGGGACTTTTAAAAAGAA
Found at i:50224 original size:31 final size:31
Alignment explanation
Indices: 50141--50249 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
50131 ATTTTTAGCC
* *
50141 ACCATTTTGAGTCTAAACCTTTCAAAAGTTG
1 ACCAATTTGAGCCTAAACCTTTCAAAAGTTG
*
50172 -CTCAATTTGAGCCT-AACCTTTCAAAATTTG
1 AC-CAATTTGAGCCTAAACCTTTCAAAAGTTG
50202 ACCAATTTGAGCCTAAACCTTTCAAAAGTTG
1 ACCAATTTGAGCCTAAACCTTTCAAAAGTTG
50233 ACCAATTTGAGCCTAAA
1 ACCAATTTGAGCCTAAA
50250 AACATAAACA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
30 28 0.39
31 43 0.61
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (31 bp):
ACCAATTTGAGCCTAAACCTTTCAAAAGTTG
Found at i:59996 original size:19 final size:19
Alignment explanation
Indices: 59939--59996 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
59929 ATGTACGTAG
* *
59939 TTATGTATATACTACATATA
1 TTATATATATA-TATATATA
59959 -TA-ATA-ATATACTACTATA
1 TTATATATATATA-TA-TATA
59977 TTATATATATATATATATA
1 TTATATATATATATATATA
59996 T
1 T
59997 CAATTAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
16 2 0.06
17 4 0.13
18 6 0.19
19 9 0.29
20 5 0.16
21 5 0.16
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (19 bp):
TTATATATATATATATATA
Found at i:60095 original size:2 final size:2
Alignment explanation
Indices: 60083--60122 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
60073 ATTGAAATCG
*
60083 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A
60123 AAAGTATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60611 original size:22 final size:22
Alignment explanation
Indices: 60583--60637 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
60573 TAGATTATTG
60583 AAATTTCATAGTGTGACTATC-A
1 AAATTTCATAGTGTGACTA-CAA
* **
60605 AAATTTCATAATGTGGTTACAA
1 AAATTTCATAGTGTGACTACAA
60627 AAATTTCATAG
1 AAATTTCATAG
60638 AAGGTAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (22 bp):
AAATTTCATAGTGTGACTACAA
Found at i:60747 original size:22 final size:22
Alignment explanation
Indices: 60694--60748 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
60684 GATTAACACT
*
60694 AAATTTT-ATAGGGAAGTTATT
1 AAATTTTCATAGGGAAGTTATC
* *
60715 AACA-TTCCATAGGGATGTTATC
1 AA-ATTTTCATAGGGAAGTTATC
60737 AAATTTTCATAG
1 AAATTTTCATAG
60749 TTTGATTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
AAATTTTCATAGGGAAGTTATC
Found at i:60897 original size:22 final size:22
Alignment explanation
Indices: 60840--61026 Score: 105
Period size: 22 Copynumber: 8.5 Consensus size: 22
60830 CATTAAAATT
*
60840 AATTTCATA-TAGAGGTTATCATA
1 AATTTCATAGT-GTGGTTATCA-A
*
60863 AATTT-ATACTGTGGTTATCAA
1 AATTTCATAGTGTGGTTATCAA
* * *
60884 AATTTCAGAGTGTGGTGACCAA
1 AATTTCATAGTGTGGTTATCAA
*
60906 AATTTCATAG-GATGGTTATCAG
1 AATTTCATAGTG-TGGTTATCAA
* *
60928 AATTTCATAGTGTAGTTATTAA
1 AATTTCATAGTGTGGTTATCAA
* * * * * *
60950 AGTTCCATAGGGAGATTATCAC
1 AATTTCATAGTGTGGTTATCAA
* * *
60972 AATTTCTTAAG-GAGGTTATAAA
1 AATTTCAT-AGTGTGGTTATCAA
* * * *
60994 AATAAT-ATAGCGAGATTATCAA
1 AAT-TTCATAGTGTGGTTATCAA
61016 AATTTCATAGT
1 AATTTCATAGT
61027 AAAACTATGT
Statistics
Matches: 124, Mismatches: 32, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
21 10 0.08
22 104 0.84
23 10 0.08
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (22 bp):
AATTTCATAGTGTGGTTATCAA
Found at i:61270 original size:22 final size:22
Alignment explanation
Indices: 61238--61293 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
61228 ATTTGAGAGT
* *
61238 TTATCAGAATTTTATAGGGTAA
1 TTATCAAAATTTCATAGGGTAA
* **
61260 TTATCAAAATTTCATAGTGTGG
1 TTATCAAAATTTCATAGGGTAA
61282 TTATCAAAATTT
1 TTATCAAAATTT
61294 AATAAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (22 bp):
TTATCAAAATTTCATAGGGTAA
Done.