Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 13 of 39
Found at i:1679571 original size:79 final size:79
Alignment explanation
Indices: 1679388--1679596 Score: 307
Period size: 79 Copynumber: 2.6 Consensus size: 79
1679378 CCCGTTAATC
1679388 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGGTTTTATTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCC-GGTTTTATTTCTAAA
*
1679453 ACATCAAATTTTCATA
64 ACATCAAATTTTCACA
*
1679469 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCGAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
1679534 A-CTAATTTTTCACA
66 ATC-AAATTTTCACA
* *
1679548 ATCGAGGATACTCCAACCTCGTTA-TTTC-ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTTCGA--GGGGATACTCCAACCCCG
1679597 TTACTTCTGA
Statistics
Matches: 119, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
77 1 0.01
78 5 0.04
79 66 0.55
80 4 0.03
81 43 0.36
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ATCAAATTTTCACA
Found at i:1679584 original size:28 final size:28
Alignment explanation
Indices: 1679548--1679624 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
1679538 ATTTTTCACA
* *
1679548 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
1679576 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
1679604 -TGAGGGGATACTCCAACCTCG
1 AT-CGGGGATACTCCAACCTCG
1679625 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:1679596 original size:107 final size:108
Alignment explanation
Indices: 1679469--1679698 Score: 297
Period size: 107 Copynumber: 2.1 Consensus size: 108
1679459 AATTTTCATA
* * * *
1679469 ATCGGGGATACTCCAACCCCGTTA-TTTTCGAGGGGATACTCGAACCCCGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTCT-GAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
* *
1679533 CACTAATTTTTCACAATCGAGGATACTCCAA-CCTCGTTA-TTTC
65 CACTAATTTCTCACAATCGAGGATACTCCAACCCT-ATTATTTTC
* *
1679576 ATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAACCTCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
* * * * *
1679641 ATTGATTTCTCATAATTGGGGATACTCCAACCCTATTATTTTC
66 ACTAATTTCTCACAATCGAGGATACTCCAACCCTATTATTTTC
1679684 A-CGGGGATACTCCAA
1 ATCGGGGATACTCCAA
1679699 TCTCAACTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
107 96 0.90
108 11 0.10
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (108 bp):
ATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
ACTAATTTCTCACAATCGAGGATACTCCAACCCTATTATTTTC
Found at i:1684560 original size:9 final size:9
Alignment explanation
Indices: 1684546--1684582 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
1684536 TTGTTCATTT
1684546 TTTATTTAA
1 TTTATTTAA
1684555 TTTATTT--
1 TTTATTTAA
1684562 TTTATTTAA
1 TTTATTTAA
1684571 TTTATTTAA
1 TTTATTTAA
1684580 TTT
1 TTT
1684583 TACTTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
9 19 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTTAA
Found at i:1684563 original size:16 final size:16
Alignment explanation
Indices: 1684542--1684577 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1684532 ATATTTGTTC
1684542 ATTTTTTATTTAATTT
1 ATTTTTTATTTAATTT
1684558 ATTTTTTATTTAATTT
1 ATTTTTTATTTAATTT
1684574 ATTT
1 ATTT
1684578 AATTTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTTTATTTAATTT
Found at i:1685615 original size:157 final size:158
Alignment explanation
Indices: 1685399--1685711 Score: 497
Period size: 157 Copynumber: 2.0 Consensus size: 158
1685389 CCCAGGAAGC
* * *
1685399 TTGTACAAGAAAACAACACTGATTGAGGAGTAAAATCATGAAAAACATGTTGAAAACACCATAAA
1 TTGTACAAGAAAAAAACACTGATTAAGGAGTAAAATCATGAAAAACATATTGAAAACACCATAAA
* *
1685464 CAAGCTTACAAACACAAGTATATACACATATATTCATCACATAAGTGAACACG-CTTGATGATAC
66 CAAGCTTACAAACACAAGTATATACACATATATTCATCACATAAG-CAA-ACGACTTGATGACAC
**
1685528 ATC-AATATACATGCTGATATGAATCAAGG
129 ATCAAATATACACACTGATATGAATCAAGG
*
1685557 TTGTACAAGAAAAAAACA-TGATTAAGGAGTAAAATCATGAAAAACATATTGAAAACACCATGAA
1 TTGTACAAGAAAAAAACACTGATTAAGGAGTAAAATCATGAAAAACATATTGAAAACACCATAAA
1685621 CAAGCTTACAAACACAAGTATATACACATATATTCATCACATAAGCAAACGTACTTGATGACACA
66 CAAGCTTACAAACACAAGTATATACACATATATTCATCACATAAGCAAACG-ACTTGATGACACA
*
1685686 TCAAATATACACACTGATATGGATCA
130 TCAAATATACACACTGATATGAATCA
1685712 TAAGATACAC
Statistics
Matches: 143, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
155 3 0.02
156 2 0.01
157 101 0.71
158 37 0.26
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (158 bp):
TTGTACAAGAAAAAAACACTGATTAAGGAGTAAAATCATGAAAAACATATTGAAAACACCATAAA
CAAGCTTACAAACACAAGTATATACACATATATTCATCACATAAGCAAACGACTTGATGACACAT
CAAATATACACACTGATATGAATCAAGG
Found at i:1685857 original size:15 final size:14
Alignment explanation
Indices: 1685817--1685861 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
1685807 CACTCTACTT
*
1685817 TTTTCTTTTTCTTTC
1 TTTTC-TTTTCTCTC
1685832 TTTTC-TTTCTCTC
1 TTTTCTTTTCTCTC
1685845 TTTTC-TTTCTCTC
1 TTTTCTTTTCTCTC
1685858 TTTT
1 TTTT
1685862 TTCAGCTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 24 0.83
15 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTCTCTC
Found at i:1686481 original size:165 final size:163
Alignment explanation
Indices: 1686300--1687023 Score: 683
Period size: 166 Copynumber: 4.4 Consensus size: 163
1686290 TAATATATAC
*
1686300 AAAAAAATTCAAAATTCATG-AAATAATTTGAATTTTTGAAAACTAATTTAATATGAAATAAATA
1 AAAAAAA-TAAAAATTCATGAAAATAA--TGAATTTTTGAAAACTAATTTAATATGAAATAAATA
*
1686364 ATAATATTATATGAATTTT-AAAATTAAAAACCAAGAAAAAT-CTCCCGAAAAAATTTACGGAGT
63 ATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGT
*
1686427 AAAAAACTCCATATTTCGAAAATAGAGGAATTTCAAGG
128 AAAAAACTCCGTATTT-GAAAATAGAGGAATTTCAA-G
*
1686465 AAAAAAATAAAAAATTCATGAAAATAATGAATTTTTGAAAAATAATTTAATATGAAATAAATAAT
1 AAAAAAAT-AAAAATTCATGAAAATAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAAT
* ** * *
1686530 AATATTTTATGAATTTTAAAAAATAAAAACCAAGAAAAATTGTCTCGAAAAAATTTACGGAGTAG
65 AATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAA
** *
1686595 AAAACTTTGTATTTCGAAAATAG-GGAAATTTTAA-
130 AAAACTCCGTATTT-GAAAATAGAGG-AATTTCAAG
* * * * *
1686629 AGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTAAAAACTAGTTTACTATAAAATAAATA
1 A-AAAAAAT-AAAAATTCATGAAAAT-AATGAATTTTTGAAAACTAATTTAATATGAAATAAATA
* * * * *
1686694 ATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTATGAAGT
63 ATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGT
* * * ** *
1686759 AGAAAACTTCGTATATTAAAAATAGAAAAATTTCTAG
128 AAAAAACTCCGTAT-TTGAAAATAGAGGAATTTCAAG
* * * *
1686796 AAAAAAATGAAAA---ATG-----AATGAATTTTTGAAAACTGATATAATAT-AAATTAAAAAAT
1 AAAAAAATAAAAATTCATGAAAATAATGAATTTTTGAAAACTAATTTAATATGAAA-TAAATAAT
* * * * * *
1686852 AATATTTTATGAATTTTCAAATTTTAAACCCATG-AAAATCCTCTCGAAAAAATTTACGGAG-AA
65 AATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAA
* * *
1686915 GAAAACCCCGTAATTTGAAAACAAGAGGAATTTTAA-
130 -AAAACTCCGT-ATTTGAAAA-TAGAGGAATTTCAAG
* * * * * * * ** * *
1686951 AAGAAAATCAATAATTCA-AAAAATAAAAGGAAATTTTCAAAACTGATTTAATGGGAATTAAATG
1 AAAAAAAT-AAAAATTCATGAAAAT--AATGAATTTTTGAAAACTAATTTAATATGAAATAAATA
1687015 ATAATATTT
63 ATAATATTT
1687024 GAATAATTTT
Statistics
Matches: 460, Mismatches: 73, Indels: 52
0.79 0.12 0.09
Matches are distributed among these distances:
154 1 0.00
155 47 0.10
156 71 0.15
159 1 0.00
162 3 0.01
164 55 0.12
165 101 0.22
166 178 0.39
167 3 0.01
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.30
Consensus pattern (163 bp):
AAAAAAATAAAAATTCATGAAAATAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAATA
ATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAAA
AAACTCCGTATTTGAAAATAGAGGAATTTCAAG
Found at i:1689232 original size:32 final size:32
Alignment explanation
Indices: 1689171--1689233 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
1689161 TAAAGAGAGT
** *
1689171 TACAGTCTTAGAGTAATTTTGAATGACTTAGC
1 TACAGTCTTAGAGTAATTGCGAATAACTTAGC
*
1689203 TACAGTCTTAGAGTAATTGCGACTAACTTAG
1 TACAGTCTTAGAGTAATTGCGAATAACTTAG
1689234 TAACATAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (32 bp):
TACAGTCTTAGAGTAATTGCGAATAACTTAGC
Found at i:1691540 original size:19 final size:19
Alignment explanation
Indices: 1691512--1691552 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1691502 TTAAGGTTGC
1691512 AAATGAAATTTTGAATTTCA
1 AAATGAAA-TTTGAATTTCA
*
1691532 AAATG-AATTTGGATTTCA
1 AAATGAAATTTGAATTTCA
1691550 AAA
1 AAA
1691553 GTAAATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 2 0.10
20 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (19 bp):
AAATGAAATTTGAATTTCA
Found at i:1692325 original size:20 final size:20
Alignment explanation
Indices: 1692288--1692353 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
1692278 TTCTACAATT
* *
1692288 TGTATCGATATAATAAGTTAA
1 TGTATCGATA-CATAAGTGAA
1692309 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
1692329 TATAAT-GATACATAAGTGAA
1 TGT-ATCGATACATAAGTGAA
1692349 TGTAT
1 TGTAT
1692354 TGATGCATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 26 0.65
21 12 0.30
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1692428 original size:51 final size:51
Alignment explanation
Indices: 1692366--1692483 Score: 227
Period size: 51 Copynumber: 2.3 Consensus size: 51
1692356 ATGCATGTCT
*
1692366 AAAATGTATCGATACAAGACCATGTCGAGATATATTTTGCATTCTGGAAAG
1 AAAATGTATCGATACAAGACCATGTCGAGACATATTTTGCATTCTGGAAAG
1692417 AAAATGTATCGATACAAGACCATGTCGAGACATATTTTGCATTCTGGAAAG
1 AAAATGTATCGATACAAGACCATGTCGAGACATATTTTGCATTCTGGAAAG
1692468 AAAATGTATCGATACA
1 AAAATGTATCGATACA
1692484 TTTTCATTGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (51 bp):
AAAATGTATCGATACAAGACCATGTCGAGACATATTTTGCATTCTGGAAAG
Found at i:1695236 original size:80 final size:78
Alignment explanation
Indices: 1695115--1695401 Score: 221
Period size: 80 Copynumber: 3.6 Consensus size: 78
1695105 AACACTAAAG
** * *
1695115 TTTTCATCTTAAGGATACTCCAACCCCACCAT-T-TTCGAGGGGATACTCCAACTCCGTTTTTAT
1 TTTTCATCTTGGGGATACTCCAA-CCCATCATCTCTT--AGGGGATACTCCAAC-CCGTTTTTAA
1695178 TTCCCAAACACCAAAAT
62 TTCCCAAACACCAAAAT
* * *
1695195 TTTTCATCTCTGGGGATACTCCAACCCATCGTCTCTTAGGGGATACTCTAACCCTGTTTTTACTT
1 TTTTCATCT-TGGGGATACTCCAACCCATCATCTCTTAGGGGATACTCCAACCC-GTTTTTAATT
**
1695260 CTAAAACACCAAAA-
64 CCCAAACACCAAAAT
* ** *
1695274 TTTTCATCTTAGGGAATACTTTAACCC-TACAAT-T-TTCGAGGGGATACTCCAACCCCATTTTT
1 TTTTCATCTT-GGGGATACTCCAACCCAT-C-ATCTCTT--AGGGGATACTCCAA-CCCGTTTTT
* *
1695336 AATT-CCAGAATACC-GAAT
60 AATTCCCA-AACACCAAAAT
* * *
1695354 TTTACATATTTGGGGATACTCCAACCCCATCATCTCTAAGGGGATACT
1 TTTTCAT-CTTGGGGATACTCCAA-CCCATCATCTCTTAGGGGATACT
1695402 TAAACCTCAA
Statistics
Matches: 165, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
78 4 0.02
79 29 0.18
80 105 0.64
81 23 0.14
82 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (78 bp):
TTTTCATCTTGGGGATACTCCAACCCATCATCTCTTAGGGGATACTCCAACCCGTTTTTAATTCC
CAAACACCAAAAT
Found at i:1695254 original size:159 final size:157
Alignment explanation
Indices: 1694997--1695401 Score: 438
Period size: 159 Copynumber: 2.5 Consensus size: 157
1694987 TTTCTGAGAA
* * * *** * *
1694997 GATACTCCAACCTCCCATTTTTACTTCTATAACATTGAATTTCTTCATCTCTCGGGATACTCTAA
1 GATACTCCAA-C-CCCATTTTTAATTCCAGAACACCAAATTT-TTCATCTCTGGGGATACTCCAA
** ** * * * *
1695062 CCCCCCCATCTCCGAGGGAATACTCTAACGTTTTTTCTTCTAAAACACTAAAGTTTTCATCTTAA
63 CCCCATCATCTCTAAGGGGATACTCTAACGTTTTTACTTCTAAAACACCAAAATTTTCATCTTAA
*
1695127 GG-ATACTCCAACCCCACCATTTTCGAGGG
128 GGAATACTCCAACCCCACAATTTTCGAGGG
* * *
1695156 GATACTCCAACTCCGTTTTTATTTCCCA-AACACCAAAATTTTTCATCTCTGGGGATACTCCAA-
1 GATACTCCAACCCCATTTTTAATT-CCAGAACACC-AAATTTTTCATCTCTGGGGATACTCCAAC
* *
1695219 CCCATCGTCTCTTAGGGGATACTCTAACCCTGTTTTTACTTCTAAAACACCAAAATTTTCATCTT
64 CCCATCATCTCTAAGGGGATACTCTAA--C-GTTTTTACTTCTAAAACACCAAAATTTTCATCTT
* ** *
1695284 AGGGAATACTTTAACCCTACAATTTTCGAGGG
126 AAGGAATACTCCAACCCCACAATTTTCGAGGG
* * * * *
1695316 GATACTCCAACCCCATTTTTAATTCCAGAATACCGAATTTTACATATTTGGGGATACTCCAACCC
1 GATACTCCAACCCCATTTTTAATTCCAGAACACCAAATTTTTCATCTCTGGGGATACTCCAACCC
1695381 CATCATCTCTAAGGGGATACT
66 CATCATCTCTAAGGGGATACT
1695402 TAAACCTCAA
Statistics
Matches: 205, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
156 21 0.10
157 34 0.17
158 9 0.04
159 71 0.35
160 70 0.34
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (157 bp):
GATACTCCAACCCCATTTTTAATTCCAGAACACCAAATTTTTCATCTCTGGGGATACTCCAACCC
CATCATCTCTAAGGGGATACTCTAACGTTTTTACTTCTAAAACACCAAAATTTTCATCTTAAGGA
ATACTCCAACCCCACAATTTTCGAGGG
Found at i:1697832 original size:25 final size:26
Alignment explanation
Indices: 1697804--1697866 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 26
1697794 CATTTTTTAT
1697804 AAAAGGTTCATGAAATTCCCTTTCGA
1 AAAAGGTTCATGAAATTCCCTTTCGA
1697830 AAAAGGTTCATGAAATTCCCTTTCG-
1 AAAAGGTTCATGAAATTCCCTTTCGA
1697855 AAAAGGTATCAT
1 AAAAGGT-TCAT
1697867 TTGCAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 7 0.19
26 29 0.81
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (26 bp):
AAAAGGTTCATGAAATTCCCTTTCGA
Found at i:1698534 original size:8 final size:8
Alignment explanation
Indices: 1698523--1698659 Score: 53
Period size: 8 Copynumber: 15.6 Consensus size: 8
1698513 GAAAAATCAT
1698523 AAAATAAA
1 AAAATAAA
1698531 AAAATAATA
1 AAAATAA-A
1698540 ACATAATAATAA
1 A-A-AAT-A-AA
*
1698552 AAAATTAA
1 AAAATAAA
*
1698560 AAAAT-TA
1 AAAATAAA
*
1698567 AAAATCAA
1 AAAATAAA
* *
1698575 GAAATTAA
1 AAAATAAA
1698583 AAAATAAAA
1 AAAAT-AAA
1698592 AATCAATCAAA
1 AA--AAT-AAA
1698603 AAAATCATAA
1 AAAAT-A-AA
* *
1698613 GAAATCAA
1 AAAATAAA
1698621 AAAATAAA
1 AAAATAAA
1698629 AAAA-AATCA
1 AAAATAA--A
* *
1698638 AAATTATCA
1 AAAATA-AA
1698647 AAAATAAA
1 AAAATAAA
1698655 AAAAT
1 AAAAT
1698660 TCTTCAAAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
7 8 0.08
8 43 0.43
9 21 0.21
10 11 0.11
11 12 0.12
12 3 0.03
13 1 0.01
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (8 bp):
AAAATAAA
Found at i:1698535 original size:16 final size:16
Alignment explanation
Indices: 1698514--1698593 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
1698504 ATTTGTTTGG
*
1698514 AAAAATCATAAAATAA
1 AAAAATAATAAAATAA
*
1698530 AAAAATAATAACAT--
1 AAAAATAATAAAATAA
* *
1698544 AATAATAA-AAAATTA
1 AAAAATAATAAAATAA
*
1698559 AAAAATTA-AAAATCAA
1 AAAAATAATAAAAT-AA
* *
1698575 GAAATTAA-AAAATAA
1 AAAAATAATAAAATAA
1698590 AAAA
1 AAAA
1698594 TCAATCAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
13 4 0.08
14 7 0.14
15 16 0.32
16 23 0.46
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (16 bp):
AAAAATAATAAAATAA
Found at i:1698571 original size:15 final size:15
Alignment explanation
Indices: 1698551--1698594 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1698541 CATAATAATA
1698551 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
* *
1698566 AAAAATCAAGAAATT
1 AAAAATTAAAAAATT
*
1698581 AAAAAATAAAAAAT
1 AAAAATTAAAAAAT
1698595 CAATCAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:1698583 original size:23 final size:23
Alignment explanation
Indices: 1698553--1698597 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1698543 TAATAATAAA
*
1698553 AAATTAAAAAATTAAAAATCAAG
1 AAATTAAAAAATAAAAAATCAAG
1698576 AAATTAAAAAATAAAAAATCAA
1 AAATTAAAAAATAAAAAATCAA
1698598 TCAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATTAAAAAATAAAAAATCAAG
Found at i:1698589 original size:38 final size:37
Alignment explanation
Indices: 1698547--1698631 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
1698537 ATAACATAAT
* *
1698547 AATAAAAAATTAAAAAATTAAAAATC-AAGAAATTAAAA
1 AATAAAAAATCAAAAAA--AAAAATCAAAGAAATCAAAA
**
1698585 AATAAAAAATCAATCAAAAAAATCATAAGAAATCAAAA
1 AATAAAAAATCAAAAAAAAAAATCA-AAGAAATCAAAA
1698623 AATAAAAAA
1 AATAAAAAA
1698632 AAATCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.17
38 34 0.83
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (37 bp):
AATAAAAAATCAAAAAAAAAAATCAAAGAAATCAAAA
Found at i:1698622 original size:18 final size:18
Alignment explanation
Indices: 1698514--1698640 Score: 85
Period size: 18 Copynumber: 6.6 Consensus size: 18
1698504 ATTTGTTTGG
*
1698514 AAAAATCATAAAATAAAA
1 AAAAATCAAAAAATAAAA
* *
1698532 AAATAAT-AACATAATAATA
1 AAA-AATCAA-AAAATAAAA
*
1698551 AAAAATTAAAAAATTAAAAA
1 AAAAATCAAAAAA-T-AAAA
*
1698571 TCAAGAAATTAAAAAATAAAA
1 --AA-AAATCAAAAAATAAAA
* * *
1698592 AATCAATCAAAAAAATCATA
1 AA-AAATC-AAAAAATAAAA
*
1698612 AGAAATCAAAAAATAAAA
1 AAAAATCAAAAAATAAAA
1698630 AAAAATCAAAA
1 AAAAATCAAAA
1698641 TTATCAAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
18 29 0.34
19 25 0.29
20 13 0.15
21 4 0.05
22 3 0.04
23 11 0.13
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAATCAAAAAATAAAA
Found at i:1698629 original size:23 final size:21
Alignment explanation
Indices: 1698515--1698640 Score: 75
Period size: 23 Copynumber: 5.9 Consensus size: 21
1698505 TTTGTTTGGA
*
1698515 AAAATCAT-AAAATAAAAAAAT
1 AAAA-CATAAAAATCAAAAAAT
*
1698536 AATAACATAATAAT-AAAAAATT
1 AA-AACATAAAAATCAAAAAA-T
* *
1698558 AAAAAATTAAAAATCAAGAAATT
1 AAAACA-TAAAAATCAA-AAAAT
*
1698581 AAAAAATAAAAAATCAATCAAAA-
1 AAAACAT-AAAAATCAA--AAAAT
*
1698604 AAATCATAAGAAATCAAAAAAT
1 AAAACATAA-AAATCAAAAAAT
1698626 -AAA-A-AAAAATCAAAA
1 AAAACATAAAAATCAAAA
1698641 TTATCAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
18 9 0.10
19 2 0.02
20 1 0.01
21 20 0.23
22 18 0.21
23 30 0.35
24 6 0.07
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAACATAAAAATCAAAAAAT
Found at i:1698649 original size:18 final size:19
Alignment explanation
Indices: 1698628--1698677 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
1698618 CAAAAAATAA
1698628 AAAAAAATCAAAATT-ATC
1 AAAAAAATCAAAATTCATC
* *
1698646 AAAAATAA-AAAAATTCTTC
1 AAAAA-AATCAAAATTCATC
*
1698665 AAAATAATCAAAA
1 AAAAAAATCAAAA
1698678 AGATTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATCAAAATTCATC
Found at i:1698745 original size:20 final size:20
Alignment explanation
Indices: 1698720--1698811 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
1698710 GAAAGTTGTG
*
1698720 AAAGCATAAAATGATGATGC
1 AAAGCATGAAATGATGATGC
*
1698740 AAAGCATGAAA-GTTG-TG-
1 AAAGCATGAAATGATGATGC
1698757 AAAGCATGAAATGATGATGC
1 AAAGCATGAAATGATGATGC
* * *
1698777 AGAGCATGTAACG-TGGATG-
1 AAAGCATGAAATGAT-GATGC
*
1698796 AAAGTATGAAATGATG
1 AAAGCATGAAATGATG
1698812 CAACAAATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
17 11 0.19
18 5 0.09
19 16 0.28
20 25 0.44
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (20 bp):
AAAGCATGAAATGATGATGC
Found at i:1698755 original size:37 final size:37
Alignment explanation
Indices: 1698708--1698811 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
1698698 TGATGAATGA
*
1698708 ATGAAAGTTGTGAAAGCATAAAATGATGATGCAAAGC
1 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
*
1698745 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAGAGC
1 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
* * *
1698782 ATGTAACGTGGATGAAAGTATGAAATGATG
1 ATG-AAAGTTG-TGAAAGCATGAAATGATG
1698812 CAACAAATGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 38 0.63
38 5 0.08
39 17 0.28
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (37 bp):
ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
Found at i:1698762 original size:17 final size:17
Alignment explanation
Indices: 1698708--1698767 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
1698698 TGATGAATGA
1698708 ATGAAAGTTGTGAAAGC
1 ATGAAAGTTGTGAAAGC
* *
1698725 ATAAAATGATGATGCAAAGC
1 ATGAAA-GTTG-TG-AAAGC
1698745 ATGAAAGTTGTGAAAGC
1 ATGAAAGTTGTGAAAGC
1698762 ATGAAA
1 ATGAAA
1698768 TGATGATGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 16 0.44
18 5 0.14
19 5 0.14
20 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.22
Consensus pattern (17 bp):
ATGAAAGTTGTGAAAGC
Found at i:1698901 original size:22 final size:21
Alignment explanation
Indices: 1698863--1698905 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
1698853 AAAAGTGTCC
1698863 AACAACAAAGCAAATGAGAAAA
1 AACAACAAAGCAAATGA-AAAA
*
1698885 AACAAGCAAA-CACATGAAAAA
1 AACAA-CAAAGCAAATGAAAAA
1698906 GCAACAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.67, C:0.16, G:0.12, T:0.05
Consensus pattern (21 bp):
AACAACAAAGCAAATGAAAAA
Found at i:1704785 original size:16 final size:15
Alignment explanation
Indices: 1704732--1704784 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
1704722 AGATTTCCTC
1704732 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
* *
1704747 AAGAAACAAAACAAAG
1 AA-AAAAAAAAAAAAG
1704763 AAAAAAGAAAAAAAAAG
1 -AAAAA-AAAAAAAAAG
1704780 AAAAA
1 AAAAA
1704785 GGAAAACGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 2 0.06
16 19 0.61
17 10 0.32
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:1704785 original size:23 final size:22
Alignment explanation
Indices: 1704733--1704805 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
1704723 GATTTCCTCA
* *
1704733 AAAAAAAAAAAAAGAAGAAACA
1 AAAAAAAAAAAAAGAAAAAAGA
*
1704755 AAACAAAGAAAAAAGAAAAAA-A
1 AAA-AAAAAAAAAAGAAAAAAGA
* *
1704777 AAGAAAAAGGAAAACGAAAAAATGA
1 AA-AAAAA-AAAAAAGAAAAAA-GA
1704802 AAAA
1 AAAA
1704806 TAAGGAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 9 0.22
23 27 0.66
24 2 0.05
25 3 0.07
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAAAAAGAAAAAAGA
Found at i:1704790 original size:16 final size:16
Alignment explanation
Indices: 1704732--1704790 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
1704722 AGATTTCCTC
1704732 AAAAA-AAAAAAAAAG
1 AAAAAGAAAAAAAAAG
* *
1704747 AAGAAA-CAAAACAAAG
1 AA-AAAGAAAAAAAAAG
1704763 AAAAAAGAAAAAAAAAG
1 -AAAAAGAAAAAAAAAG
1704780 AAAAAGGAAAA
1 AAAAA-GAAAA
1704791 CGAAAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 2 0.06
16 19 0.53
17 15 0.42
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:1705678 original size:7 final size:6
Alignment explanation
Indices: 1705661--1705711 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
1705651 ATAAGGGCTT
* *
1705661 ACAAAA ACAAAA ACCAAAA A-AAAGA AAAACAA ACAAAA ACAAAA CCAAAA
1 ACAAAA ACAAAA A-CAAAA ACAAA-A ACAA-AA ACAAAA ACAAAA ACAAAA
1705711 A
1 A
1705712 ATGAAATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 3 0.08
6 22 0.58
7 12 0.32
8 1 0.03
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:1705688 original size:16 final size:15
Alignment explanation
Indices: 1705663--1705712 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1705653 AAGGGCTTAC
*
1705663 AAAAACAAAAACCAA
1 AAAAAAAAAAACCAA
1705678 AAAAAAGAAAAA-CAA
1 AAAAAA-AAAAACCAA
*
1705693 ACAAAAACAAAACCAA
1 A-AAAAAAAAAACCAA
1705709 AAAA
1 AAAA
1705713 TGAAATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 16 0.53
16 14 0.47
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACCAA
Found at i:1709565 original size:30 final size:31
Alignment explanation
Indices: 1709506--1709577 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
1709496 TTTGATGTAG
1709506 AATTGATGAAATTTTAAGAAAATTTGAGAAA
1 AATTGATGAAATTTTAAGAAAATTTGAGAAA
*
1709537 AATTGATGAAATTTTAAGAACA-TTGAGAAA
1 AATTGATGAAATTTTAAGAAAATTTGAGAAA
1709567 AATTGATGAAA
1 AATTGATGAAA
1709578 AATCATTAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.51, C:0.01, G:0.17, T:0.31
Consensus pattern (31 bp):
AATTGATGAAATTTTAAGAAAATTTGAGAAA
Found at i:1716895 original size:52 final size:52
Alignment explanation
Indices: 1716817--1716944 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1716807 CGAAATATGA
* *
1716817 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCAATACATCTGGGC
1716869 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCAATACATCTGGGC
1716921 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1716945 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCAATACATCTGGGC
Found at i:1716971 original size:13 final size:13
Alignment explanation
Indices: 1716953--1716977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1716943 CAAAGATCAG
1716953 TGTATCGATACAA
1 TGTATCGATACAA
1716966 TGTATCGATACA
1 TGTATCGATACA
1716978 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1717055 original size:33 final size:33
Alignment explanation
Indices: 1717018--1717084 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1717008 AGTAGCTTAA
1717018 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1717051 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1717084 A
1 A
1717085 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1717058 original size:13 final size:13
Alignment explanation
Indices: 1717040--1717064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1717030 CAAAAAAATA
1717040 TGTATCGATACAT
1 TGTATCGATACAT
1717053 TGTATCGATACA
1 TGTATCGATACA
1717065 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1718942 original size:20 final size:20
Alignment explanation
Indices: 1718917--1718980 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1718907 TCCGATACAT
1718917 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
1718937 TGTATCGATAC-A--T----
1 TGTATCGATACAATGTGCCA
*
1718950 TGTATCGATATAATGTGCCA
1 TGTATCGATACAATGTGCCA
1718970 TGTATCGATAC
1 TGTATCGATAC
1718981 GAACAGTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 21 0.60
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACAATGTGCCA
Found at i:1718951 original size:33 final size:33
Alignment explanation
Indices: 1718909--1718980 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
1718899 ACAATTCATC
1718909 CGATACATTGTATCGATACAATGTGCCATGTAT
1 CGATACATTGTATCGATACAATGTGCCATGTAT
*
1718942 CGATACATTGTATCGATATAATGTGCCATGTAT
1 CGATACATTGTATCGATACAATGTGCCATGTAT
1718975 CGATAC
1 CGATAC
1718981 GAACAGTGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (33 bp):
CGATACATTGTATCGATACAATGTGCCATGTAT
Found at i:1719048 original size:12 final size:12
Alignment explanation
Indices: 1719031--1719056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1719021 TACAATTGTG
1719031 CATGTATCGATA
1 CATGTATCGATA
1719043 CATGTATCGATA
1 CATGTATCGATA
1719055 CA
1 CA
1719057 ATGAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:1719052 original size:32 final size:31
Alignment explanation
Indices: 1719011--1719075 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
1719001 CTGCCAGTTT
** *
1719011 CATGTATCGATACAATTGTGCATGTATCGATA
1 CATGTATCGATACAA-TGAACATGTATCAATA
1719043 CATGTATCGATACAATGAACATGTATCAATA
1 CATGTATCGATACAATGAACATGTATCAATA
1719074 CA
1 CA
1719076 AAGCATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (31 bp):
CATGTATCGATACAATGAACATGTATCAATA
Found at i:1719066 original size:19 final size:21
Alignment explanation
Indices: 1719040--1719095 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
1719030 GCATGTATCG
*
1719040 ATACATGTATCGATACAATG-
1 ATACATGTATCGATACAAAGC
*
1719060 A-ACATGTATCAATACAAAGC
1 ATACATGTATCGATACAAAGC
1719080 ATA-ATGTATCGATACA
1 ATACATGTATCGATACA
1719096 TCTGGATGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (21 bp):
ATACATGTATCGATACAAAGC
Found at i:1720033 original size:10 final size:10
Alignment explanation
Indices: 1720012--1720096 Score: 64
Period size: 9 Copynumber: 9.4 Consensus size: 10
1720002 TGTTAAAAAG
1720012 AAAAAAGA-A
1 AAAAAAGAGA
1720021 AAAAAAGAGA
1 AAAAAAGAGA
*
1720031 AAAAAAAAG-
1 AAAAAAGAGA
*
1720040 AAGAAAGA-A
1 AAAAAAGAGA
1720049 AAAAAA-AG-
1 AAAAAAGAGA
1720057 AAAAAAGATG-
1 AAAAAAGA-GA
*
1720067 --AAAATA-A
1 AAAAAAGAGA
1720074 AAAAAAGAGA
1 AAAAAAGAGA
1720084 AAAAAAG-GA
1 AAAAAAGAGA
1720093 AAAA
1 AAAA
1720097 GAAAAAAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
8 12 0.20
9 31 0.51
10 18 0.30
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:1720033 original size:17 final size:17
Alignment explanation
Indices: 1720006--1720104 Score: 98
Period size: 17 Copynumber: 5.8 Consensus size: 17
1719996 TTTGGTTGTT
*
1720006 AAAAAGA-AAAAAGAAA
1 AAAAAGAGAAAAAAAAA
1720022 AAAAAGAGAAAAAAAAA
1 AAAAAGAGAAAAAAAAA
1720039 GAAGAAAGA-AAAAAAAAGA
1 -AA-AAAGAGAAAAAAAA-A
*
1720058 AAAAAGATG-AAAATAAA
1 AAAAAGA-GAAAAAAAAA
**
1720075 AAAAAGAGAAAAAAAGG
1 AAAAAGAGAAAAAAAAA
1720092 AAAAAGA-AAAAAA
1 AAAAAGAGAAAAAA
1720105 TTCTAAAAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
16 14 0.20
17 33 0.46
18 18 0.25
19 6 0.08
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAGAGAAAAAAAAA
Found at i:1720043 original size:24 final size:24
Alignment explanation
Indices: 1720006--1720104 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
1719996 TTTGGTTGTT
1720006 AAAAAGAAAA-AAGAAAAAAAAGAG
1 AAAAA-AAAAGAAGAAAAAAAAGAG
*
1720030 AAAAAAAAAGAAGAAAGAAAAA-AA
1 AAAAAAAAAGAAGAAA-AAAAAGAG
*
1720054 AAGAAAAAAGATGAAAATAAAAAAAAGAG
1 AA-AAAAAA-A-G--AAGAAAAAAAAGAG
*
1720083 AAAAAAAGGAAAAAGAAAAAAA
1 AAAAAAA--AAGAAGAAAAAAA
1720105 TTCTAAAAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
23 4 0.07
24 14 0.23
25 11 0.18
26 10 0.17
27 1 0.02
28 10 0.17
29 9 0.15
30 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAGAAGAAAAAAAAGAG
Found at i:1720081 original size:34 final size:35
Alignment explanation
Indices: 1720006--1720104 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 35
1719996 TTTGGTTGTT
*
1720006 AAAAAGAAAAAAGAA-AAAAAAGAGAAAAAAAAAG
1 AAAAAGAAAAAAAAAGAAAAAAGAGAAAAAAAAAG
*
1720040 AAGAAAGAAAAAAAAAGAAAAAAGATG-AAAATAAA-
1 AA-AAAGAAAAAAAAAGAAAAAAGA-GAAAAAAAAAG
* *
1720075 AAAAAGAGAAAAAAAGGAAAAAGA-AAAAAA
1 AAAAAGAAAAAAAAAGAAAAAAGAGAAAAAA
1720105 TTCTAAAAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
33 4 0.07
34 22 0.39
35 14 0.25
36 15 0.27
37 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (35 bp):
AAAAAGAAAAAAAAAGAAAAAAGAGAAAAAAAAAG
Found at i:1720512 original size:36 final size:37
Alignment explanation
Indices: 1720456--1720557 Score: 133
Period size: 36 Copynumber: 2.9 Consensus size: 37
1720446 GACTACTCGA
*
1720456 TCAAA-TTTTTCCATCA-TCATTTGACTATATC-TGG
1 TCAAACTTTTTTCATCATTCATTTGACTATATCTTGG
*
1720490 TCAAACTTTTTTCATTATTCATTTGACTATA-CTTGG
1 TCAAACTTTTTTCATCATTCATTTGACTATATCTTGG
*
1720526 TCAAACTTTTTTCATCCCTT-ATTTGACTATAT
1 TCAAACTTTTTTCAT-CATTCATTTGACTATAT
1720558 TAGTGTTAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
34 5 0.08
35 10 0.17
36 42 0.71
37 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (37 bp):
TCAAACTTTTTTCATCATTCATTTGACTATATCTTGG
Found at i:1720772 original size:88 final size:87
Alignment explanation
Indices: 1720574--1720796 Score: 225
Period size: 88 Copynumber: 2.5 Consensus size: 87
1720564 TAAGGCTTGG
* *
1720574 TCAAA-CTCGCATCTCTCCTGTCTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTTGA
1 TCAAATCT-GCATC-CTCCTATCTGAAGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTTGA
* * * *
1720638 TTTGGTATATGGTTACCACCTTAA
64 TTAGATATAAGGTTACCACCCTAA
* * * * *
1720662 TCAAGTTTGCATTCTCCTTATCTGAAGTATGGTTACCACCCTGGTCAGATTTTTTTGATTTCT-A
1 TCAAATCTGCATCCTCC-TATCTGAAGTATGGTTACCACCCTAGTCAGATTTTTTTCATTT-TGA
* *
1720726 TTAGATGTAAGGTTACCACCCTAG
64 TTAGATATAAGGTTACCACCCTAA
* * * * *
1720750 TCAAATCTGCCTCCTTCCTATCTGATGTATAGTTACAACCTTAGTCA
1 TCAAATCTGCATCC-TCCTATCTGAAGTATGGTTACCACCCTAGTCA
1720797 AATGATTTGC
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
87 4 0.04
88 100 0.92
89 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (87 bp):
TCAAATCTGCATCCTCCTATCTGAAGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTTGATT
AGATATAAGGTTACCACCCTAA
Found at i:1721024 original size:42 final size:42
Alignment explanation
Indices: 1720947--1724101 Score: 1046
Period size: 42 Copynumber: 75.1 Consensus size: 42
1720937 TTTAACCCTA
* * *
1720947 GAGAC-TTCTTCACCCTTAAGTTTGCCTATCAGCTTTGACCTTG
1 GAGACTTTCTT-A-CCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1720990 GAGAATTTCTTACCTTCAGCCTGCCTGTCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * ** *
1721032 GAGACTAACTTATC-TCAAGTCTGCCTGTTGGCTTTGACGTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * * *
1721074 GAAAC-ATCTTCACCCGTAAGTCTGCCTATC-GACTTTGACTTTG
1 GAGACTTTCTT-A-CCTTCAGTCTGCCTGTCAG-CTTTGACCTTG
* * *
1721117 GAGACTTTCTTTCCTTCAGTCTGCCTGTTAGCTTTGACTTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * *
1721159 GAGACTTTCATACCTTAAGTCTGCTTGTCAGCTTTAACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * * *
1721201 GAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACTTTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1721243 GAGACTTTCTTACCTTCAGCCTGCTTGTCAGCTTTTACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* ** * * * *
1721285 CAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCCTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* ** * * * *
1721327 AAGACTGCCTAATC-TCAAGTTTGCCTGTC-GACTTTGACCCTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* * * * **
1721369 AACAC-TACTTTATC-TCAAGTCTGCCTGTTGGCTTTGACCTTG
1 GAGACTTTC-TTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1721411 GAAACTGTCTCTT--C-TCAAGTCTGCCTGTCGGCTTTAACCCTA
1 GAGACT-T-TCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * **
1721453 AAAACTTTCTTACTTTTAGTCTGCCTGTTGGCTTTGAACC-T-
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTG-ACCTTG
* * * * *
1721494 -AGACATTATCTCATC-TCAAGTCTGCCTATCGGTTTTGACCCTT-
1 GAGAC-TT-TCTTACCTTC-AGTCTGCCTGTCAGCTTTGA-CCTTG
** * * * *
1721537 GAGACTGCCTCATC-TCAAGTCTGCCTATC-GACTTTGACCTTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* ** *
1721579 GAGACTTTCTTACCTTTAGTCTGCCTGTTGGCTTTAACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * * * *
1721621 GAGACTGCCTTATC-TCAAGTCTACTTATCAGCTTTGACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* ** * * * * *
1721663 GAAACTACCTCATC-TCAAATCTGCCTATCAACTTTGACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1721705 GAGACTTTCTTACTTTCAATCTACTTGTCGGCTTTGA-CTCTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCT-TG
* * * * *
1721747 GAGAC-TACTTTATC-TCAAGTTTGCTTGTC-GACTTTGACCCTAG
1 GAGACTTTC-TTACCTTC-AGTCTGCCTGTCAG-CTTTGA-CCTTG
** * * * * * * *
1721790 G-GACTGCCTCATCTTAAGTTTGCCTTTCAGCTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1721831 GAGACTTTCATACCTTTAGTCTGCTTATC-GACTTTGACCCTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAG-CTTTGACCTTG
* ** * * * * * *
1721873 GAGGCTGCCTCATC-TCAAGTTTGCTTGCCGGCTTTGACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * ** *
1721915 GAGACTTTCTTACTTTCAG-CTTGTCTGTGGGCTTTCACCTTG
1 GAGACTTTCTTACCTTCAGTC-TGCCTGTCAGCTTTGACCTTG
* * * * ** *
1721957 GAGAATTTCTTACTTTCAGCCTGTCTGTTGGCTTTGACCCTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * *
1721999 GAGACTACCTCATC-TCAAGTCTGCCAT-TGA-CTTTGACCTTA
1 GAGACTTTCTTACCTTC-AGTCTGCC-TGTCAGCTTTGACCTTG
* * *
1722040 GAAACTTTTTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * ** * *
1722082 GAGACTGTCTTATC-TCAAGTCTGATTGTC-GACTTTGACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* ** * * * ** **
1722124 AAGACTGCCTCATC-TCAATTCTGCAGGTTGGCTTTGACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* *
1722166 GAGACTTT-TGTACCTTCAGTTTGCTTGTC-GACTTTGACCTTG
1 GAGACTTTCT-TACCTTCAGTCTGCCTGTCAG-CTTTGACCTTG
* * * * *
1722208 GAGAC-TGCTT-CATCTCAAGTCTACCTG-CAGGCTTTGACCCTA
1 GAGACTTTCTTACCT-TC-AGTCTGCCTGTCA-GCTTTGACCTTG
** * * *
1722250 GAGACTGCCTCA-TTTCAAGTCTGCTTGTC-GACTTTGACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* * * * *
1722292 GAGACTTTTTTTCCTTCAGTCTGCCTGTCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * *
1722334 GAGACTGCCTCATC-TCAAGTCTGCCTGTC-GACTTTGACATTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* *
1722376 GAGACTTTTTTACCTTCAGTCTACCTGTC-GACTTTGACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAG-CTTTGACCTTG
* * * * *
1722418 GAGAC-TGCTT-CATCTCAAGTCTGCCTGTCGGCTTTAACCCTG
1 GAGACTTTCTTACCT-TC-AGTCTGCCTGTCAGCTTTGACCTTG
** * * *
1722460 GAGACTACCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* *
1722502 GAGACTTTCTTACCATT-AGTCTGCCTATCGGCTTTGACCTTG
1 GAGACTTTCTTACC-TTCAGTCTGCCTGTCAGCTTTGACCTTG
* ** * * * * *
1722544 GAGGCTGCCTCATC-TCAAGTTTGCCTGTC-GACTTTGACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
** * * ** *
1722586 GAGACTGCCTCATC-TCAAGTCTGCCTGTTGGCTTTGACCCTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
** * * * * * *
1722628 GAGACTACCTCATC-TCAAGTTTGCCTATC-GACTTTGGCCTTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* * *
1722670 GAGCCTTTCTTACCTTCAGTCTGCATGTCAGCTTTGACCCTAG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGA-CCTTG
** * * * **
1722713 G-GACTGCCTCATC-TCAAGTCTGCCTATTGGCTTTGACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* ** * * * *
1722754 GAAACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGGCCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * * * * *
1722796 AAAACTTTCTTACTTTCAATCTACCTGTCAACTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * * *
1722838 GAGACTGCCTCATC-TCAAGTCTGCCTTTCGGCTTTGACCCTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * * *
1722880 GAGACTTTCTTACCTTTAGTCTGCTTATCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * *
1722922 GAGACTGTCTCATC-TCAAGTCTGCTTGTC-GACTTTGACCCTT-
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGA-CCTTG
*** * * * * *
1722964 GAGACCGCCTCATCTTAAGTTTGCCTGTCGGCTTTGA-CTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * *
1723005 AAGACTTTCTTACCTTCAGTCTGCTTGTCGGCTTTAACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * ** * *
1723047 GAGACTACCTCA-TTTCAAGTCTGCTTGTTGGCTTTGACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * * *
1723089 GACACTGTCTCATC-TCAAGTCTGCCAGTCAGCTTTGACCTTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1723131 GAGA-TTTCTTACCTTCAGTCTGTCTATCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * ** * * *
1723172 GAGACTGCCTTATC-TCAAGTCTGCCTGTTGGCTTTAACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
** * * *
1723214 GAGACTGCCTTATCTTAAGTCTGCCTATCAGCTTTGACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * *
1723256 GAGACTTTTTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1723298 GAGAC-TGCTT-CATCTCAAGTTTGCCTGTCAGCTTTGACCCTA
1 GAGACTTTCTTACCT-TC-AGTCTGCCTGTCAGCTTTGACCTTG
* ** * * * * *
1723340 AAGACTACCTTATCTTAAGTCTAGCCTATCGGCTTTGACTTTG
1 GAGACTTTCTTACCTTCAGTCT-GCCTGTCAGCTTTGACCTTG
* * * *
1723383 GAGACTTTCTTACCTTTAGTCTGCCTGTCGGCTTTAACCTTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * * * * * *
1723425 GAGACTGCCTCATC-TCAAATCTACCTATCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
** * * * * * *
1723467 GAGACTGCCTCATC-TCAAATCTGCCTATCGGCTTTAACCTTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * ** *
1723509 GAGACTTTCTTACCTTCAGTCTCCCTATTGGCTTTGACCCTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * * * ** * *
1723551 AAGAC-TGCATCATCTTAAGTCTGCCTGTTGGCTTTGACCCTA
1 GAGACTTTC-TTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * *
1723593 GAGACTGCCTCTTA---TCAAGTCTGCCTGTCAACTTTGACCCTG
1 GAGACT--TTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1723635 AAGACTTTCATACTTTCAGTCTGCCTGTCGGCTTTGAACTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * *
1723677 GAGACTGCCTCATC-TCAAGTCTTGCCTGTCAGTTTTGACCCTT-
1 GAGACTTTCTTACCTTC-AGTC-TGCCTGTCAGCTTTGA-CCTTG
* ** * * * *
1723720 GAAACTGCCTCATC-TCAAGTCTGCTTGTC-GACTTTGACCTTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* * * *
1723762 AAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** ** * * *
1723804 GAGACTACCCCATC-TCAAGTCTGCCTGTCGGCTTTGACCCTG
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
** * * * * *
1723846 GAGACTGCCTCATCC-TAAGTCTGCCTGTCGGCTTTGACCCTA
1 GAGACTTTCTTA-CCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * * *
1723888 GAAACTTTCTTACCTTCAATCTGCCTGTCGGTTTTGACCTTA
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
* * * *
1723930 GAGAC-TGCGTTATC-TCAAGTCTGCCTATC-GACTTTGACCTTA
1 GAGACTTTC-TTACCTTC-AGTCTGCCTGTCAG-CTTTGACCTTG
* * *
1723972 GAGACTTTCTTACTTTCAGTCTGCCTGTTAGCTTTAACCTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
** * * * * * *
1724014 GAGACTACCTCATC-TCAAGTCTGCCTATCGGCTTTGACCCTA
1 GAGACTTTCTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTG
* * * *
1724056 GACACTTTTTTACCTTCAGTCTGCCTGTCGGCTTAGA-CTTG
1 GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
1724097 GAGAC
1 GAGAC
1724102 CTCTTTATCT
Statistics
Matches: 2371, Mismatches: 601, Indels: 282
0.73 0.18 0.09
Matches are distributed among these distances:
40 22 0.01
41 189 0.08
42 1959 0.83
43 173 0.07
44 26 0.01
45 2 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (42 bp):
GAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCTTG
Found at i:1721403 original size:126 final size:125
Alignment explanation
Indices: 1720892--1724057 Score: 1990
Period size: 126 Copynumber: 25.1 Consensus size: 125
1720882 TCTGCTTATT
* * * * * * * * * *
1720892 GGCTTTAACCTTGGAGATTGCCTCATTTCAAGTCTACCTGTTGGTTTTAACCCTAGAGACTTCTT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * * * * * * *
1720957 CACCCTTAAGTTTGCCTATCAGCTTTGACCTTGGAGAATTTCTTACCTTC-AGCCTGCCTGTC
66 CA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATC-TCAAGTCTGCCTGTC
* ** * * ** * * *
1721019 GGCTTTGACCCTAGAGACTAACTTATCTCAAGTCTGCCTGTTGGCTTTGACGTTGGAAACAT-CT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TGCC
* * * ** *
1721083 TCA-CCCGTAAGTCTGCCTATCGACTTTGACTTTGGAGACTTTCTTT-CCTTC-AGTCTGCCTGT
65 TCATCTC--AAGTCTGCCTGTCGGCTTTGACCCTGGAGAC--TCTTTATC-TCAAGTCTGCCTGT
*
1721145 T
125 C
* * * * * * * * * *
1721146 AGCTTTGACTTTGGAGACT--TTCATACCTTAAGTCTGCTTGTCAGCTTTAACCTTGGAGACTGC
1 GGCTTTGACCTTAGAGACTGCCTCAT--CTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGC
** * * * * *
1721209 CTCATCTCAAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCTTACCTTC-AGCCTGCTTGTC
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATC-TCAAGTCTGCCTGTC
* * * *
1721272 AGCTTTTACCCTACAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCT-GAAGACTGCC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTGCC
* * * * * *
1721336 TAATCTCAAGTTTGCCTGTCGACTTTGACCCTGAACACTACTTTATCTCAAGTCTGCCTGTT
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* * * * * * * **
1721398 GGCTTTGACCTTGGAAACTGTCTCTTCTCAAGTCTGCCTGTCGGCTTTAACCCTAAAAACTTTCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* ** * * * * * * * *
1721463 TA-CTTTTAGTCTGCCTGTTGGCTTTGAACCTAGACATTATCTCATCTCAAGTCTGCCTATC
66 CATC-TCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATCTCAAGTCTGCCTGTC
* * * * **
1721524 GGTTTTGACCCTT-GAGACTGCCTCATCTCAAGTCTGCCTATCGACTTTGACCTTAGAGACTTTC
1 GGCTTTGA-CCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCC
* * ** * * * * * * *
1721588 TTACCTTTAGTCTGCCTGTTGGCTTTAACCTTGGAGACTGCCTTATCTCAAGTCTACTTATC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* * * * * * ** * * **
1721650 AGCTTTGACCCTAGAAACTACCTCATCTCAAATCTGCCTATCAACTTTGACCTTGGAGACTTTCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * * * *
1721715 TACTTTCAA-TCTACTTGTCGGCTTTGACTCTGGAGACTACTTTATCTCAAGTTTGCTTGTC
66 CA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* * * * * * * *
1721776 GACTTTGACCCTAGGGACTGCCTCATCTTAAGTTTGCCTTTCAGCTTTGACCCTAGAGACT--TT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
** * * * * * * * * *
1721839 CATACCTTTAGTCTGCTTATCGACTTTGACCCTGGAGGCTGCCTCATCTCAAGTTTGCTTGCC
66 CAT--CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* ** * * * * * * * * **
1721902 GGCTTTGACCTTGGAGACTTTCTTACTTTC-AG-CTTGTCTGTGGGCTTTCACCTTGGAGAATTT
1 GGCTTTGACCTTAGAGACTGCCTCA-TCTCAAGTC-TGCCTGTCGGCTTTGACCCTAGAGACTGC
* * * * * * *
1721965 CTTACTTTC-AGCCTGTCTGTTGGCTTTGACCCTGGAGACTACCTCATCTCAAGTCTGCCAT-T-
64 CTCA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCC-TGTC
* * *** * * * * *
1722027 GACTTTGACCTTAGAAACTTTTTTACCTTC-AGTCTGCCTGTCAGCTTTGACCTTAGAGACTGTC
1 GGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCC
* ** * ** * * * ** *
1722091 TTATCTCAAGTCTGATTGTCGACTTTGACCCTAAAGACTGCCTCATCTCAATTCTGCAGGTT
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* ** * * * * * * *
1722153 GGCTTTGACCTTGGAGACT-TTTGTACCTTC-AGTTTGCTTGTCGACTTTGACCTTGGAGACTGC
1 GGCTTTGACCTTAGAGACTGCCT-CATC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGC
* * * * * * *
1722216 TTCATCTCAAGTCTACCTG-CAGGCTTTGACCCTAGAGACTGCCTCATTTCAAGTCTGCTTGTC
64 CTCATCTCAAGTCTGCCTGTC-GGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* * ** **
1722279 GACTTTGACCTTGGAGACT-TTTTTTCCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGC
1 GGCTTTGACCTTAGAGACTGCCTCAT-C-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGC
* ** * * *
1722342 CTCATCTCAAGTCTGCCTGTCGACTTTGACATTGGAGACTTTTTTACCTTC-AGTCTACCTGTC
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TCTTTATC-TCAAGTCTGCCTGTC
* * * * * *
1722405 GACTTTGACCTTGGAGACTGCTTCATCTCAAGTCTGCCTGTCGGCTTTAACCCTGGAGACTACCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * *
1722470 CATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTA-C-CATTAGTCTGCCTATC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATCTCA--AGTCTGCCTGTC
* * * *
1722531 GGCTTTGACCTTGGAGGCTGCCTCATCTCAAGTTTGCCTGTCGACTTTGACCCTAGAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * *
1722596 CATCTCAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTACCTCATCTCAAGTTTGCCTATC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* * * ** * * * * *
1722657 GACTTTGGCCTTAGAGCCTTTCTTACCTTC-AGTCTGCATGTCAGCTTTGACCCTAGGGACTGCC
1 GGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCC
* * * * * *
1722721 TCATCTCAAGTCTGCCTATTGGCTTTGACCTTGGAAACTGCCTCATCTCAAGTCTGCCTGTC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
* * ** * * * **
1722783 GGCTTTGGCCTT-GAAAACTTTCTTACTTTCAA-TCTACCTGTCAACTTTGACCCTAGAGACTGC
1 GGCTTTGACCTTAG-AGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGC
* * * ** * *
1722846 CTCATCTCAAGTCTGCCTTTCGGCTTTGACCCTGGAGACTTTCTTACCTTTAGTCTGCTTATC
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATCTCAAGTCTGCCTGTC
* * * * * *
1722909 GGCTTTGACCCTAGAGACTGTCTCATCTCAAGTCTGCTTGTCGACTTTGACCCTTGAGACCGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * * * *
1722974 CATCTTAAGTTTGCCTGTCGGCTTTGA-CTTGAAGACTTTCTTACCTTC-AGTCTGCTTGTC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATC-TCAAGTCTGCCTGTC
* * * * * * * *
1723034 GGCTTTAACCTTGGAGACTACCTCATTTCAAGTCTGCTTGTTGGCTTTGACCCTAGACACTGTCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * * * * *
1723099 CATCTCAAGTCTGCCAGTCAGCTTTGACCTTAGAGA-TTTCTTACCTTC-AGTCTGTCTATC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATC-TCAAGTCTGCCTGTC
* * * *
1723159 GGCTTTGACCCTAGAGACTGCCTTATCTCAAGTCTGCCTGTTGGCTTTAACCCTAGAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * * * *
1723224 TATCTTAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTTTTTACCTTC-AGTCTGCCTGTC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TCTTTATC-TCAAGTCTGCCTGTC
* * * * * *
1723285 GGCTTTGACCCTAGAGACTGCTTCATCTCAAGTTTGCCTGTCAGCTTTGACCCTAAAGACTACCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * ** * * **
1723350 TATCTTAAGTCTAGCCTATCGGCTTTGACTTTGGAGACTTTCTTACCTTTAGTCTGCCTGTC
66 CATCTCAAGTCT-GCCTGTCGGCTTTGACCCTGGAGACTCT-TTATCTCAAGTCTGCCTGTC
* * * *
1723412 GGCTTTAACCTTAGAGACTGCCTCATCTCAAATCTACCTATCGGCTTTGACCCTAGAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * * * * * * *
1723477 CATCTCAAATCTGCCTATCGGCTTTAACCTTGGAGACTTTCTTACCTTC-AGTCTCCCTATT
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATC-TCAAGTCTGCCTGTC
* * * *
1723538 GGCTTTGACCCT-GAAGACTGCATCATCTTAAGTCTGCCTGTTGGCTTTGACCCTAGAGACTGCC
1 GGCTTTGACCTTAG-AGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCC
* * ** * *
1723602 TCTTATCAAGTCTGCCTGTCAACTTTGACCCTGAAGACT-TTCATACTTTC-AGTCTGCCTGTC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCTT--TA-TCTCAAGTCTGCCTGTC
* * * * * *
1723664 GGCTTTGAACTTGGAGACTGCCTCATCTCAAGTCTTGCCTGTCAGTTTTGACCCTTGAAACTGCC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTC-TGCCTGTCGGCTTTGACCCTAGAGACTGCC
* * * ** * * ** *
1723729 TCATCTCAAGTCTGCTTGTCGACTTTGACCTTAAAGACTTTCTTACCTTTAGTCTGCTTGTC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATCTCAAGTCTGCCTGTC
* * * *
1723791 GGCTTTGACCTTGGAGACTACCCCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * * *
1723856 CATC-CTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTTCTTACCTTCAA-TCTGCCTGTC
66 CATCTC-AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCT-TTATC-TCAAGTCTGCCTGTC
* * * * * * **
1723917 GGTTTTGACCTTAGAGACTGCGTTATCTCAAGTCTGCCTATCGACTTTGACCTTAGAGACTTTCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
* * ** * * * * *
1723982 TACTTTC-AGTCTGCCTGTTAGCTTTAACCTTGGAGACTACCTCATCTCAAGTCTGCCTATC
66 CA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CTTTATCTCAAGTCTGCCTGTC
*
1724043 GGCTTTGACCCTAGA
1 GGCTTTGACCTTAGA
1724058 CACTTTTTTA
Statistics
Matches: 2455, Mismatches: 501, Indels: 167
0.79 0.16 0.05
Matches are distributed among these distances:
123 2 0.00
124 8 0.00
125 342 0.14
126 1709 0.70
127 375 0.15
128 15 0.01
129 4 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (125 bp):
GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCT
CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTCTTTATCTCAAGTCTGCCTGTC
Found at i:1724063 original size:84 final size:84
Alignment explanation
Indices: 1720877--1724089 Score: 1698
Period size: 84 Copynumber: 38.2 Consensus size: 84
1720867 TGCTTTAATC
* * * * * * * * * * *
1720877 TTCAGTCTGCTTATTGGCTTTAACCTTGGAGATTGCCTCATTTCAAGTCTACCTGTTGGTTTTAA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* *
1720942 CCCTAGAGACTT-CTTCACCC
66 CCCTGGAGACTTCCTT-A-CT
* * * * * * ** * * *
1720962 TTAAGTTTGCCTATCAGCTTTGACCTTGGAGAATTTCTTACCTTC-AGCCTGCCTGTCGGCTTTG
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTG
* **
1721026 ACCCTAGAGACTAACTTA-T
65 ACCCTGGAGACTTCCTTACT
* * * * * * * * *
1721045 CTCAAGTCTGCCTGTTGGCTTTGACGTTGGAAACAT-CTTCA-CCCGTAAGTCTGCCTATCGACT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TGCCTCATCTC--AAGTCTGCCTGTCGGCT
** * * *
1721108 TTGACTTTGGAGACTTTCTTTCC
62 TTGACCCTGGAGACTTCCTTACT
** * * * * * *
1721131 TTCAGTCTGCCTGTTAGCTTTGACTTTGGAGACT--TTCATACCTTAAGTCTGCTTGTCAGCTTT
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCAT--CTCAAGTCTGCCTGTCGGCTTT
* * * *
1721194 AACCTTGGAGACTGCCTCA-T
64 GACCCTGGAGACTTCCTTACT
* * ** * * * * *
1721214 CTCAAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCTTACCTTC-AGCCTGCTTGTCAGCTTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
* ** * *
1721278 TACCCTACAGACTGCCTCA-T
64 GACCCTGGAGACTTCCTTACT
* * * * *
1721298 CTCAAGTCTGCCTGTCGGCTTTGACCCT-GAAGACTGCCTAATCTCAAGTTTGCCTGTCGACTTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAG-AGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* * * *
1721362 GACCCTGAACACTACTTTA-T
64 GACCCTGGAGACTTCCTTACT
* * * * * * *
1721382 CTCAAGTCTGCCTGTTGGCTTTGACCTTGGAAACTGTCTCTTCTCAAGTCTGCCTGTCGGCTTTA
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
** * *
1721447 ACCCTAAAAACTTTCTTACT
65 ACCCTGGAGACTTCCTTACT
* * * * ** * *
1721467 TTTAGTCTGCCTGTTGGCTTTGAACC-TAGACATTATCTCATCTCAAGTCTGCCTATCGGTTTTG
1 TTCAGTCTGCCTGTCGGCTTTG-ACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1721531 ACCCTTGAGACTGCCTCA-T
65 ACCCTGGAGACTTCCTTACT
* * * ** * * ** * *
1721550 CTCAAGTCTGCCTATCGACTTTGACCTTAGAGACTTTCTTACCTTTAGTCTGCCTGTTGGCTTTA
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1721615 ACCTTGGAGACTGCCTTA-T
65 ACCCTGGAGACTTCCTTACT
* * * * * * * * * * **
1721634 CTCAAGTCTACTTATCAGCTTTGACCCTAGAAACTACCTCATCTCAAATCTGCCTATCAACTTTG
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1721699 ACCTTGGAGACTTTCTTACT
65 ACCCTGGAGACTTCCTTACT
* * * * * * * * * *
1721719 TTCAATCTACTTGTCGGCTTTGA-CTCTGGAGACTACTTTATCTCAAGTTTGCTTGTCGACTTTG
1 TTCAGTCTGCCTGTCGGCTTTGACCT-TAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1721783 ACCCTAGG-GACTGCCTCA-T
65 ACCCT-GGAGACTTCCTTACT
* * * * * * ** * * *
1721802 CTTAAGTTTGCCTTTCAGCTTTGACCCTAGAGACT--TTCATACCTTTAGTCTGCTTATCGACTT
1 -TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCAT--CTCAAGTCTGCCTGTCGGCTT
* * *
1721865 TGACCCTGGAGGCTGCCTCA-T
63 TGACCCTGGAGACTTCCTTACT
* * * * * ** * * * *
1721886 CTCAAGTTTGCTTGCCGGCTTTGACCTTGGAGACTTTCTTACTTTC-AG-CTTGTCTGTGGGCTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCA-TCTCAAGTC-TGCCTGTCGGCTT
* * * *
1721949 TCACCTTGGAGAATTTCTTACT
63 TGACCCTGGAGACTTCCTTACT
* * * * * * *
1721971 TTCAGCCTGTCTGTTGGCTTTGACCCTGGAGACTACCTCATCTCAAGTCTGCCAT-T-GACTTTG
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCC-TGTCGGCTTTG
* * * ** *
1722034 ACCTTAGAAACTTTTTTACC
65 ACCCTGGAGACTTCCTTACT
* * * ** *
1722054 TTCAGTCTGCCTGTCAGCTTTGACCTTAGAGACTGTCTTATCTCAAGTCTGATTGTCGACTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
** * *
1722119 CCCTAAAGACTGCCTCA-T
66 CCCTGGAGACTTCCTTACT
* * ** * * ** * * * * *
1722137 CTCAATTCTGCAGGTTGGCTTTGACCTTGGAGACT-TTTGTACCTTC-AGTTTGCTTGTCGACTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCT-CATC-TCAAGTCTGCCTGTCGGCTT
* *
1722200 TGACCTTGGAGAC-TGCTT-CAT
63 TGACCCTGGAGACTTCCTTAC-T
* * * * * *
1722221 CTCAAGTCTACCTG-CAGGCTTTGACCCTAGAGACTGCCTCATTTCAAGTCTGCTTGTCGACTTT
1 TTC-AGTCTGCCTGTC-GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* ** * *
1722285 GACCTTGGAGACTTTTTTTCC
64 GACCCTGGAGACTTCCTTACT
* *
1722306 TTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
** ** *
1722371 CATTGGAGACTTTTTTACC
66 CCCTGGAGACTTCCTTACT
* * * * *
1722390 TTCAGTCTACCTGTCGACTTTGACCTTGGAGACTGCTTCATCTCAAGTCTGCCTGTCGGCTTTAA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* *
1722455 CCCTGGAGACTACCTCA-T
66 CCCTGGAGACTTCCTTACT
* * ** * *
1722473 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTA-C-CATTAGTCTGCCTATCGGCTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCA--AGTCTGCCTGTCGGCTT
* * * *
1722536 TGACCTTGGAGGCTGCCTCA-T
63 TGACCCTGGAGACTTCCTTACT
* * * * *
1722557 CTCAAGTTTGCCTGTCGACTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTTGGCTTTG
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1722622 ACCCTGGAGACTACCTCA-T
65 ACCCTGGAGACTTCCTTACT
* * * * * * ** * * * *
1722641 CTCAAGTTTGCCTATCGACTTTGGCCTTAGAGCCTTTCTTACCTTC-AGTCTGCATGTCAGCTTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
* *
1722705 GACCCTAGG-GACTGCCTCA-T
64 GACCCT-GGAGACTTCCTTACT
* * * * *
1722725 CTCAAGTCTGCCTATTGGCTTTGACCTTGGAAACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * * * *
1722790 GCCTTGAAAACTTTCTTACT
65 ACCCTGGAGACTTCCTTACT
* * ** * *
1722810 TTCAATCTACCTGTCAACTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTTTCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
*
1722875 CCCTGGAGACTTTCTTACCT
66 CCCTGGAGACTTCCTTA-CT
* * * * * *
1722895 TT-AGTCTGCTTATCGGCTTTGACCCTAGAGACTGTCTCATCTCAAGTCTGCTTGTCGACTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* ** *
1722959 CCCTTGAGACCGCCTCA-T
66 CCCTGGAGACTTCCTTACT
* * ** * * *
1722977 CTTAAGTTTGCCTGTCGGCTTTGA-CTT-GAAGACTTTCTTACCTTC-AGTCTGCTTGTCGGCTT
1 -TTCAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTT
* * * *
1723039 TAACCTTGGAGACTACCTCA-T
63 TGACCCTGGAGACTTCCTTACT
* * * * * * *
1723060 TTCAAGTCTGCTTGTTGGCTTTGACCCTAGACACTGTCTCATCTCAAGTCTGCCAGTCAGCTTTG
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * * *
1723125 ACCTTAGAGA-TTTCTTACC
65 ACCCTGGAGACTTCCTTACT
* * * * * *
1723144 TTCAGTCTGTCTATCGGCTTTGACCCTAGAGACTGCCTTATCTCAAGTCTGCCTGTTGGCTTTAA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* *
1723209 CCCTAGAGACTGCCTTA-T
66 CCCTGGAGACTTCCTTACT
* * * * *** * *
1723227 CTTAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTTTTTACCTTC-AGTCTGCCTGTCGGCTTT
1 -TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
* *
1723291 GACCCTAGAGAC-TGCTT-CAT
64 GACCCTGGAGACTTCCTTAC-T
* * * * * * * * *
1723311 CTCAAGTTTGCCTGTCAGCTTTGACCCTAAAGACTACCTTATCTTAAGTCTAGCCTATCGGCTTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCT-GCCTGTCGGCTTT
** *
1723376 GACTTTGGAGACTTTCTTACCT
64 GACCCTGGAGACTTCCTTA-CT
* * * *
1723398 TT-AGTCTGCCTGTCGGCTTTAACCTTAGAGACTGCCTCATCTCAAATCTACCTATCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* * *
1723462 CCCTAGAGACTGCCTCA-T
66 CCCTGGAGACTTCCTTACT
* * * * * ** * * * * *
1723480 CTCAAATCTGCCTATCGGCTTTAACCTTGGAGACTTTCTTACCTTC-AGTCTCCCTATTGGCTTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
* * * *
1723544 GACCCTGAAGACTGCATCA-T
64 GACCCTGGAGACTTCCTTACT
* * * * * **
1723564 CTTAAGTCTGCCTGTTGGCTTTGACCCTAGAGACTGCCTCTTATCAAGTCTGCCTGTCAACTTTG
1 -TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1723629 ACCCTGAAGACTTTCATACT
65 ACCCTGGAGACTTCCTTACT
* * * *
1723649 TTCAGTCTGCCTGTCGGCTTTGAACTTGGAGACTGCCTCATCTCAAGTCTTGCCTGTCAGTTTTG
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTC-TGCCTGTCGGCTTTG
* * * *
1723714 ACCCTTGAAACTGCCTCA-T
65 ACCCTGGAGACTTCCTTACT
* * * * ** * * ** *
1723733 CTCAAGTCTGCTTGTCGACTTTGACCTTAAAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTG
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * **
1723798 ACCTTGGAGACTACCCCA-T
65 ACCCTGGAGACTTCCTTACT
* * *
1723817 CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCATC-CTAAGTCTGCCTGTCGGCTTT
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTC-AAGTCTGCCTGTCGGCTTT
* * * *
1723881 GACCCTAGAAACTTTCTTACC
64 GACCCTGGAGACTTCCTTACT
* * * * * *
1723902 TTCAATCTGCCTGTCGGTTTTGACCTTAGAGACTGCGTTATCTCAAGTCTGCCTATCGACTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* * *
1723967 CCTTAGAGACTTTCTTACT
66 CCCTGGAGACTTCCTTACT
** * * * *
1723986 TTCAGTCTGCCTGTTAGCTTTAACCTTGGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
* * ** *
1724051 CCCTAGACACTTTTTTACC
66 CCCTGGAGACTTCCTTACT
1724070 TTCAGTCTGCCTGTCGGCTT
1 TTCAGTCTGCCTGTCGGCTT
1724090 AGACTTGGAG
Statistics
Matches: 2425, Mismatches: 609, Indels: 189
0.75 0.19 0.06
Matches are distributed among these distances:
82 14 0.01
83 237 0.10
84 1870 0.77
85 281 0.12
86 19 0.01
87 3 0.00
88 1 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (84 bp):
TTCAGTCTGCCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA
CCCTGGAGACTTCCTTACT
Found at i:1725481 original size:79 final size:79
Alignment explanation
Indices: 1725395--1725611 Score: 292
Period size: 79 Copynumber: 2.7 Consensus size: 79
1725385 GAGATAAAGA
* * *
1725395 CGGGGTTGGAGTATCCCCTCAGAAATAATAGGGCTGGAGTATCCCCGATTGTGGAAAATTGGTGT
1 CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGT
*
1725460 TTTAAAAATAAAAT
66 TCTAAAAATAAAAT
* *
1725474 CGGGGTTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTAGAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGT
**
1725539 TCTGCAAATAAAAT
66 TCTAAAAATAAAAT
** * * * *
1725553 CAAGGTTGGAGTATCCCC-GATGAAATAACGGGGTTAGAGTAACCCCGATTGTGGAAAAT
1 CGGGGTTGGAGTATCCCCTCA-GAAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAAT
1725612 CGATATTTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 1 0.01
79 120 0.99
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGT
TCTAAAAATAAAAT
Found at i:1725735 original size:143 final size:144
Alignment explanation
Indices: 1725478--1725757 Score: 336
Period size: 143 Copynumber: 2.0 Consensus size: 144
1725468 TAAAATCGGG
* *
1725478 GTTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTAGAAAATTGATGTTCTG
1 GTTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGACTGTAGAAAATCGATGTTCTG
* * * * * * *
1725543 CAAATAAAATCAAGGTTGGAGTATCCCCGATGAAATAACGGGGTTAGAGTAACCCCGATTGTGGA
66 CAAACAAAACCAAGGTTGGAGTATCCCCGATAAAATAACGAGATAAGAGTAACCCCGATTATGGA
1725608 AAATCGATATTTTA
131 AAATCGATATTTTA
* * * *
1725622 GTTGGAGTATCCCCTCA-AAA-AA-ATGAGGTTGGAGTATCCCCGACTGTGGACAATCGATGTTT
1 GTTGAAGTATCCCCTCAGAAATAACA-G-GGTTGGAGTATCCCCGACTGTAGAAAATCGATGTTC
* * * *
1725684 TGGAAACAAAACCGAGGTTGGAGTATCTCCTC-A-AAAATTACGAGATAAGAGTATCCCCGATTA
64 TGCAAACAAAACCAAGGTTGGAGTATC-CC-CGATAAAATAACGAGATAAGAGTAACCCCGATTA
1725747 TGGAAAATCGA
127 TGGAAAATCGA
1725758 GGTTTTAGAA
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
141 1 0.01
142 3 0.03
143 91 0.79
144 19 0.17
145 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (144 bp):
GTTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGACTGTAGAAAATCGATGTTCTG
CAAACAAAACCAAGGTTGGAGTATCCCCGATAAAATAACGAGATAAGAGTAACCCCGATTATGGA
AAATCGATATTTTA
Found at i:1725763 original size:79 final size:78
Alignment explanation
Indices: 1725622--1725773 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 78
1725612 CGATATTTTA
* * ** * * * *
1725622 GTTGGAGTATCCCCTCAAAAAAATGAGGTTGGAGTATCCCCGACTGTGGACAATCGATGTTTTGG
1 GTTGGAGTATCCCCTCAAAAAAACGAGATAAGAGTATCCCCGACTATGGAAAATCGAGGTTTTAG
1725687 AAACAAAACCGAG
66 AAACAAAACCGAG
* * *
1725700 GTTGGAGTATCTCCTCAAAAATTACGAGATAAGAGTATCCCCGATTATGGAAAATCGAGGTTTTA
1 GTTGGAGTATCCCCTCAAAAA-AACGAGATAAGAGTATCCCCGACTATGGAAAATCGAGGTTTTA
*
1725765 GAAATAAAA
65 GAAACAAAA
1725774 ACATGAATGA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
78 20 0.33
79 41 0.67
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (78 bp):
GTTGGAGTATCCCCTCAAAAAAACGAGATAAGAGTATCCCCGACTATGGAAAATCGAGGTTTTAG
AAACAAAACCGAG
Found at i:1728749 original size:41 final size:41
Alignment explanation
Indices: 1728631--1728766 Score: 150
Period size: 41 Copynumber: 3.2 Consensus size: 41
1728621 GTACGTCTTG
* *
1728631 CTCTTCGAGGACAAAG-GAAAAGAAAGAAATTAAA-TGTGTCCTA
1 CTCTTTGAGGACAAAGAGAAAAG---GAAA-TAAAGTGCGTCCTA
** *
1728674 CTCTTAAAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCCTG
1 CTCTTTGAGGACAAA-GAGAAAAGGAAATAAAGTGCGTCCTA
* *
1728716 CTCTTTGAGGACAAAGAGAAAAGGAAATCAAGTGCATCCTA
1 CTCTTTGAGGACAAAGAGAAAAGGAAATAAAGTGCGTCCTA
1728757 CTCTTTGAGG
1 CTCTTTGAGG
1728767 GCTAGAAGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
41 37 0.46
42 24 0.30
43 13 0.16
44 1 0.01
45 6 0.07
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (41 bp):
CTCTTTGAGGACAAAGAGAAAAGGAAATAAAGTGCGTCCTA
Found at i:1728856 original size:61 final size:60
Alignment explanation
Indices: 1728752--1729253 Score: 573
Period size: 61 Copynumber: 8.3 Consensus size: 60
1728742 ATCAAGTGCA
* * * ***
1728752 TCCTACTCTTTGAGGGCTAGAAGATGCCACCAACTTGTTTGGGCTTTGCTAGGAGAAAGCG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCG
* * *
1728813 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGTG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCG
* * *
1728872 TCCTACTCTTTGAGGATTGGAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCG
* *
1728933 TCCTACTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCG
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCG
* * * * *
1728994 TCCTACTCTTTGAGGA-TTGAAAGGTGTCACCAACTTGTATGGGCTTTAAAAGGAAATGGCT
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-AGCG
* * *
1729055 TTCTCCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCG
* * * * *
1729116 TCTTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGTG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCG
* * * * * * * *
1729175 TCATGCTCTTTGCGGACTGGAAGGTGCCGCCAACTTATGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCG
1729236 TCCTACTCTTTGAGGACT
1 TCCTACTCTTTGAGGACT
1729254 GAAAGGATAA
Statistics
Matches: 380, Mismatches: 51, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
59 98 0.26
60 14 0.04
61 266 0.70
62 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (60 bp):
TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCG
Found at i:1728965 original size:120 final size:120
Alignment explanation
Indices: 1728752--1729251 Score: 623
Period size: 120 Copynumber: 4.1 Consensus size: 120
1728742 ATCAAGTGCA
** * ***
1728752 TCCTACTCTTTGAGGGCTAGAAGATGCCACCAACTTGTTTGGGCTTTGCTAGGAGAAAGCGTCCT
1 TCCTACTCTTTGAGGATTAGAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCGTCCT
*
1728817 GCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GTG
64 GCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
*
1728872 TCCTACTCTTTGAGGATTGGAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGATTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCCT
* * * *
1728937 ACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCG
64 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
* * * * *
1728994 TCCTACTCTTTGAGGATT-GAAAGGTGTCACCAACTTGTATGGGCTTTAAAAGGAAATGGCTTTC
1 TCCTACTCTTTGAGGATTAG-AA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-AGCGTCC
*
1729058 TCCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
63 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
* * * *
1729116 TCTTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGTGTCATG
1 TCCTACTCTTTGAGGATTAG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCTG
* * * * * **
1729180 CTCTTTGCGGACTGGAAGGTGCCGCCAACTTATGTGGGCTTTAAAAGAAAAAGGCA
65 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1729236 TCCTACTCTTTGAGGA
1 TCCTACTCTTTGAGGA
1729252 CTGAAAGGAT
Statistics
Matches: 332, Mismatches: 40, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
119 3 0.01
120 162 0.49
121 10 0.03
122 153 0.46
123 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (120 bp):
TCCTACTCTTTGAGGATTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
Found at i:1732821 original size:20 final size:20
Alignment explanation
Indices: 1732796--1732871 Score: 98
Period size: 21 Copynumber: 3.7 Consensus size: 20
1732786 AAATTATCCA
1732796 AATGTATCGATACATTGTAG
1 AATGTATCGATACATTGTAG
*
1732816 AATGTATCGATACATTTGTGG
1 AATGTATCGATACA-TTGTAG
** *
1732837 AATGTATCGATACATCCTACA
1 AATGTATCGATACATTGTA-G
1732858 AATGTATCGATACA
1 AATGTATCGATACA
1732872 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 16 0.33
21 33 0.67
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGTAG
Found at i:1732931 original size:19 final size:19
Alignment explanation
Indices: 1732907--1732974 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1732897 AATTCAACAA
1732907 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1732926 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1732941 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1732958 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1732975 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1732946 original size:13 final size:13
Alignment explanation
Indices: 1732928--1732952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1732918 ACATAAGTTT
1732928 TGTATCGATACAA
1 TGTATCGATACAA
1732941 TGTATCGATACA
1 TGTATCGATACA
1732953 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1732950 original size:32 final size:32
Alignment explanation
Indices: 1732909--1732971 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1732899 TTCAACAATT
*
1732909 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1732941 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1732972 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1733032 original size:13 final size:13
Alignment explanation
Indices: 1733014--1733039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1733004 CATTTTTCTG
1733014 TGTATCGATACAT
1 TGTATCGATACAT
1733027 TGTATCGATACAT
1 TGTATCGATACAT
1733040 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1733036 original size:33 final size:33
Alignment explanation
Indices: 1732994--1733060 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1732984 GCCAAGGAAA
***
1732994 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1733027 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1733060 T
1 T
1733061 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1735803 original size:9 final size:9
Alignment explanation
Indices: 1735791--1735853 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
1735781 TGTTGAAAAG
1735791 AAAAAAG-A
1 AAAAAAGAA
1735799 AAAAAAGAGA
1 AAAAAAGA-A
1735809 AAAAAAGAA
1 AAAAAAGAA
1735818 AAAAAAG--
1 AAAAAAGAA
1735825 -AAAAA-AA
1 AAAAAAGAA
1735832 AAAAAAGAA
1 AAAAAAGAA
1735841 AAAAAAGAA
1 AAAAAAGAA
1735850 AAAA
1 AAAA
1735854 GATGAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
6 5 0.10
8 12 0.24
9 23 0.47
10 9 0.18
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:1735806 original size:15 final size:14
Alignment explanation
Indices: 1735786--1735894 Score: 94
Period size: 14 Copynumber: 7.4 Consensus size: 14
1735776 TTGGTTGTTG
*
1735786 AAAAGAAAAAAGAA
1 AAAAAAAAAAAGAA
* *
1735800 AAAAAGAGAAA-AA
1 AAAAAAAAAAAGAA
*
1735813 AAGAAAAAAAAGAA
1 AAAAAAAAAAAGAA
1735827 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAG-AA
1735842 AAAAAGAAAAAAGATGA
1 AAAAA-AAAAAAGA--A
*
1735859 AAATAAAAAAGGAGAA
1 AAA-AAAAAA-AAGAA
*
1735875 AAAAAAGGAAAAGAA
1 AAAAAA-AAAAAGAA
1735890 AAAAA
1 AAAAA
1735895 TTCTAAAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.13
14 21 0.27
15 20 0.26
16 13 0.17
17 8 0.10
18 5 0.06
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:1735835 original size:33 final size:33
Alignment explanation
Indices: 1735786--1735879 Score: 129
Period size: 32 Copynumber: 2.8 Consensus size: 33
1735776 TTGGTTGTTG
1735786 AAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAA
1 AAAAGAAAAAA-AAAAAAAGAGAAAAAAAGAAAA
1735820 AAAAGAAAAAAAAAAAAAGA-AAAAAAAGAAAA
1 AAAAGAAAAAAAAAAAAAGAGAAAAAAAGAAAA
* * *
1735852 AAGATG-AAAATAAAAAAGGAGAAAAAAA
1 AA-AAGAAAAAAAAAAAAAGAGAAAAAAA
1735880 AGGAAAAGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
32 26 0.47
33 18 0.33
34 11 0.20
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (33 bp):
AAAAGAAAAAAAAAAAAAGAGAAAAAAAGAAAA
Found at i:1735860 original size:10 final size:8
Alignment explanation
Indices: 1735786--1735894 Score: 84
Period size: 8 Copynumber: 13.5 Consensus size: 8
1735776 TTGGTTGTTG
1735786 AAAAG-AA
1 AAAAGAAA
1735793 AAAAGAAAA
1 AAAAG-AAA
1735802 AAAGAGAAA
1 AAA-AGAAA
1735811 AAAAGAAA
1 AAAAGAAA
1735819 AAAA-AGAA
1 AAAAGA-AA
1735827 AAAA-AAA
1 AAAAGAAA
1735834 AAAAGAAAA
1 AAAAG-AAA
1735843 AAAAGAAA
1 AAAAGAAA
1735851 AAAGATGAAA
1 AAA-A-GAAA
*
1735861 ATAA-AAA
1 AAAAGAAA
**
1735868 AGGAGAAA
1 AAAAGAAA
**
1735876 AAAA-AGG
1 AAAAGAAA
1735883 AAAAGAAA
1 AAAAGAAA
1735891 AAAA
1 AAAA
1735895 TTCTAAAAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
7 22 0.27
8 32 0.39
9 21 0.25
10 8 0.10
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAGAAA
Found at i:1735868 original size:1 final size:1
Alignment explanation
Indices: 1735786--1735853 Score: 64
Period size: 1 Copynumber: 68.0 Consensus size: 1
1735776 TTGGTTGTTG
* * * * * * * *
1735786 AAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAAAAAAGAAAAAAAAAAAAAGAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1735851 AAA
1 AAA
1735854 GATGAAAATA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:1735887 original size:33 final size:31
Alignment explanation
Indices: 1735786--1735894 Score: 114
Period size: 32 Copynumber: 3.4 Consensus size: 31
1735776 TTGGTTGTTG
*
1735786 AAAAGAAAAAAGAAAAAAAGAG-AAAAAAAGAA
1 AAAAGAGAAAA-AAAAAAAGAGAAAAAAAAG-A
* *
1735818 AAAAAAGAAAAAAAAAAAAAGAAAAAAAAGAA
1 AAAAGAGAAAAAAAAAAAGAGAAAAAAAAG-A
* *
1735850 AAAAGATGAAAATAAAAAAGGAGAAAAAAAAGG
1 AAAAGA-GAAAA-AAAAAAAGAGAAAAAAAAGA
1735883 AAAAGA-AAAAAA
1 AAAAGAGAAAAAA
1735895 TTCTAAAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
30 2 0.03
31 13 0.19
32 24 0.36
33 11 0.16
34 17 0.25
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (31 bp):
AAAAGAGAAAAAAAAAAAGAGAAAAAAAAGA
Found at i:1735895 original size:33 final size:32
Alignment explanation
Indices: 1735785--1735895 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 32
1735775 TTTGGTTGTT
1735785 GAAAAGAAAAAAGA-AAAAAAGAG-AAAAAAA-
1 GAAAAGAAAAAA-ATAAAAAAGAGAAAAAAAAG
* * *
1735815 GAAAAAAAAGAAAAAAAAAAAAAGAAAAAAAAG
1 GAAAAGAAA-AAAATAAAAAAGAGAAAAAAAAG
* **
1735848 AAAAAAGATGAAAATAAAAAAGGAGAAAAAAAAG
1 -GAAAAGAAAAAAATAAAAAA-GAGAAAAAAAAG
1735882 GAAAAGAAAAAAAT
1 GAAAAGAAAAAAAT
1735896 TCTAAAAACA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
30 9 0.14
31 11 0.17
32 7 0.11
33 21 0.33
34 16 0.25
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (32 bp):
GAAAAGAAAAAAATAAAAAAGAGAAAAAAAAG
Found at i:1735903 original size:57 final size:57
Alignment explanation
Indices: 1735786--1735894 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
1735776 TTGGTTGTTG
1735786 AAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAAAAAAGAAAAAAAAAAAAAGAAAA
1 AAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAAAAAAGAAAAAAAAAAAAAGAAAA
** * * * *
1735843 AAAAGAAAAAAGATGAAAATA-AAAAAGGAGAAAAAAAAGGAAAAGAAAAAAA
1 AAAAGAAAAAAGAAAAAAAGAGAAAAA-AAGAAAAAAAAGAAAAAAAAAAAAA
1735895 TTCTAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 5 0.11
57 40 0.89
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (57 bp):
AAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAAAAAAGAAAAAAAAAAAAAGAAAA
Found at i:1736271 original size:35 final size:36
Alignment explanation
Indices: 1736227--1736311 Score: 115
Period size: 35 Copynumber: 2.4 Consensus size: 36
1736217 GACTACTCGA
*
1736227 TCAAA-TTTTTCCATCA-TCATTTGACTATA-TCTGG
1 TCAAACTTTTTTCATCATTCATTTGACTATACT-TGG
*
1736261 TCAAACTTTTTTC-TTATTCATTTGACTATACTTGG
1 TCAAACTTTTTTCATCATTCATTTGACTATACTTGG
1736296 TCAAACTTTTTTCATC
1 TCAAACTTTTTTCATC
1736312 CCTCTGACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 7 0.16
35 35 0.80
36 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (36 bp):
TCAAACTTTTTTCATCATTCATTTGACTATACTTGG
Found at i:1736910 original size:42 final size:42
Alignment explanation
Indices: 1736704--1739821 Score: 266
Period size: 42 Copynumber: 75.2 Consensus size: 42
1736694 GTTTTAACCC
* * * * *
1736704 TGGAGACTT-CTTCACCCTTAAGTTTGCCTATCGGCTTTGACGT
1 TGGAGACTTCCTT-A-CCTTCAGTCTGCCTGTCAGCTTTGACTT
* * **
1736747 TGGAGA-TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* ** * * *
1736788 TAGAGACTAACTTATC-TCAAGTCTGCCT-T-AGGCTTGGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCA-GCTTTGACTT
* * * * * *
1736829 TAGAAACAT-CTTCACCCGTAAGTCTG-CTCTC-GACTTTGACTT
1 TGGAGACTTCCTT-A-CCTTCAGTCTGCCTGTCAG-CTTTGACTT
* **
1736871 TGGAGACTTCCTTTCCTTCAGTCTGCCTGTTGGCTTTGACTT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * *
1736913 TGGAGACTTTCATACCTTAAGTCT-CCTTGTCAGCTTTAACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCC-TGTCAGCTTTGACTT
* * *
1736955 TGGAGACTACCTCATC-TCAAGTCTGCCTGTC-GACTTTGACTT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACTT
* * * * **
1736997 TAGAGACTTTCTTACCTTCAGCCTGCTTGTCAGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
** * * * * * **
1737039 TACAG-CTGCCTCATC-TCAATTCTGCCTGTCGGCTTTGACCC
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * * * **
1737080 TGAAGACTGCCTAATC-TCAAGTTTG-CTATC-GACTTTGACCC
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACTT
* * * * * ** *
1737121 TGAACAC-TACTT-CATCTCAAGTGTGCCTGTTGGCTTTGACCT
1 TGGAGACTTCCTTACCT-TC-AGTCTGCCTGTCAGCTTTGACTT
* * * * **
1737163 TGGAAACTGT-CTT-TC-TCAGTCTGCCTGT-GGCTTTAACCC
1 TGGAGACT-TCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
** * * * ** *
1737202 TAAAGACTTTCTTACTTTCAGTGTGCCTGTTGGCTTTGAAC-C
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTG-ACTT
* * * * * *
1737244 T--AGACATTACCTCATC-TCAAGTCTGCCTATCGGTTTTGACCCT
1 TGGAGAC-TT-CCTTACCTTC-AGTCTGCCTGTCAGCTTTGA-CTT
* * * * *
1737287 T-GAGACTGCCTCATC-TCAAGTCTGCCTATC-GACTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACTT
* * * * * * *
1737328 TAG-GACTTTCTTACCTTTAGTCTGCCTGTCGGTTTTAACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * *
1737369 TGGAGACTGCCTCATC-TCAAGTCTACTTATCAGCTTTGACCCTA
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGA--CTT
* * * * * * * *
1737413 TAGAAACTACCTCATC-TCAAATCTGCCTGTCAACTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * *
1737455 TGG-GACTTTCTTACTTTCAATCTGCCTGTCGGCTTTGACTC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * *
1737496 TGGAGACTACTTTATC-TCAAGTTTGCTTGTCAACTTTGGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTT-GACTT
* * * * * * **
1737539 AGG-GACTGCCTCATCTTAAGTCTGCCTTTCAGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * * * *
1737580 TAG-GACTTTCATACCTTTAGTTTGCTTATCGGCTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * * * *
1737621 TGGAGGCTGCCTCATC-TCAAGTTTGCTTGCCGGCTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * *
1737663 TGGAGACTTTCTTACTTTCAG-CTTGTCTGTCGGCTTTG-CCT
1 TGGAGACTTCCTTACCTTCAGTC-TGCCTGTCAGCTTTGACTT
* * * * ** **
1737704 TGGAGA-TTTCTTACTTTCAGCCTGTCTGTTGGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * *
1737745 TGGAGACTACCTCATC-TCAAGTCTGCCAT-T--GCTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCC-TGTCAGCTTTGACTT
* * ** *
1737785 TAGAAACTTTTTTACCTTCAGTCTGCCTGTCAGCTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* ** * * **
1737827 TAGAGACTGT-CTTA--TTCAAGTCTGATTATCAACTTTGACCC
1 TGGAGACT-TCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
** * * * * **
1737868 TAAAGACTGCCTCATC-TCAAGTCTGTC-GATTGGCTTTGAC-T
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTG-TCAGCTTTGACTT
* * * *
1737909 TGGAGACTT-TTGTACCTTCAGTTTGCTTGTC-GACTTTGACCT
1 TGGAGACTTCCT-TACCTTCAGTCTGCCTGTCAG-CTTTGACTT
* * * **
1737951 TGGAGAC-TGCTT-CATCTCAAGTCTAACCTG-CAGGCTTTGACCC
1 TGGAGACTTCCTTACCT-TC-AGTCT-GCCTGTCA-GCTTTGACTT
* * * * * *
1737994 TAGAGACTGCCTCA-TTTCAAGTCTGCTTGTC-GACTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACTT
** * * **
1738036 TGGAGACTTTTTTTCCTTCAGTCTGCCTGTCGGC--TGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * *
1738076 TAGAGACTGCCTCATC-TCAAGTCTACCTGTCGGCTTTGACAT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
** * *
1738118 TGGAGACTTTTTTACCTTCAGTCTACCTGTC-GACTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAG-CTTTGACTT
* * * * **
1738160 TGGAGAC-T-GTT-CATCTCAAGTCTGCCTGTCGGCTTTAACCC
1 TGGAGACTTCCTTACCT-TC-AGTCTGCCTGTCAGCTTTGACTT
* * * * * **
1738201 TGGAGACTGCCTCATC-TCAAGTCTACCTGTCGGCTTTGACCA
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * *
1738243 TGGAGACTTTCTTACCTT-TGTCTGCCTATCGGCTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * **
1738284 TGGAGGCTGCCTCATC-TCAAGTCTGCCTGTGA-CTTTGACCC
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * ** **
1738325 TGGAGACTGCC-TATC-TCAAGTCTGCCTGTTGGCTTTGACCC
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * * *
1738366 TGGAGA-TGCCTCATC-TCAAGTCTGCCTATC-GACTTTGGCCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACTT
* * * * * *
1738407 TAGAGCCTTTCTTACCTTCAGT-TGCATGTTAGCTTTGACCCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGA-CTT
* * * * * * ** *
1738449 AGG-GACTGCCTCATC-TCAAGTCCGCCTATTGGCTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * * *
1738490 TGGAAACTGCCTCATC-TCAAGT-TGCCTGTCAGCTTTGCCCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * * * **
1738531 TGAAGACTTTCTTACTTTCAATCTACTTGTC-GACTTTG-CCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAG-CTTTGACTT
* * * * * * * *
1738572 TAGAGACTGCCTCATC-TCAAGTTTGCCTTTCGGCTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * * **
1738614 TGGAGACTTTC-TA-CTTTAGTCTGCTTATCGGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * *
1738654 TAGAGAC-TGCTCATC-TCAAGTCTGCTTGT-TGACTTTGACCCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGA-CTT
** * * * * *
1738696 T-GAGACCGCCTCATCTTAAGTTTGCCTGTCGGCTTTGAC-T
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * *
1738736 TGAAGACTTTCTT-CCTTCAGTCTGCTTGTCGGCTTTAACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * ** * * * ** **
1738777 TGGAGACTACCTCATTTTAAGTCTACTTGTTGGCTTTG-CCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * *
1738818 TAGAGACTGT-CTCATC-TCAAGTCTGCCAGTCAGCTTTGACCT
1 TGGAGACT-TCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * *
1738860 TAGAGA-TTTCTTATCTTCAGTCTGCCTATCGGCTTTGAC--
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
** * * * * * **
1738899 CCGAGACTGCCTTATC-TCAAGTCTGCCTTTCGGCTTTAACCC
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * ** * * * * *
1738941 TAGAGACTGCCTTATTTTAAGT-TCCCTATCAACTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
** * * **
1738982 TGGAGACTTTTTTACCTTCAGTCTTCCTGTCGGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * **
1739024 TAGAGA-TTGCTT-CATCTCAAGTTTGCCTGTCAGCTTTGACCC
1 TGGAGACTTCCTTACCT-TC-AGTCTGCCTGTCAGCTTTGACTT
** * * * * * *
1739066 TAAAGACTACCTTATCTTAAGTCTACCTATCGGCTTTGACTT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * *
1739108 TGGAGACTTTCTTACCTTTAGTCTGCATGTCGGCTTTAACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
** * * * * **
1739150 TAAAGACTGCC-T--CTCTCA-TTTGCCTATCGGCTTTGACCC
1 TGGAGACTTCCTTACCT-TCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * * * *
1739189 TAGAGACTGCCTCATC-TCAAATCTGCCTATCGGCTTTAACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * **
1739231 TGGAGACTTTCTTACCTTCAGTGTGCCTATTAGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * * ** **
1739273 TGAAGACTGCATCATCTTAAGTCTGCCTATTGGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * **
1739315 TGGAGACTGCC-T-CTTATCAAGTCTGCCTGTCAACTTTGACCC
1 TGGAGACTTCCTTACCT-TC-AGTCTGCCTGTCAGCTTTGACTT
* * * * *
1739357 TGAAGACTTTCATACTTTCAGTCTGCCTGTCGGCTTTGAAC-T
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTG-ACTT
* * * * *
1739399 TGGAGACTGCCTCATC-TCAAGTCTTGCCTGTCAGTTTTGACCCT
1 TGGAGACTTCCTTACCTTC-AGTC-TGCCTGTCAGCTTTGA-CTT
* * * * * *
1739443 T-GAAACTGCCTCATC-TCAGTCTGCTTGTC-GACTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAG-CTTTGACTT
* * * * * *
1739483 TAGAGACTTTCTTACCTTTAGTCTACCTGTCGGCTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* ** * * **
1739525 TGGAGACTACCCCATC-TCAAGTCTGCCTGTCGGCTTTGACCC
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAGCTTTGACTT
* * * * **
1739567 TGGAGACTACCTCATCC-TAAGTCTGCCTGTCGGCTTTGACCC
1 TGGAGACTTCCTTA-CCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * * *
1739609 TAGAAACTTTCTTACCTTCAATCTGCCTGTCGGTTTTGACCT
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * * * * *
1739651 TAGAGACTGCGTTATC-TCAAGTCTGCCTATC-GACTTTGACCT
1 TGGAGACTTCCTTACCTTC-AGTCTGCCTGTCAG-CTTTGACTT
* * * * * *
1739693 TAGAGACTTTCTTA-CTT-AGTCGTTCCTGT-TGCTTTAACCT
1 TGGAGACTTCCTTACCTTCAGTC-TGCCTGTCAGCTTTGACTT
* * * * * **
1739733 TGGAGACTACCTCATC-TCAGTCTGCCTATCGGCTTTGACCC
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
* * ** * *
1739774 TAGACACTTTTTTACCTTCAGTCTGCCTGTCGGCTTAGAC-T
1 TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
1739815 TGGAGAC
1 TGGAGAC
1739822 CTCTTTATCT
Statistics
Matches: 2280, Mismatches: 618, Indels: 356
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.00
39 58 0.03
40 263 0.12
41 695 0.30
42 1096 0.48
43 120 0.05
44 47 0.02
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.36
Consensus pattern (42 bp):
TGGAGACTTCCTTACCTTCAGTCTGCCTGTCAGCTTTGACTT
Found at i:1736935 original size:125 final size:124
Alignment explanation
Indices: 1736712--1737040 Score: 290
Period size: 125 Copynumber: 2.6 Consensus size: 124
1736702 CCTGGAGACT
* * * *
1736712 TCTTCACCCTTAAGTTTGCCTATCGGCTTTGACGTTGGAGATTTCTTACCTTCAGTCTGCCTGTC
1 TCTTCACCCGTAAGTCTGCCTATCGACTTTGACGTTGGAGATTCCTTACCTTCAGTCTGCCTGTC
* *
1736777 GGCTTTGACCCTAGAGACTAACTTATCTCAAGTCTGCCTTAGGCTTGGACCTTAGAAACA
66 GGCTTTGACCCTAGAGACTAACATACCTCAAGTCT-CCTTAGGCTTGGACCTTAGAAACA
* * *
1736837 TCTTCACCCGTAAGTCTG-CTCTCGACTTTGACTTTGGAGACTTCCTTTCCTTCAGTCTGCCTGT
1 TCTTCACCCGTAAGTCTGCCTATCGACTTTGACGTTGGAGA-TTCCTTACCTTCAGTCTGCCTGT
* ** * ** * ** * *
1736901 TGGCTTTGACTTTGGAGACTTTCATACCTTAAGTCTCCTT-GTCAGCTTTAACCTTGGAGAC-
65 CGGCTTTGACCCTAGAGACTAACATACCTCAAGTCTCCTTAG---GCTTGGACCTTAGAAACA
* * * * * * * *
1736962 TACCTCA-TC-TCAAGTCTGCCTGTCGACTTTGACTTTAGAGACTTTCTTACCTTCAGCCTGCTT
1 T-CTTCACCCGT-AAGTCTGCCTATCGACTTTGACGTTGGAGA-TTCCTTACCTTCAGTCTGCCT
*
1737025 GTCAGCTTTGACCCTA
63 GTCGGCTTTGACCCTA
1737041 CAGCTGCCTC
Statistics
Matches: 164, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
123 1 0.01
124 24 0.15
125 73 0.45
126 66 0.40
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (124 bp):
TCTTCACCCGTAAGTCTGCCTATCGACTTTGACGTTGGAGATTCCTTACCTTCAGTCTGCCTGTC
GGCTTTGACCCTAGAGACTAACATACCTCAAGTCTCCTTAGGCTTGGACCTTAGAAACA
Found at i:1736978 original size:84 final size:83
Alignment explanation
Indices: 1736723--1739658 Score: 494
Period size: 83 Copynumber: 35.4 Consensus size: 83
1736713 CTTCACCCTT
* * * * * * *
1736723 AAGTTTGCCTATCGGCTTTGACGTTGGAGA-TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* *
1736787 CTAGAGACTAACTTATCTC
65 CTAGAGACTACCTCATCTC
* * * * * * * *
1736806 AAGTCTGCCT-TAGGCTTGGACCTTAGAAACATCTTCA-CCCGTAAGTCTGCTCTC-GACTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGAC-T-TTCATACCTTAAGTCTCCTGTCAG-CTTTGA
** * * *
1736868 CTTTGGAGACTTCCT-TTCCTTC
63 CCCTAGAGACTACCTCAT-C-TC
* * *
1736890 -AGTCTGCCTGTTGGCTTTGACTTTGGAGACTTTCATACCTTAAGTCTCCTTGTCAGCTTTAACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCTCC-TGTCAGCTTTGACC
* *
1736954 TTGGAGACTACCTCATCTC
65 CTAGAGACTACCTCATCTC
* * * * *
1736973 AAGTCTGCCTGTCGACTTTGACTTTAGAGACTTTCTTACCTTCAGCCTGCTTGTCAGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* *
1737038 CTACAG-CTGCCTCATCTC
65 CTAGAGACTACCTCATCTC
* ** * * * * * * *
1737056 AATTCTGCCTGTCGGCTTTGACCCT-GAAGAC-TGCCTAATCTCAAGTTTGCTATC-GACTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAG-AGACTTTCAT-ACCTTAAGTCTCCTGTCAG-CTTTGA
* *
1737118 CCCT-GAACACTACTTCATCTC
63 CCCTAG-AGACTACCTCATCTC
* * * * * * ** * * *
1737139 AAGTGTGCCTGTTGGCTTTGACCTTGGAAACTGTC-TTTC-TCAGTCTGCCTGT-GGCTTTAACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* ** * *
1737201 CTAAAGACTTTCTTACTTTC
65 CTAGAGACTACCTCA-TCTC
* * * * * * * * * * *
1737221 -AGTGTGCCTGTTGGCTTTGAAC-CTAGACA-TTACCTCATCTCAAGTCTGCCTATCGGTTTTGA
1 AAGTCTGCCTGTCGGCTTTG-ACTTTAGAGACTTTCAT-ACCTTAAGTCT-CCTGTCAGCTTTGA
* *
1737283 CCCTTGAGACTGCCTCATCTC
63 CCCTAGAGACTACCTCATCTC
* * * * * * * *
1737304 AAGTCTGCCTATCGACTTTGACCTTAG-GACTTTCTTACCTTTAGTCTGCCTGTCGGTTTTAACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * *
1737368 TTGGAGACTGCCTCATCTC
65 CTAGAGACTACCTCATCTC
* * * * * * * * * *
1737387 AAGTCTACTTATCAGCTTTGACCCTATAGAAACTACCTCAT--CTCAAATCTGCCTGTCAACTTT
1 AAGTCTGCCTGTCGGCTTTGA--CTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTT
* * ** * *
1737450 GA-CCTTGGGACTTTCTTACTTTC
61 GACCCTAGAGACTACCTCA-TCTC
* * * * * * *
1737473 AA-TCTGCCTGTCGGCTTTGACTCTGGAGACTACTT--TATCTCAAGTTTGCTTGTCAACTTTGG
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTT-G
* * *
1737535 A-CCTAGGGACTGCCTCATCTT
62 ACCCTAGAGACTACCTCATCTC
* * ** * * * * *
1737556 AAGTCTGCCTTTCAGCTTTGACCCTAG-GACTTTCATACCTTTAGTTTGCTTATCGGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * * *
1737620 TTGGAGGCTGCCTCATCTC
65 CTAGAGACTACCTCATCTC
* * * * * * * * * *
1737639 AAGTTTGCTTGCCGGCTTTGACCTTGGAGACTTTCTTACTTTCAG-CTTGTCTGTCGGCTTTG-C
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTC-T-CCTGTCAGCTTTGAC
* * ** * *
1737702 CTTGGAGA-TTTCTTACTTTC
64 CCTAGAGACTACCTCA-TCTC
* * * ** * * *
1737722 -AGCCTGTCTGTTGGCTTTGACCCTGGAGACTACCTCAT--CTCAAGTCTGCCAT-T--GCTTTG
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CC-TGTCAGCTTTG
* * *** * *
1737781 ACCTTAGAAACTTTTTTACCTTC
62 ACCCTAGAGACTACCTCATC-TC
* * * * ** * *
1737804 -AGTCTGCCTGTCAGCTTTGACCTTAGAGACTGTCTTA--TTCAAGTCTGATTATCAACTTTGAC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTT-AAGTCT-CCTGTCAGCTTTGAC
* *
1737866 CCTAAAGACTGCCTCATCTC
64 CCTAGAGACTACCTCATCTC
* * * ** * * *
1737886 AAGTCTGTC-GATTGGCTTTGAC-TTGGAGACTTTTGTACCTTCAGTTTGCTTGTC-GACTTTGA
1 AAGTCTGCCTG-TCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAG-CTTTGA
* * * *
1737948 CCTTGGAGACTGCTTCATCTC
63 CCCTAGAGACTACCTCATCTC
* ** * *
1737969 AAGTCTAACCTG-CAGGCTTTGACCCTAGAGACTGCCTCAT---TTCAAGTCTGCTTGTC-GACT
1 AAGTCT-GCCTGTC-GGCTTTGACTTTAGAGACT--TTCATACCTT-AAGTCT-CCTGTCAG-CT
* * ** **
1738029 TTGACCTTGGAGACT-TTTTTTCCTTC
59 TTGACCCTAGAGACTACCTCAT-C-TC
** * * *
1738055 -AGTCTGCCTGTCGGC--TGACCCTAGAGACTGCCTCAT--CTCAAGTCTACCTGTCGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTTGA
** * *** * *
1738115 CATTGGAGACTTTTTTACCTTC
63 CCCTAGAGACTACCTCATC-TC
* * * * * * *
1738137 -AGTCTACCTGTCGACTTTGACCTTGGAGACTGTTCAT--CTCAAGTCTGCCTGTCGGCTTTAAC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT-TTCATACCTTAAGTCT-CCTGTCAGCTTTGAC
* *
1738199 CCTGGAGACTGCCTCATCTC
64 CCTAGAGACTACCTCATCTC
* ** * * * * *
1738219 AAGTCTACCTGTCGGCTTTGACCATGGAGACTTTCTTACCTT-TGTCTGCCTATCGGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * * *
1738283 TTGGAGGCTGCCTCATCTC
65 CTAGAGACTACCTCATCTC
* ** * * * * * **
1738302 AAGTCTGCCTGT-GACTTTGACCCTGGAGAC-TGCCTATCTCAAGTCTGCCTGTTGGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* *
1738365 CTGGAGA-TGCCTCATCTC
65 CTAGAGACTACCTCATCTC
* * * * * * * * *
1738383 AAGTCTGCCTATCGACTTTGGCCTTAGAGCCTTTCTTACCTTCAGT-TGCATGTTAGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* *
1738447 CTAGGGACTGCCTCATCTC
65 CTAGAGACTACCTCATCTC
* * * * * * * *
1738466 AAGTCCGCCTATTGGCTTTGACCTTGGAAACTGCCTCAT--CTCAAGT-TGCCTGTCAGCTTTG-
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTTGA
* ** * *
1738527 CCCTTGAAGACTTTCTTACTTTC
63 CCCTAG-AGACTACCTCA-TCTC
* * * ** * * * * *
1738550 AA-TCTACTTGTCGACTTTG-CCCTAGAGACTGCCTCAT--CTCAAGTTTGCCTTTCGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTTGA
* * ** *
1738611 CCTTGGAGACTTTCT-A-CTT
63 CCCTAGAGACTACCTCATCTC
* * * ** * * * *
1738630 TAGTCTGCTTATCGGCTTTGACCCTAGAGACTGCTCAT--CTCAAGTCTGCTTGT-TGACTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT-TTCATACCTTAAGTCT-CCTGTCAG-CTTTGA
* ** *
1738692 CCCTTGAGACCGCCTCATCTT
63 CCCTAGAGACTACCTCATCTC
* * * * * * *
1738713 AAGTTTGCCTGTCGGCTTTGACTTGA-AGACTTTC-TTCCTTCAGTCTGCTTGTCGGCTTTAACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * * *
1738776 TTGGAGACTACCTCATTTT
65 CTAGAGACTACCTCATCTC
* * * ** * *
1738795 AAGTCTACTTGTTGGCTTTG-CCCTAGAGACTGTCTCAT--CTCAAGTCTGCCAGTCAGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT-T-TCATACCTTAAGTCT-CCTGTCAGCTTTGA
* ** *
1738857 CCTTAGAGA-TTTCTTATCTTC
63 CCCTAGAGACTACCTCATC-TC
* ** ** * * * * * *
1738878 -AGTCTGCCTATCGGCTTTGAC--CCGAGACTGCCTTATCTCAAGTCTGCCTTTCGGCTTTAACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * * *
1738940 CTAGAGACTGCCTTATTTT
65 CTAGAGACTACCTCATCTC
* * ** * * ** * *
1738959 AAGT-TCCCTATCAACTTTGACCTTGGAGACTTTTTTACCTTCAGTCTTCCTGTCGGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTC-TCCTGTCAGCTTTGACC
* * *
1739023 CTAGAGATTGCTTCATCTC
65 CTAGAGACTACCTCATCTC
* * ** * ** * * * * *
1739042 AAGTTTGCCTGTCAGCTTTGACCCTAAAGACTACCTTATCTTAAGTCTACCTATCGGCTTTGACT
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * ** * * *
1739107 TTGGAGACTTTCTTACCTT
65 CTAGAGACTACCTCATCTC
* * * * * * * * * * *
1739126 TAGTCTGCATGTCGGCTTTAACCTTAAAGAC-TGCCT--CTCTCA-TTTGCCTATCGGCTTTGAC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCT-TAAGTCT-CCTGTCAGCTTTGAC
*
1739187 CCTAGAGACTGCCTCATCTC
64 CCTAGAGACTACCTCATCTC
* * * * * * * * * *
1739207 AAATCTGCCTATCGGCTTTAACCTTGGAGACTTTCTTACCTTCAGTGTGCCTATTAGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * *
1739272 CT-GAAGACTGCATCATCTT
65 CTAG-AGACTACCTCATCTC
* * ** * * * * *
1739291 AAGTCTGCCTATTGGCTTTGACCCTGGAGACTGCCTCTTA--TCAAGTCTGCCTGTCAACTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTTGA
*
1739354 CCCT-GAAGACT--TTCATACTTTC
63 CCCTAG-AGACTACCTCAT-C--TC
* * * *
1739376 -AGTCTGCCTGTCGGCTTTGAAC-TTGGAGACTGCCTCAT--CTCAAGTCTTGCCTGTCAGTTTT
1 AAGTCTGCCTGTCGGCTTTG-ACTTTAGAGACT--TTCATACCTTAAGTC-T-CCTGTCAGCTTT
* * *
1739437 GACCCTTGAAACTGCCTCATCTC
61 GACCCTAGAGACTACCTCATCTC
* * * * * *
1739460 -AGTCTGCTTGTCGACTTTGACCTTAGAGACTTTCTTACCTTTAGTCTACCTGTCGGCTTTGACC
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCT-CCTGTCAGCTTTGACC
* * *
1739524 TTGGAGACTACCCCATCTC
65 CTAGAGACTACCTCATCTC
** * * *
1739543 AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTACCTCAT-CC-TAAGTCTGCCTGTCGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT--TTCATACCTTAAGTCT-CCTGTCAGCTTTGA
* ** * *
1739606 CCCTAGAAACTTTCTTACCTTC
63 CCCTAGAGACTACCTCATC-TC
* *
1739628 AA-TCTGCCTGTCGGTTTTGACCTTAGAGACT
1 AAGTCTGCCTGTCGGCTTTGACTTTAGAGACT
1739659 GCGTTATCTC
Statistics
Matches: 2171, Mismatches: 542, Indels: 279
0.73 0.18 0.09
Matches are distributed among these distances:
79 2 0.00
80 17 0.01
81 246 0.11
82 422 0.19
83 739 0.34
84 585 0.27
85 114 0.05
86 37 0.02
87 6 0.00
88 3 0.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.36
Consensus pattern (83 bp):
AAGTCTGCCTGTCGGCTTTGACTTTAGAGACTTTCATACCTTAAGTCTCCTGTCAGCTTTGACCC
TAGAGACTACCTCATCTC
Found at i:1737076 original size:41 final size:42
Alignment explanation
Indices: 1737019--1739691 Score: 439
Period size: 42 Copynumber: 64.5 Consensus size: 42
1737009 TACCTTCAGC
* * *
1737019 CTGCTTGTCAGCTTTGACCCT-ACAGCTGCCTCATCTCAATT
1 CTGCCTGTCGGCTTTGACCCTGACAGCTGCCTCATCTCAAGT
*
1737060 CTGCCTGTCGGCTTTGACCCTGA-AGACTGCCTAATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * *
1737102 TTG-CTATCGACTTTGACCCTGAACA-CTACTTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTG-ACAGCTGCCTCATCTCAAGT
* * * * * *
1737143 GTGCCTGTTGGCTTTGACCTTGGA-AACTGTCT-TTCTC-AGT
1 CTGCCTGTCGGCTTTGACCCT-GACAGCTGCCTCATCTCAAGT
* * ** * *
1737183 CTGCCTGT-GGCTTTAACCCT-AAAGACTTTCTTACTTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCA-TCTCAAGT
* * * * *
1737224 GTGCCTGTTGGCTTTGAACCTAGACA-TTACCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCT-GACAGCTGCCTCATCTCAAGT
* * *
1737266 CTGCCTATCGGTTTTGACCCTTGAGA-CTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCC-TGACAGCTGCCTCATCTCAAGT
* * * * ** * * **
1737308 CTGCCTATCGACTTTGA-CCTTA-GGACTTTCTTACCTTTAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * *
1737349 CTGCCTGTCGGTTTTAACCTTG-GAGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * * * *
1737391 CTACTTATCAGCTTTGACCCTATAGA-AACTACCTCATCTCAAAT
1 CTGCCTGTCGGCTTTGACCC--T-GACAGCTGCCTCATCTCAAGT
** * ** ** * *
1737435 CTGCCTGTCAACTTTGACCTTGGGA-CTTTCTTACTTTCAA-T
1 CTGCCTGTCGGCTTTGACCCTGACAGCTGCCTCA-TCTCAAGT
* * * * *
1737476 CTGCCTGTCGGCTTTGACTCTG-GAGACTACTTTATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * ** ** *
1737518 TTGCTTGTCAACTTTGGA-CCT-AGGGACTGCCTCATCTTAAGT
1 CTGCCTGTCGGCTTT-GACCCTGACAG-CTGCCTCATCTCAAGT
* * * * **
1737560 CTGCCTTTCAGCTTTGACCCT-A-GGACT--TTCATACCTTTAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCAT--CTCAAGT
* * * * *
1737601 TTGCTTATCGGCTTTGACCTTGGA-GGCTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCT-GACAGCTGCCTCATCTCAAGT
* * * * * ** * *
1737643 TTGCTTGCCGGCTTTGACCTTG-GAGACTTTCTTACTTTC-AG-
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCA-TCTCAAGT
* * * * ** * * *
1737684 CTTGTCTGTCGGCTTTG-CCTTG-GAGATTTCTTACTTTC-AGC
1 C-TGCCTGTCGGCTTTGACCCTGACAGCTGCCTCA-TCTCAAGT
* * * *
1737725 CTGTCTGTTGGCTTTGACCCTG-GAGACTACCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * *** * *
1737767 CTGCCAT-T--GCTTTGACCTTAGA-AACTTTTTTACCTTC-AGT
1 CTGCC-TGTCGGCTTTGACCCT-GACAGCTGCCTCATC-TCAAGT
* * * * *
1737807 CTGCCTGTCAGCTTTGA-CCTTAGAGACTGTCTTAT-TCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
** * ** *
1737848 CTGATTATCAACTTTGACCCT-AAAGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * ** * *
1737890 CTGTC-GATTGGCTTTGA-CTTG-GAGACT-TTTGTACCTTC-AGT
1 CTGCCTG-TCGGCTTTGACCCTGACAG-CTGCCT-CATC-TCAAGT
* * * * * *
1737931 TTGCTTGTCGACTTTGACCTTG-GAGACTGCTTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * *
1737973 CTAACCTG-CAGGCTTTGACCCT-AGAGACTGCCTCATTTCAAGT
1 CT-GCCTGTC-GGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * ** **
1738016 CTGCTTGTCGACTTTGACCTTG-GAGACT-TTTTTTCCTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCAT-C-TCAAGT
*
1738058 CTGCCTGTCGGC--TGACCCT-AGAGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* ** * *** * *
1738098 CTACCTGTCGGCTTTGACATTG-GAGACTTTTTTACCTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATC-TCAAGT
* * * * *
1738140 CTACCTGTCGACTTTGACCTTG-GAGACTG-TTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* *
1738181 CTGCCTGTCGGCTTTAACCCTG-GAGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * ** * * **
1738223 CTACCTGTCGGCTTTGACCATG-GAGACTTTCTTACCT-TTGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * *
1738264 CTGCCTATCGGCTTTGACCTTGGA-GGCTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCT-GACAGCTGCCTCATCTCAAGT
* *
1738306 CTGCCTGT-GACTTTGACCCTG-GAGACTGCCT-ATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * *
1738346 CTGCCTGTTGGCTTTGACCCTG-GAGATGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAGCTGCCTCATCTCAAGT
* * * * * ** * *
1738387 CTGCCTATCGACTTTG-GCCTTAGAGCCTTTCTTACCTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATC-TCAAGT
* ** **
1738429 -TGCATGTTAGCTTTGACCCT-AGGGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * *
1738470 CCGCCTATTGGCTTTGACCTTGGA-AACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCT-GACAGCTGCCTCATCTCAAGT
* ** * *
1738512 -TGCCTGTCAGCTTTG-CCCTTGA-AGACTTTCTTACTTTCAA-T
1 CTGCCTGTCGGCTTTGACCC-TGACAG-CTGCCTCA-TCTCAAGT
* * * *
1738553 CTACTTGTCGACTTTG-CCCT-AGAGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * ** **
1738594 TTGCCTTTCGGCTTTGACCTTG-GAGACTTTCT-A-CTTTAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * *
1738634 CTGCTTATCGGCTTTGACCCT-AGAGACTG-CTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * * *
1738675 CTGCTTGTTGACTTTGACCCTTGAGA-CCGCCTCATCTTAAGT
1 CTGCCTGTCGGCTTTGACCC-TGACAGCTGCCTCATCTCAAGT
* * * * *
1738717 TTGCCTGTCGGCTTTGA-CTTGA-AGACTTTCTTCCT-TC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-C-TGCCTCATCTCAAGT
* * * * * * *
1738757 CTGCTTGTCGGCTTTAACCTTG-GAGACTACCTCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * *
1738799 CTACTTGTTGGCTTTG-CCCT-AGAGACTGTCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * * ** *
1738840 CTGCCAGTCAGCTTTGA-CCTTAGAGATTTCTTATCTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAGCTGCCTCATC-TCAAGT
* * *
1738881 CTGCCTATCGGCTTTGACCC-GAGA-CTGCCTTATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAGCTGCCTCATCTCAAGT
* * * * * *
1738921 CTGCCTTTCGGCTTTAACCCT-AGAGACTGCCTTATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * ** * * *** * *
1738963 -TCCCTATCAACTTTGACCTTG-GAGACTTTTTTACCTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATC-TCAAGT
* * * *
1739004 CTTCCTGTCGGCTTTGACCCT-AGAGATTGCTTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * * *
1739046 TTGCCTGTCAGCTTTGACCCT-AAAGACTACCTTATCTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * ** * ** * * **
1739088 CTACCTATCGGCTTTGACTTTG-GAGACTTTCTTACCTTTAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * *
1739130 CTGCATGTCGGCTTT-AACCTTAAAGACTGCCTC-TCTC-A-T
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * *
1739169 TTGCCTATCGGCTTTGACCCT-AGAGACTGCCTCATCTCAAAT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * ** * *
1739211 CTGCCTATCGGCTTTAACCTTG-GAGACTTTCTTACCTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATC-TCAAGT
* * ** * *
1739253 GTGCCTATTAGCTTTGACCCTGA-AGACTGCATCATCTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * *
1739295 CTGCCTATTGGCTTTGACCCTG-GAGACTGCCTCTTATCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
** *
1739337 CTGCCTGTCAACTTTGACCCTGA-AGACT--TTCATACTTTC-AGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCAT-C--TCAAGT
* * *
1739379 CTGCCTGTCGGCTTTGAACTTG-GAGACTGCCTCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * *
1739421 CTTGCCTGTCAGTTTTGACCCTTGA-AACTGCCTCATCTC-AGT
1 C-TGCCTGTCGGCTTTGACCC-TGACAGCTGCCTCATCTCAAGT
* * * * ** * * **
1739463 CTGCTTGTCGACTTTGA-CCTTAGAGACTTTCTTACCTTTAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* * * * *
1739505 CTACCTGTCGGCTTTGACCTTG-GAGACTACCCCATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* *
1739547 CTGCCTGTCGGCTTTGACCCTG-GAGACTACCTCATC-CTAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTC-AAGT
* ** * *
1739589 CTGCCTGTCGGCTTTGACCCTAGA-AACTTTCTTACCTTCAA-T
1 CTGCCTGTCGGCTTTGACCCT-GACAGCTGCCTCATC-TCAAGT
* * * * *
1739631 CTGCCTGTCGGTTTTGA-CCTTAGAGACTGCGTTATCTCAAGT
1 CTGCCTGTCGGCTTTGACCCTGACAG-CTGCCTCATCTCAAGT
* *
1739673 CTGCCTATCGACTTTGACC
1 CTGCCTGTCGGCTTTGACC
1739692 TTAGAGACTT
Statistics
Matches: 1964, Mismatches: 501, Indels: 332
0.70 0.18 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 53 0.03
40 240 0.12
41 577 0.29
42 949 0.48
43 96 0.05
44 45 0.02
45 2 0.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.36
Consensus pattern (42 bp):
CTGCCTGTCGGCTTTGACCCTGACAGCTGCCTCATCTCAAGT
Found at i:1737382 original size:125 final size:124
Alignment explanation
Indices: 1737206--1737648 Score: 437
Period size: 125 Copynumber: 3.5 Consensus size: 124
1737196 TAACCCTAAA
* * * * * *
1737206 GACTTTCTTA-CTTTCAGTGTGCCTGTTGGCTTTGAACC-TAGACATTACCTCATCTCAAGTCTG
1 GACTTTCTTACCTTT-AGTCTGCCTGTCGGCTTTG-ACCTTGGAGACTGCCTCATCTCAAGTCTG
* *
1737269 CCTATCGGTTTTGACCCTTGAGACTGCCTCATCTCAAGTCTGCCTATCGACTTTGACCTTAG
64 CTTATCAGTTTTGACCCTTGAGACTGCCTCATCTCAAGTCTGCCTATC-ACTTTGACCTTAG
* * *
1737331 GACTTTCTTACCTTTAGTCTGCCTGTCGGTTTTAACCTTGGAGACTGCCTCATCTCAAGTCTACT
1 GACTTTCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCT
* * * * * *
1737396 TATCAGCTTTGACCCTATAGAAACTACCTCATCTCAAATCTGCCTGTCAACTTTGACCTTGG
66 TATCAGTTTTGACCCT-T-GAGACTGCCTCATCTCAAGTCTGCCTATC-ACTTTGACCTTAG
* * * * *
1737458 GACTTTCTTA-CTTTCAATCTGCCTGTCGGCTTTGA-CTCTGGAGACTACTTTATCTCAAGTTTG
1 GACTTTCTTACCTTT-AGTCTGCCTGTCGGCTTTGACCT-TGGAGACTGCCTCATCTCAAGTCTG
* * * * * * * *
1737521 CTTGTCAACTTTGGA-CCTAGGGACTGCCTCATCTTAAGTCTGCCTTTCAGCTTTGACCCTAG
64 CTTATC-AGTTTTGACCCTTGAGACTGCCTCATCTCAAGTCTGCCTATCA-CTTTGACCTTAG
* * * * * *
1737583 GACTTTCATACCTTTAGTTTGCTTATCGGCTTTGACCTTGGAGGCTGCCTCATCTCAAGTTTGCT
1 GACTTTCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCT
1737648 T
66 T
1737649 GCCGGCTTTG
Statistics
Matches: 260, Mismatches: 48, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
124 4 0.02
125 142 0.55
126 17 0.07
127 92 0.35
128 5 0.02
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (124 bp):
GACTTTCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCT
TATCAGTTTTGACCCTTGAGACTGCCTCATCTCAAGTCTGCCTATCACTTTGACCTTAG
Found at i:1737714 original size:40 final size:42
Alignment explanation
Indices: 1737651--1737752 Score: 163
Period size: 40 Copynumber: 2.5 Consensus size: 42
1737641 GTTTGCTTGC
*
1737651 CGGCTTTGACCTTGGAGACTTTCTTACTTTCAGCTTGTCTGT
1 CGGCTTTGACCTTGGAGACTTTCTTACTTTCAGCCTGTCTGT
1737693 CGGCTTTG-CCTTGGAGA-TTTCTTACTTTCAGCCTGTCTGT
1 CGGCTTTGACCTTGGAGACTTTCTTACTTTCAGCCTGTCTGT
* *
1737733 TGGCTTTGACCCTGGAGACT
1 CGGCTTTGACCTTGGAGACT
1737753 ACCTCATCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 29 0.53
41 17 0.31
42 9 0.16
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.40
Consensus pattern (42 bp):
CGGCTTTGACCTTGGAGACTTTCTTACTTTCAGCCTGTCTGT
Found at i:1738107 original size:82 final size:83
Alignment explanation
Indices: 1737987--1739805 Score: 524
Period size: 84 Copynumber: 22.0 Consensus size: 83
1737977 CCTGCAGGCT
* * * *
1737987 TTGACCCTAGAGACTGCCTCATTTCAAGTCTGCTTGTCGACTTTGACCTTGGAGACTTTTTTTCC
1 TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTACC
* *
1738052 TTCAGTCTGCCTGTCGGC
66 TTCAGTCTACCTGTCGAC
* *
1738070 -TGACCCTAGAGACTGCCTCATCTCAAGTCTACCTGTCGGCTTTGACATTGGAGACTTTTTTACC
1 TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTACC
1738134 TTCAGTCTACCTGTCGAC
66 TTCAGTCTACCTGTCGAC
* * * * * *** * *
1738152 TTTGACCTTGGAGACTG-TTCATCTCAAGTCTGCCTGTCGGCTTTAACCCTGGAGACTGCCTCAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
*
1738216 C-TCAAGTCTACCTGTCGGC
65 CTTC-AGTCTACCTGTCGAC
* * ** * * ** * * *** * *
1738235 TTTGACCATGGAGACTTTCTTACCT-TTGTCTGCCTATCGGCTTTGACCTTGGAGGCTGCCTCAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
*
1738299 C-TCAAGTCTGCCTGT-GAC
65 CTTC-AGTCTACCTGTCGAC
* * * *** * *
1738317 TTTGACCCTGGAGACTGCCT-ATCTCAAGTCTGCCTGTTGGCTTTGACCCTGGAGA-TGCCTCAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* *
1738380 C-TCAAGTCTGCCTATCGAC
65 CTTC-AGTCTACCTGTCGAC
* * * ** * * * ** * *** *
1738399 TTTGGCCTTAGAGCCTTTCTTACCTTC-AGT-TGCATGTTAGCTTTGACCCTAGG-GACTGCCTC
1 -TTGACCCTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTTTT
* ** * * *
1738461 ATC-TCAAGTCCGCCTATTGGC
63 ACCTTC-AGTCTACCTGTCGAC
* * * * * * *
1738482 TTTGACCTTGGAAACTGCCTCATCTCAAGT-TGCCTGTCAGCTTTGCCCTTGAAGACTTTCTTAC
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * *
1738546 TTTCAATCTACTTGTCGAC
65 CTTCAGTCTACCTGTCGAC
* * *
1738565 TTTG-CCCTAGAGACTGCCTCATCTCAAGTTTGCCTTTCGGCTTTGACCTTGGAGAC-TTTCTA-
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * * * *
1738627 CTTTAGTCTGCTTATCGGC
65 CTTCAGTCTACCTGTCGAC
* * * **** *
1738646 TTTGACCCTAGAGACTG-CTCATCTCAAGTCTGCTTGTTGACTTTGACCCTT-GAGACCGCCTCA
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTTTTA
* * * * *
1738709 TCTTAAGTTTGCCTGTCGGC
64 CCTTCAGTCTACCTGTCGAC
* * * * * * *** *
1738729 TTTGA--CTTGAAGACTTTCTTCCT-TC-AGTCTGCTTGTCGGCTTTAACCTTGGAGACTACCTC
1 -TTGACCCTAG-AGAC-TGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTT
** * * * *
1738790 ATTTTAAGTCTACTTGTTGGC
63 ACCTTCAGTCTACCTGTCGAC
* * * * * *
1738811 TTTG-CCCTAGAGACTGTCTCATCTCAAGTCTGCCAGTCAGCTTTGACCTTAGAGA-TTTCTTAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * *
1738874 CTTCAGTCTGCCTATCGGC
65 CTTCAGTCTACCTGTCGAC
* * * * * *** *
1738893 TTTGACCC--GAGACTGCCTTATCTCAAGTCTGCCTTTCGGCTTTAACCCTAGAGACTGCCTTAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * * * *
1738956 TTTAAGT-TCCCTATCAAC
65 CTTCAGTCTACCTGTCGAC
* * *** * * * * * **
1738974 TTTGACCTTGGAGACTTTTTTACCTTC-AGTCTTCCTGTCGGCTTTGACCCTAGAGA-TTGCTT-
1 -TTGACCCTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTA
* * *
1739036 CATCTCAAGTTTGCCTGTC-AGC
64 CCT-TC-AGTCTACCTGTCGA-C
* * * * * * * *
1739058 TTTGACCCTAAAGACTACCTTATCTTAAGTCTACCTATCGGCTTTGACTTTGGAGACTTTCTTAC
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * * *
1739123 CTTTAGTCTGCATGTCGGC
65 CTTCAGTCTACCTGTCGAC
* * * * * * * *** * *
1739142 TTTAACCTTAAAGACTGCCTC-TCTC-A-TTTGCCTATCGGCTTTGACCCTAGAGACTGCCTCAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * * *
1739204 C-TCAAATCTGCCTATCGGC
65 CTTC-AGTCTACCTGTCGAC
* * * ** * * * * ** * * *** *
1739223 TTTAACCTTGGAGACTTTCTTACCTTC-AGTGTGCCTATTAGCTTTGACCCTGAAGACTGCATCA
1 -TTGACCCTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTA
* * * * * *
1739287 TCTTAAGTCTGCCTATTGGC
64 CCTTCAGTCTACCTGTCGAC
* * * ** * * **
1739307 TTTGACCCTGGAGACTGCCTCTTATCAAGTCTGCCTGTCAACTTTGACCCTGAAGACTTTCATAC
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* * *
1739372 TTTCAGTCTGCCTGTCGGC
65 CTTCAGTCTACCTGTCGAC
* * * * * * *** *
1739391 TTTGAACTTGGAGACTGCCTCATCTCAAGTCTTGCCTGTCAGTTTTGACCCTT-GAAACTGCCTC
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTC-TGCCTGTCGGCTTTGA-CCTTGGAGACTTTTTT
* * *
1739455 ATC-TCAGTCTGCTTGTCGAC
63 ACCTTCAGTCTACCTGTCGAC
* ** * * ** * ***** *
1739475 TTTGACCTTAGAGACTTTCTTACCTTTAGTCTACCTGTCGGCTTTGACCTTGGAGACTACCCCAT
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
* *
1739540 C-TCAAGTCTGCCTGTCGGC
65 CTTC-AGTCTACCTGTCGAC
* * * * * *
1739559 TTTGACCCTGGAGACTACCTCATC-CTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTTCTTA
1 -TTGACCCTAGAGACTGCCTCATCTC-AAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTA
* * **
1739623 CCTTCAATCTGCCTGTCGGTT
64 CCTTCAGTCTACCTGTC-GAC
* * * * * * *
1739644 TTGACCTTAGAGACTGCGTTATCTCAAGTCTGCCTATCGACTTTGACCTTAGAGACTTTCTTA-C
1 TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTACC
* *
1739708 TT-AGTCGTTCCTGTTG-C
66 TTCAGTC-TACCTGTCGAC
* * * * * * * *
1739725 TTTAACCTTGGAGACTACCTCATCTC-AGTCTGCCTATCGGCTTTGACCCTAGACACTTTTTTAC
1 -TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTAC
*
1739789 CTTCAGTCTGCCTGTCG
65 CTTCAGTCTACCTGTCG
1739806 GCTTAGACTT
Statistics
Matches: 1353, Mismatches: 326, Indels: 115
0.75 0.18 0.06
Matches are distributed among these distances:
80 1 0.00
81 226 0.17
82 335 0.25
83 361 0.27
84 394 0.29
85 31 0.02
86 5 0.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (83 bp):
TTGACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTACC
TTCAGTCTACCTGTCGAC
Found at i:1738232 original size:165 final size:166
Alignment explanation
Indices: 1736634--1739821 Score: 1325
Period size: 165 Copynumber: 19.2 Consensus size: 166
1736624 TGATGCTTTA
* * * * * * * *
1736634 ATCTTCAGTCTGCTTATTGGCTTTAACCTTGG-GATTGCCTCATCTCAAGTCTGCCTGTTGGTTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTG-TTCATCTCAAGTCTGCCTGTCGGCTT
* * * * * * * ** ** * *
1736698 TAACCCTGGAGACTTCTTCACCCTTAAGTTTGCCTATCGGCTTTGACGTTGGAGA-TTTCTTACC
65 TGACCCTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATC
* * **
1736762 TTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTAACTT
128 -TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * * * *
1736801 ATC-TCAAGTCTGCCT-TAGGCTTGGACCTTAGAAACATCTTCA-CCCGTAAGTCTG-CTCTCGA
1 ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGTTCATCTC--AAGTCTGCCTGTCGG
** * * * ** *
1736862 CTTTGACTTTGGAGACTTCCT-TTCCTTC-AGTCTGCCTGTTGGCTTTGACTTTGGAGACT--TT
62 CTTTGACCCTGGAGACTGCCTCAT-C-TCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCT
* * * * *
1736923 CATACCTTAAGTCT-CCTTGTCAGCTTTAACCTTGGAGACTACCTC
124 CAT--CTCAAGTCTGCC-TGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * * *
1736968 ATC-TCAAGTCTGCCTGTCGACTTTGACTTTAGAGACT-TTCTTACCTTC-AGCCTGCTTGTCAG
1 ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTC--ATC-TCAAGTCTGCCTGTCGG
** * * *
1737030 CTTTGACCCTACAG-CTGCCTCATCTCAATTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCTAA
62 CTTTGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCA
* * * * * * *
1737094 TCTCAAGTTTG-CTATCGACTTTGACCCTGAACACT-ACTT
126 TCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * *
1737133 CATC-TCAAGTGTGCCTGTTGGCTTTGACCTTGGAAACTG-TCTTTCTC-AGTCTGCCTGT-GGC
1 -ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTC-ATCTCAAGTCTGCCTGTCGGC
* ** ** * * * * * * * * *
1737194 TTTAACCCTAAAGACTTTCTTACTTTC-AGTGTGCCTGTTGGCTTTGAACCTAGACATTACCTCA
63 TTTGACCCTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCA
* * *
1737258 TCTCAAGTCTGCCTATCGGTTTTGACCCTT-GAGACTGCCTC
126 TCTCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTT
* * * * ** *
1737299 ATC-TCAAGTCTGCCTATCGACTTTGACCTTAG-GACT-TTCTTACCTTTAGTCTGCCTGTCGGT
1 ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTC--ATCTCAAGTCTGCCTGTCGGC
* * * * * * * * *
1737361 TTTAACCTTGGAGACTGCCTCATCTCAAGTCTACTTATCAGCTTTGACCCTATAGAAACTACCTC
63 TTTGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCC--TGGAGACTGCCTC
* ** **
1737426 ATCTCAAATCTGCCTGTCAACTTTGACCTTGG-GACTTTCTT
125 ATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * **
1737467 A-CTTTCAATCTGCCTGTCGGCTTTGA-CTCTGGAGACTACTTTATCTCAAGTTTGCTTGTCAAC
1 ATC-TTCAGTCTGCCTGTCGGCTTTGACCT-TGGAGACT-GTTCATCTCAAGTCTGCCTGTCGGC
* * * * *
1737530 TTTGGA-CCTAGG-GACTGCCTCATCTTAAGTCTGCCTTTCAGCTTTGACCCTAG-GACT--TTC
63 TTT-GACCCT-GGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTC
** * * * * *
1737590 ATACCTTTAGTTTGCTTATCGGCTTTGACCTTGGAGGCTGCCTC
125 AT--CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * *
1737634 ATC-TCAAGTTTGCTTGCCGGCTTTGACCTTGGAGACT-TTCTTACTTTC-AG-CTTGTCTGTCG
1 ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTC--A-TCTCAAGTC-TGCCTGTCG
* ** * * * * * *
1737695 GCTTTG-CCTTGGAGA-TTTCTTACTTTC-AGCCTGTCTGTTGGCTTTGACCCTGGAGACTACCT
61 GCTTTGACCCTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCT
* * ***
1737757 CATCTCAAGTCTGCCAT-T--GCTTTGACCTTAGAAACTTTTTT
124 CATCTCAAGTCTGCC-TGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * ** * **
1737798 ACCTTCAGTCTGCCTGTCAGCTTTGACCTTAGAGACTGTCTTAT-TCAAGTCTGATTATCAACTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGT-TCATCTCAAGTCTGCCTGTCGGCTT
** * * * ** * *
1737862 TGACCCTAAAGACTGCCTCATCTCAAGTCTGTC-GATTGGCTTTGA-CTTGGAGACT-TTTGTAC
65 TGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTG-TCGGC-TTGACCCTGGAGACTGCCT-CAT
* * *
1737924 CTTC-AGTTTGCTTGTCGACTTTGACCTTGGAGACTG-CTT
127 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * *
1737963 CATC-TCAAGTCTAACCTG-CAGGCTTTGACCCTAGAGACTGCCTCATTTCAAGTCTGCTTGTCG
1 -ATCTTC-AGTCT-GCCTGTC-GGCTTTGACCTTGGAGACTG-TTCATCTCAAGTCTGCCTGTCG
* * ** ** *
1738026 ACTTTGACCTTGGAGACT-TTTTTTCCTTC-AGTCTGCCTGTCGGC-TGACCCTAGAGACTGCCT
61 GCTTTGACCCTGGAGACTGCCTCAT-C-TCAAGTCTGCCTGTCGGCTTGACCCTGGAGACTGCCT
* * ***
1738088 CATCTCAAGTCTACCTGTCGGCTTTGACATTGGAGACTTTTTT
124 CATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * *
1738131 ACCTTCAGTCTACCTGTCGACTTTGACCTTGGAGACTGTTCATCTCAAGTCTGCCTGTCGGCTTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTCATCTCAAGTCTGCCTGTCGGCTTT
* * * ** * *
1738196 AACCCTGGAGACTGCCTCATCTCAAGTCTACCTGTCGGCTTTGACCATGGAGACTTTCTTACCT-
66 GACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATCTC
** * * *
1738260 TTGTCTGCCTATCGGCTTTGACCTTGGAGGCTGCCTC
130 AAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * *
1738297 ATC-TCAAGTCTGCCTGT-GACTTTGACCCTGGAGACTG-CCTATCTCAAGTCTGCCTGTTGGCT
1 ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTC-ATCTCAAGTCTGCCTGTCGGCT
* * * * * * ** * *
1738359 TTGACCCTGGAGA-TGCCTCATCTCAAGTCTGCCTATCGACTTTGGCCTTAGAGCCTTTCTTACC
64 TTGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATC
* ** * *
1738423 TTC-AGT-TGCATGTTAGCTTTGACCCTAGG-GACTGCCTC
128 -TCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTT
* * * * * *
1738461 ATC-TCAAGTCCGCCTATTGGCTTTGACCTTGGAAACTGCCTCATCTCAAGT-TGCCTGTCAGCT
1 ATCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTG-TTCATCTCAAGTCTGCCTGTCGGCT
* ** * * * * * *
1738524 TTG-CCCTTGAAGACTTTCTTACTTTCAA-TCTACTTGTCGACTTTG-CCCTAGAGACTGCCTCA
64 TTGACCC-TGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCA
* * **
1738586 TCTCAAGTTTGCCTTTCGGCTTTGACCTTGGAGACTTTC-T
126 TCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * * * * *
1738626 A-CTTTAGTCTGCTTATCGGCTTTGACCCTAGAGACTGCTCATCTCAAGTCTGCTTGTTGACTTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTCATCTCAAGTCTGCCTGTCGGCTTT
* * * * * * * * *
1738690 GACCCTTGAGACCGCCTCATCTTAAGTTTGCCTGTCGGCTTTGA-CTTGAAGACTTTCTTCCT-T
66 GACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGAC-TGCCTCATCT
* * * *
1738753 C-AGTCTGCTTGTCGGCTTTAACCTTGGAGACTACCTC
129 CAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * * * * *
1738790 ATTTTAAGTCTACTTGTTGGCTTTG-CCCTAGAGACTGTCTCATCTCAAGTCTGCCAGTCAGCTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGT-TCATCTCAAGTCTGCCTGTCGGCTT
* * ** * * *
1738854 TGACCTTAGAGA-TTTCTTATCTTC-AGTCTGCCTATCGGCTTTGACCC--GAGACTGCCTTATC
65 TGACCCTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATC
* * * *
1738915 TCAAGTCTGCCTTTCGGCTTTAACCCTAGAGACTGCCTT
128 TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * ** * * * *
1738954 ATTTTAAGT-TCCCTATCAACTTTGACCTTGGAGACTTTTTTACCTTC-AGTCTTCCTGTCGGCT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGTTCATC-TCAAGTCTGCCTGTCGGCT
* * * * * ** * *
1739017 TTGACCCTAGAGATTGCTTCATCTCAAGTTTGCCTGTCAGCTTTGACCCTAAAGACTACCTTATC
64 TTGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATC
* * * * **
1739082 TTAAGTCTACCTATCGGCTTTGACTTTGGAGACTTTCTT
128 TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * ** * * *
1739121 ACCTTTAGTCTGCATGTCGGCTTTAACCTTAAAGACTGCCTC-TCTC-A-TTTGCCTATCGGCTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTG-TTCATCTCAAGTCTGCCTGTCGGCTT
* * * * * ** * *
1739183 TGACCCTAGAGACTGCCTCATCTCAAATCTGCCTATCGGCTTTAACCTTGGAGACTTTCTTACCT
65 TGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATC-
* * ** * * * *
1739248 TC-AGTGTGCCTATTAGCTTTGACCCTGAAGACTGCATC
128 TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * * * **
1739286 ATCTTAAGTCTGCCTATTGGCTTTGACCCTGGAGACTGCCTCTTATCAAGTCTGCCTGTCAACTT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTG-TTCATCTCAAGTCTGCCTGTCGGCTT
* * * *
1739351 TGACCCTGAAGACT--TTCATACTTTC-AGTCTGCCTGTCGGCTTTGAACTTGGAGACTGCCTCA
65 TGACCCTGGAGACTGCCTCAT-C--TCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCA
* * * *
1739413 TCTCAAGTCTTGCCTGTCAGTTTTGACCCTT-GAAACTGCCTC
126 TCTCAAGTC-TGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTT
* * * * ** *
1739455 ATC-TCAGTCTGCTTGTCGACTTTGACCTTAGAGACT-TTCTTACCTTTAGTCTACCTGTCGGCT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTC--ATCTCAAGTCTGCCTGTCGGCT
* * * *
1739518 TTGACCTTGGAGACTACCCCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTACCTCATC
64 TTGACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGC-TTGACCCTGGAGACTGCCTCATC
* * * **
1739583 -CTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTTCTT
128 TC-AAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* * * * * *
1739622 ACCTTCAATCTGCCTGTCGGTTTTGACCTTAGAGACTGCGTT-ATCTCAAGTCTGCCTATCGACT
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACT--GTTCATCTCAAGTCTGCCTGTCGGCT
* * ** * * * * * * *
1739686 TTGACCTTAGAGACTTTCTTA-CT-TAGTCGTTCCTGT-TGCTTTAACCTTGGAGACTACCTCAT
64 TTGACCCTGGAGACTGCCTCATCTCAAGTC-TGCCTGTCGGC-TTGACCCTGGAGACTGCCTCAT
* * * * ***
1739748 CTC-AGTCTGCCTATCGGCTTTGACCCTAGACACTTTTTT
127 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
* *
1739787 ACCTTCAGTCTGCCTGTCGGCTTAGA-CTTGGAGAC
1 ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC
1739822 CTCTTTATCT
Statistics
Matches: 2281, Mismatches: 585, Indels: 313
0.72 0.18 0.10
Matches are distributed among these distances:
162 6 0.00
163 87 0.04
164 411 0.18
165 545 0.24
166 345 0.15
167 394 0.17
168 354 0.16
169 125 0.05
170 10 0.00
171 4 0.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.36
Consensus pattern (166 bp):
ATCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGTTCATCTCAAGTCTGCCTGTCGGCTTT
GACCCTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTGACCCTGGAGACTGCCTCATCTCA
AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
Found at i:1741184 original size:78 final size:77
Alignment explanation
Indices: 1741092--1741262 Score: 236
Period size: 78 Copynumber: 2.2 Consensus size: 77
1741082 GGAGATAAAC
* * *
1741092 GGGTTGGAGTATCCCCTCAGAAATAATAGGGCTGGAGTATCCCCGT-TGTGGAAAATTGGTGTTT
1 GGGTTGGAGTATCCCCTCAGAAATAACAGGGCTGGAGTATCCCC-TATGTAGAAAATTGATG-TT
*
1741156 TAAAAATAAAATCG
64 TAAAAATAAAATCA
* * *
1741170 GGGTTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCTATGTAGAAAATTGATGTTTG
1 GGGTTGGAGTATCCCCTCAGAAATAACAGGGCTGGAGTATCCCCTATGTAGAAAATTGATGTTTA
*
1741235 CAAATAAAATCA
66 AAAATAAAATCA
*
1741247 AGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1741263 GATGAAATAC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 28 0.34
78 54 0.66
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCTCAGAAATAACAGGGCTGGAGTATCCCCTATGTAGAAAATTGATGTTTA
AAAATAAAATCA
Found at i:1741301 original size:77 final size:79
Alignment explanation
Indices: 1741093--1741312 Score: 234
Period size: 78 Copynumber: 2.8 Consensus size: 79
1741083 GAGATAAACG
* * * * *
1741093 GGTTGGAGTATCCCCTCAGAAATAATAGGGCTGGAGTATCCCCG-TTGTGGAAAATTGGTGTTTT
1 GGTTGAAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTT
**
1741157 AAAAATAAAATCGG
66 AAAAATAAAATCAA
* * *
1741171 GGTTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCTA-TGTAGAAAATTGATG-TTT
1 GGTTGAAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTT
**
1741234 GCAAATAAAATCAA
66 AAAAATAAAATCAA
* * * * * *
1741248 GGTTGGAGTATCCCC-GATGAAAT-ACGGGGTTAGAGTAACCCCGATTGTGGAAAATCGATATTT
1 GGTTGAAGTATCCCCTCA-GAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTT
1741311 TA
65 TA
1741313 GTTGGAGTAT
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
76 18 0.15
77 44 0.37
78 56 0.47
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GGTTGAAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTT
AAAAATAAAATCAA
Found at i:1744390 original size:41 final size:41
Alignment explanation
Indices: 1744272--1744407 Score: 150
Period size: 41 Copynumber: 3.2 Consensus size: 41
1744262 GTACGTCTTG
* *
1744272 CTCTTCGAGGACAAAG-GAAAAGAAAGAAATTAAA-TGTGTCCTA
1 CTCTTTGAGGACAAAGAGAAAAG---GAAA-TAAAGTGCGTCCTA
** *
1744315 CTCTTAAAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCCTG
1 CTCTTTGAGGACAAA-GAGAAAAGGAAATAAAGTGCGTCCTA
* *
1744357 CTCTTTGAGGACAAAGAGAAAAGGAAATCAAGTGCATCCTA
1 CTCTTTGAGGACAAAGAGAAAAGGAAATAAAGTGCGTCCTA
1744398 CTCTTTGAGG
1 CTCTTTGAGG
1744408 GCTAGAAGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
41 37 0.46
42 24 0.30
43 13 0.16
44 1 0.01
45 6 0.07
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (41 bp):
CTCTTTGAGGACAAAGAGAAAAGGAAATAAAGTGCGTCCTA
Found at i:1744633 original size:59 final size:60
Alignment explanation
Indices: 1744393--1744888 Score: 465
Period size: 59 Copynumber: 8.4 Consensus size: 60
1744383 ATCAAGTGCA
* * * ***
1744393 TCCTACTCTTTGAGGGCT-AGAAGATGCCACCAACTTGTTTGGGCTTTGCTAGGAGAAA-GCAG
1 TCCTACTCTTTGAGGACTGA-AAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGGA-AAAGGC-G
* *
1744455 CTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG--AA---G
1 -TCCTACTCTTTGAGGACTGA-AAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
1744512 TCCTACTCTTTGAGGATTGGAATGTG-CACCAACTTTGTGGGCTTT-AAAGGAAAA-GCG
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
1744569 TTCCTACTCTTTAAGGACTGAAAGGTGCCACCAA-TGTGTAGGCTTTAAAAGGAAAAGGCG
1 -TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
1744629 TCCTACTCTTTGAGGATTGAAAGGTGTCACCAACT-TGTTGGGCTTTAAAAGG-AATGGCT
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTGTG-TGGGCTTTAAAAGGAAAAGGCG
* * *
1744688 TTCTCCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
1744749 TCTTACTCTTTGAGGATTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAA-GTG
1 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * *
1744808 TCAT-CTCTTTGCGGACTGGAAGGTGCCGCCAACTTTGTGGGCTTTAAAA-GAAAAGGCA
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
1744866 TCCTACTCTTTGA-GACTGAAAGG
1 TCCTACTCTTTGAGGACTGAAAGG
1744889 ATAAAAGGTT
Statistics
Matches: 368, Mismatches: 47, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
53 5 0.01
54 11 0.03
55 9 0.02
56 21 0.06
57 24 0.07
58 66 0.18
59 95 0.26
60 39 0.11
61 47 0.13
62 4 0.01
63 47 0.13
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (60 bp):
TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1744677 original size:118 final size:120
Alignment explanation
Indices: 1744393--1744888 Score: 533
Period size: 118 Copynumber: 4.2 Consensus size: 120
1744383 ATCAAGTGCA
** * * ** *
1744393 TCCTACTCTTTGAGGGCT-AGAAGATGCCACCAACTTGTTTGGGCTTTGCTAGGAGAAAGCAGCT
1 TCCTACTCTTTGAGGATTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAAGC-GTT
*
1744457 CCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG--AA---G
63 CCT-CTCTTTGAGGACTGA-AAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGGAAAAGGCG
* *
1744512 TCCTACTCTTTGAGGATTGGAATGTG-CACCAACTT-TGTGGGCTTT-AAAGGAAAAGCGTTCCT
1 TCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCGTTCCT
* *
1744574 ACTCTTTAAGGACTGAAAGGTGCCACCAA-TGTGTAGGCTTTAAAAGGAAAAGGCG
66 -CTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
* * ** *
1744629 TCCTACTCTTTGAGGATTGAAAGGTGTCACCAACTTGT-TGGGCTTTAAAAGGAATGGC-TTTCT
1 TCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCGTTCCT
*
1744692 CCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
66 -CTCTTTGAGGACTGAAAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1744749 TCTTACTCTTTGAGGATTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGTG-TCA
1 TCCTACTCTTTGAGGATT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCGTTCC
* * * * *
1744811 TCTCTTTGCGGACTGGAAGGTGCCGCCAACTTTGTGGGCTTTAAAA-GAAAAGGCA
65 TCTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
*
1744866 TCCTACTCTTTGA-GACTGAAAGG
1 TCCTACTCTTTGAGGATTGAAAGG
1744889 ATAAAAGGTT
Statistics
Matches: 323, Mismatches: 38, Indels: 35
0.82 0.10 0.09
Matches are distributed among these distances:
112 16 0.05
114 32 0.10
115 10 0.03
116 8 0.02
117 53 0.16
118 72 0.22
119 56 0.17
120 61 0.19
121 15 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (120 bp):
TCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCGTTCCT
CTCTTTGAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1750217 original size:13 final size:13
Alignment explanation
Indices: 1750180--1750284 Score: 56
Period size: 13 Copynumber: 8.9 Consensus size: 13
1750170 TTTGAAGCAA
1750180 TGTATCGATACAAT
1 TGTATCGATAC-AT
*
1750194 T-CATCCGATACAT
1 TGTAT-CGATACAT
*
1750207 TGTATCGATACAA
1 TGTATCGATACAT
*
1750220 TG--T-G--CCAT
1 TGTATCGATACAT
1750228 -GTATCGATACAT
1 TGTATCGATACAT
*
1750240 TGTATCGATACAA
1 TGTATCGATACAT
*
1750253 TG--T-G--CCA-
1 TGTATCGATACAT
1750260 TGTATCGATACAT
1 TGTATCGATACAT
1750273 TGTATCGATACA
1 TGTATCGATACA
1750285 ATGTGCCATG
Statistics
Matches: 68, Mismatches: 9, Indels: 29
0.64 0.08 0.27
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 2 0.03
10 4 0.06
11 2 0.03
12 5 0.07
13 39 0.57
14 9 0.13
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1750232 original size:20 final size:20
Alignment explanation
Indices: 1750207--1750303 Score: 96
Period size: 20 Copynumber: 5.5 Consensus size: 20
1750197 TCCGATACAT
1750207 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
1750227 TGTATCGATAC-A--T----
1 TGTATCGATACAATGTGCCA
1750240 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
1750260 TGTATCGATAC-A--T----
1 TGTATCGATACAATGTGCCA
1750273 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
1750293 TGTATCGATAC
1 TGTATCGATAC
1750304 GAACAGTGGT
Statistics
Matches: 63, Mismatches: 0, Indels: 28
0.69 0.00 0.31
Matches are distributed among these distances:
13 22 0.35
14 2 0.03
16 2 0.03
17 2 0.03
19 2 0.03
20 33 0.52
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATGTGCCA
Found at i:1750241 original size:33 final size:33
Alignment explanation
Indices: 1750199--1750303 Score: 210
Period size: 33 Copynumber: 3.2 Consensus size: 33
1750189 ACAATTCATC
1750199 CGATACATTGTATCGATACAATGTGCCATGTAT
1 CGATACATTGTATCGATACAATGTGCCATGTAT
1750232 CGATACATTGTATCGATACAATGTGCCATGTAT
1 CGATACATTGTATCGATACAATGTGCCATGTAT
1750265 CGATACATTGTATCGATACAATGTGCCATGTAT
1 CGATACATTGTATCGATACAATGTGCCATGTAT
1750298 CGATAC
1 CGATAC
1750304 GAACAGTGGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (33 bp):
CGATACATTGTATCGATACAATGTGCCATGTAT
Found at i:1750371 original size:12 final size:12
Alignment explanation
Indices: 1750354--1750398 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
1750344 TACAATTGTG
1750354 CATGTATCGATA
1 CATGTATCGATA
1750366 CATGTATCGATA
1 CATGTATCGATA
1750378 CA---AT-GA-A
1 CATGTATCGATA
1750385 CATGTATCGATA
1 CATGTATCGATA
1750397 CA
1 CA
1750399 AAGCATAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
7 3 0.11
8 2 0.07
9 2 0.07
10 2 0.07
11 2 0.07
12 17 0.61
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:1750375 original size:32 final size:31
Alignment explanation
Indices: 1750334--1750398 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
1750324 CTGCCAGTTT
**
1750334 CATGTATCGATACAATTGTGCATGTATCGATA
1 CATGTATCGATACAA-TGAACATGTATCGATA
1750366 CATGTATCGATACAATGAACATGTATCGATA
1 CATGTATCGATACAATGAACATGTATCGATA
1750397 CA
1 CA
1750399 AAGCATAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (31 bp):
CATGTATCGATACAATGAACATGTATCGATA
Found at i:1750389 original size:19 final size:21
Alignment explanation
Indices: 1750363--1750418 Score: 82
Period size: 19 Copynumber: 2.8 Consensus size: 21
1750353 GCATGTATCG
*
1750363 ATACATGTATCGATACAATG-
1 ATACATGTATCGATACAAAGC
1750383 A-ACATGTATCGATACAAAGC
1 ATACATGTATCGATACAAAGC
1750403 ATA-ATGTATCGATACA
1 ATACATGTATCGATACA
1750419 TCTAGATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 17 0.52
20 15 0.45
21 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (21 bp):
ATACATGTATCGATACAAAGC
Found at i:1751355 original size:17 final size:17
Alignment explanation
Indices: 1751329--1751427 Score: 99
Period size: 17 Copynumber: 5.8 Consensus size: 17
1751319 TTGGTTGTTG
*
1751329 AAAAAGAAAAAAGAAAA
1 AAAAAGAAAAAAAAAAA
* *
1751346 AAAGAGAAAAAAAGAAA
1 AAAAAGAAAAAAAAAAA
*
1751363 AAAAAGAAAAAAAAAGA
1 AAAAAGAAAAAAAAAAA
** *
1751380 AAAAAGATGAAAATAAA
1 AAAAAGAAAAAAAAAAA
* **
1751397 AAAGAGAGAAAAAAAAGG
1 AAAAAGA-AAAAAAAAAA
1751415 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
1751428 TTCTAAAAAC
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
17 53 0.83
18 11 0.17
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAA
Found at i:1751364 original size:19 final size:19
Alignment explanation
Indices: 1751335--1751427 Score: 91
Period size: 19 Copynumber: 4.7 Consensus size: 19
1751325 GTTGAAAAAG
*
1751335 AAAAAAG-AAAAAAAGAGA
1 AAAAAAGAAAAAAAAGAAA
1751353 AAAAAAGAAAAAAAAGAAA
1 AAAAAAGAAAAAAAAGAAA
*
1751372 AAAAAAGAAAAAAGATGAAAA
1 AAAAAAGAAAAAA-AAG-AAA
*
1751393 TAAAAAAGAGAGAAAAAA-AAG
1 -AAAAAAGA-A-AAAAAAGAAA
*
1751414 GAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
1751428 TTCTAAAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
18 12 0.19
19 24 0.38
20 9 0.14
21 5 0.08
22 8 0.12
23 2 0.03
24 4 0.06
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAGAAA
Found at i:1751373 original size:27 final size:27
Alignment explanation
Indices: 1751329--1751427 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
1751319 TTGGTTGTTG
1751329 AAAA-AGAAAAAAGAAAAAAAGAGAAA
1 AAAAGAGAAAAAAGAAAAAAAGAGAAA
* *
1751355 AAAAGAAAAAAAAGAAAAAAAAAG-AA
1 AAAAGAGAAAAAAGAAAAAAAGAGAAA
* *
1751381 AAAAGATGAAAATA-AAAAAGAGAGAAA
1 AAAAGA-GAAAAAAGAAAAAAAGAGAAA
*
1751408 AAAA-AGGAAAAAGAAAAAAA
1 AAAAGAGAAAAAAGAAAAAAA
1751428 TTCTAAAAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
25 5 0.08
26 27 0.45
27 28 0.47
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (27 bp):
AAAAGAGAAAAAAGAAAAAAAGAGAAA
Found at i:1751391 original size:10 final size:9
Alignment explanation
Indices: 1751329--1751427 Score: 84
Period size: 9 Copynumber: 11.4 Consensus size: 9
1751319 TTGGTTGTTG
1751329 AAAA-AGAA
1 AAAAGAGAA
1751337 AAAAGA-AA
1 AAAAGAGAA
1751345 AAAAGAGAA
1 AAAAGAGAA
1751354 AAAA-AGAA
1 AAAAGAGAA
*
1751362 AAAAAAGAAA
1 AAAAGAG-AA
*
1751372 AAAAAAGAA
1 AAAAGAGAA
1751381 AAAAGATGAA
1 AAAAGA-GAA
*
1751391 AATA-A-AA
1 AAAAGAGAA
*
1751398 AAGAGAGAA
1 AAAAGAGAA
* *
1751407 AAAAAAGGA
1 AAAAGAGAA
1751416 AAAAGA-AA
1 AAAAGAGAA
1751424 AAAA
1 AAAA
1751428 TTCTAAAAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
7 5 0.07
8 26 0.34
9 30 0.39
10 15 0.20
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:1751835 original size:36 final size:36
Alignment explanation
Indices: 1751779--1751880 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
1751769 GACTACTCGA
*
1751779 TCAAA-TTTTTCCATCATCATTTGACTATATC-TGG
1 TCAAACTTTTTTCATCATCATTTGACTATATCTTGG
*
1751813 TCAAACTTTTTTCATTATTCATTTGACTATA-CTTGG
1 TCAAACTTTTTTCATCA-TCATTTGACTATATCTTGG
*
1751849 TCAAACTTTTTTCATCCCTCATTTGACTATAT
1 TCAAACTTTTTTCAT-CATCATTTGACTATAT
1751881 TAGTGTTAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
34 5 0.08
35 10 0.17
36 44 0.75
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (36 bp):
TCAAACTTTTTTCATCATCATTTGACTATATCTTGG
Found at i:1752344 original size:42 final size:42
Alignment explanation
Indices: 1752245--1755423 Score: 1309
Period size: 42 Copynumber: 75.7 Consensus size: 42
1752235 CCTCATCTCA
* * * * *
1752245 AGTCTGCCTGTTGGTTTTAACCCTGGAGAC-TTCTTCACCCTTA
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTT-A-CCTTC
* * * *
1752288 AGTTTGCCTATCGGCTTTGACGTTGGAGAATTTCTTACCTTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** *
1752330 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTAACTTATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * * * *
1752371 AAGTCTGCCTGTAGGCTTGGACCTTAGAAAC-ATCTTCACCCGTA
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTT-A-CCTTC
* * * * *
1752415 AGTCTGCCTATCGACTTTGACTTTGGAGACTTCCTTTCCTTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1752457 AGTCTGCCTGTTGGCTTTGACTTTGGAGACTTTCATACCTTA
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * *
1752499 AGTCT-CCTTGTCAGCTTTAACCTTGGAGACTACCTCATC-TC
1 AGTCTGCC-TGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1752540 AAGTCTGCCTGTCGACTTTGACTTTAGAGACTTTCTTACCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * ** ** * *
1752583 AGCCTGCTTGTCAGCTTTGACCCTACAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * ** * *
1752624 AATTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCTAATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * * * * *
1752666 AAGTTTGCCTATCGACTTTGACCCTGAACAC-TACTT-CATCTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCT-TC
* * *
1752708 AAGTGTGCCTGTTGGCTTTGACCTTGGAAACTGTCTCTT--C-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACT-T-TCTTACCTTC
* * ** *
1752750 AAGTCTGCCTGTCGGCTTTAACCCTAAAGACTTTCTTACTTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * *
1752793 AGTGTGCCTGTTGGCTTTGAACC-T--AGACATTACCT-CATCTC
1 AGTCTGCCTGTCGGCTTTG-ACCTTGGAGAC-TTTCTTACCT-TC
* * ** * *
1752834 AAGTCTGCCTATCGGTTTTGACCCTT-GAGACTGCCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTCTTACCTTC
* * * *
1752876 AAGTCTGCCTATCGACTTTGACCTTAGAGACTTTCTTACCTTT
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * *
1752919 AGTCTGCCTGTCGGTTTTAACCTTGGAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * * * * ** * *
1752960 AAGTCTACTTATCAGCTTTGACCCTAGAAACTACCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* ** *
1753002 AAATCTGCCTGTCAACTTTGACCTTGGAGACTTTCTTACTTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1753045 AATCTGCCTGTCGGCTTTGA-CTCTGGAGAC-TACTTTATC-TC
1 AGTCTGCCTGTCGGCTTTGACCT-TGGAGACTTTC-TTACCTTC
* * ** * ** * * *
1753086 AAGTTTGCTTGTCAACTTTGACCCTAGG-GACTGCCTCATCTTA
1 -AGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTCTTACCTTC
* * * * * *
1753129 AGTCTGCCTTTCAGCTTTGACCCTAGAGACTTTCATACCTTT
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * ** * *
1753171 AGTTTGCTTATCGGCTTTGACCTTGGAGGCTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1753212 AAGTTTGCTTGCCGGCTTTGACCTTGGAGACTTTCTTACTTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1753255 AG-CTTGTCTGTCGGCTTTGACCTTGGAGAATTTCTTACTTTC
1 AGTC-TGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * ** * *
1753297 AGCCTGTCTGTTGGCTTTGACCCTGGAGACTACCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1753338 AAGTCTGCCAT-T-GACTTTGACCTTAGAAACTTTTTTACCTTC
1 -AGTCTGCC-TGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1753380 AGTCTGCCTGTCAGCTTTGACCTTAGAGACTGTCTTATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
** * ** * ** ** * *
1753421 AAGTCTGATTATCAACTTTGACCCTAAAGACTGCCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* *
1753463 AAGTCTGTC-GATTGGCTTTGACCTTGGAGACTTT-TGTACCTTC
1 -AGTCTGCCTG-TCGGCTTTGACCTTGGAGACTTTCT-TACCTTC
* * * * *
1753506 AGTTTGCTTGTCGACTTTGACCTTGGAGAC-TGCTT-CATCTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCT-TC
* * * ** * *
1753547 AAGTCTACCTG-CAGGCTTTGACCCTAGAGACTGCCTCA-TTTC
1 -AGTCTGCCTGTC-GGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1753589 AAGTCTGCTTGTCGACTTTGACCTTGGAGACTTTTTTTCCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * *
1753632 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1753673 AAGTCTACCTGTCGGCTTTGACATTGGAGACTTTTTTACCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1753716 AGTCTACCTGTCGACTTTGACCTTGGAGAC-TGCTT-CATCTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCT-TC
* * ** * *
1753757 AAGTCTGCCTGTCGGCTTTAACCCTGGAGACTGCCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1753799 AAGTCTACCTGTCGGCTTTGACCATGGAGACTTTCTTACCTTT
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * *
1753842 AGTCTGCCTATCGGCTTTGACCTTGGAGGCTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * *
1753883 AAGTCTGCCTGTCGACTTTGACCCTAGGAGACTGCCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTCTTACCTTC
* * ** * *
1753926 AAGTCTGCCTGTTGGCTTTGACCCTGGAGACTACCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * *
1753968 AAGTCTGCCTATCGACTTTGGCCTTAGAGCCTTTCTTACCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* ** * ** * *
1754011 AGTCTGCATGTTAGCTTTGACCCTAGG-GACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTCTTACCTTC
* * * * ** * *
1754052 AAGTCCGCCTATTGGCTTTGACCTTGGAAACTGCCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1754094 AAGTCTGCCTGTCAGCTTTG-CCTTGAAAACTTTCTTACTTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * * ** * *
1754136 AATCTACCTGTCAACTTTGACCCTAGAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1754177 AAGTTTGCCTTTCGGCTTTGACCTTGGAGACTTTCTTACCTTT
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * ** * *
1754220 AGTCTGCTTATCGGCTTTGACCCTAGAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *** * * *
1754261 AAGTCTGCTTGTTGACTTTGACCCTT-GAGACCGCCTCATCTTA
1 -AGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTTTCTTACCTTC
* *
1754304 AGTTTGCCTGTCGGCTTTGA-CTTGAAGACTTTCTTACCTTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * ** *
1754345 AGTCTGCTTGTCGGCTTTAACCTTGGAGACTACCTCATTTTA
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * * * * *
1754387 AGTCTACTTGTTGGCTTTGACCCTAGAGACTGTCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1754428 AAGTCTGCCAGTCAGCTTTGACCTTAGAGA-TTTCTTATCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * ** *
1754470 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTTATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * ** * *
1754511 AAGTCTGCCTTTCGGCTTTAACCCTAGAGACTGCCTTATCTTA
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1754554 AGTCTGCCTATCAGCTTTGACCTTGGAGACTTTTTTACCTTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1754596 AGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TGCTT-CATCTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCT-TC
* * * ** ** * *
1754637 AAGTTTGCCTGTCAGCTTTGACCCTAAAGACTACCTTATCTTA
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1754680 AGTCTGCCTATCGGCTTTGACTTTGGAGACTTTCTTACCTTT
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * *
1754722 AGTCTGCCTGTCGGCTTTAACCTTAGAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * * * ** * *
1754763 AAATTTACCTATCGGCTTTGACCCTAGAGACTGCCTCATC-TC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1754805 AAATCTGCCTATCGGCTTTAACCTTGGAGACTTTCTTACCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * ** * * * * * *
1754848 AGTCTCCCTATTAGCTTTGACCCTGAAGAC-TGCATCATCTTA
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTC-TTACCTTC
* * * *
1754890 AGTCTGCCTGTTGGCTTTGACCCTAGAGACTGCCTCTTA---TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACT--TTCTTACCTTC
** * * * *
1754931 AAGTCTGCCTGTCAACTTTGACCCTGAAGACTTTCATACTTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* ** * *
1754974 AGTCTGCCTGTCGGCTTTGAACTTGGAGACTGCCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * ** * *
1755015 AAGTCTTGCCTGTCAGTTTTGACCCTT-GAAACTGCCTCATC-TC
1 -AGTC-TGCCTGTCGGCTTTGA-CCTTGGAGACTTTCTTACCTTC
* * ** *
1755058 AAGTCTGCTTGTCGACTTTGACCTTAAAGACTTTCTTACCTTT
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
** ** ** *
1755101 AGTCTGTTTGTCGGCTTTGACCTTGGAGACTACCCCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* ** * *
1755142 AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCATCC-TA
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTA-CCTTC
* * *
1755185 AGTCTGCCTGTCGGCTTTGACCCTAGAAACTTTCTTACCTTC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * *
1755227 AATCTGCCTGTCGGCTTTGACCTTAGAGAC-TGCGTTATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTC-TTACCTTC
* * * * *
1755268 AAGTCTGCCTATTGGCTTTGACCATAGAGACTTTCTTACTTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
** * * ** * *
1755311 AGTCTGCCTGTTAGTTTTAACCTTGGAGACTACCTCATC-TC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * * * *
1755352 AAGTCTGCCTATCGGCTTTGACCCTAGACACTTTTTTACCTTC
1 -AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
* * *
1755395 AGTTTGCCTATCGGCTTAGA-CTTGGAGAC
1 AGTCTGCCTGTCGGCTTTGACCTTGGAGAC
1755424 CTCTTTATCT
Statistics
Matches: 2364, Mismatches: 656, Indels: 234
0.73 0.20 0.07
Matches are distributed among these distances:
40 24 0.01
41 212 0.09
42 1916 0.81
43 186 0.08
44 22 0.01
45 4 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (42 bp):
AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTC
Found at i:1752545 original size:84 final size:84
Alignment explanation
Indices: 1752241--1755374 Score: 1615
Period size: 84 Copynumber: 37.3 Consensus size: 84
1752231 ATTGCCTCAT
* * * * * * * * * *
1752241 CTCAAGTCTGCCTGTTGGTTTTAACCCTGGAGACTTCTTCACCCTTAAGTTTGCCTATCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTT
* * * *
1752306 GACGTTGGAGAATTTCTTAC
65 GACCTTAGAGACTTTCATAC
* * ** * * *
1752326 CTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTAACTTATCTCAAGTCTGCCTGTAGGCTTG
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* *
1752390 GACCTTAGAAACATCTTCA-CC
65 GACCTTAGAGAC-T-TTCATAC
* * * * * *
1752411 CGT-AAGTCTGCCTATCGACTTTGACTTTGGAGACTTCCT-TTCCTTC-AGTCTGCCTGTTGGCT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCAT-C-TCAAGTCTGCCTGTCGGCT
* *
1752473 TTGACTTTGGAGACTTTCATAC
63 TTGACCTTAGAGACTTTCATAC
* * * * *
1752495 CTTAAGTCT-CCTTGTCAGCTTTAACCTTGGAGACTACCTCATCTCAAGTCTGCCTGTCGACTTT
1 CTCAAGTCTGCC-TGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* *
1752559 GACTTTAGAGACTTTCTTAC
65 GACCTTAGAGACTTTCATAC
* * * * ** *
1752579 CTTC-AGCCTGCTTGTCAGCTTTGACCCTACAGACTGCCTCATCTCAATTCTGCCTGTCGGCTTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* * * *
1752643 GACCCT-GAAGAC-TGCCTAAT
65 GACCTTAG-AGACTTTCAT-AC
* * * * * * * * * *
1752663 CTCAAGTTTGCCTATCGACTTTGACCCTGAACACTACTTCATCTCAAGTGTGCCTGTTGGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1752728 ACCTTGGAAACTGTCTC-T-T
66 ACCTTAGAGACT-T-TCATAC
* * ** ** * * * *
1752747 CTCAAGTCTGCCTGTCGGCTTTAACCCTAAAGACTTTCTTACTTTC-AGTGTGCCTGTTGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTT
* * * *
1752811 GAACC-TAGACA-TTACCTCAT
65 G-ACCTTAGAGACTTTCAT-AC
* * * *
1752831 CTCAAGTCTGCCTATCGGTTTTGACCCTT-GAGACTGCCTCATCTCAAGTCTGCCTATCGACTTT
1 CTCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
*
1752895 GACCTTAGAGACTTTCTTAC
65 GACCTTAGAGACTTTCATAC
** * * * * * *
1752915 CTTTAGTCTGCCTGTCGGTTTTAACCTTGGAGACTGCCTCATCTCAAGTCTACTTATCAGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1752980 ACCCTAGAAACTACCTCAT--
66 ACCTTAGAGACT--TTCATAC
* ** ** * *
1752999 CTCAAATCTGCCTGTCAACTTTGACCTTGGAGACTTTCTTACTTTCAA-TCTGCCTGTCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTT
* *
1753063 GA-CTCTGGAGACTACTT--TAT
65 GACCT-TAGAGACT--TTCATAC
* * ** * * * *
1753083 CTCAAGTTTGCTTGTCAACTTTGACCCTAGG-GACTGCCTCATCTTAAGTCTGCCTTTCAGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
*
1753147 GACCCTAGAGACTTTCATAC
65 GACCTTAGAGACTTTCATAC
** * * * * * * *
1753167 CTTTAGTTTGCTTATCGGCTTTGACCTTGGAGGCTGCCTCATCTCAAGTTTGCTTGCCGGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1753232 ACCTTGGAGACTTTCTTAC
66 ACCTTAGAGACTTTCATAC
* * * ** * * * * *
1753251 TTTC-AG-CTTGTCTGTCGGCTTTGACCTTGGAGAATTTCTTACTTTC-AGCCTGTCTGTTGGCT
1 -CTCAAGTC-TGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCT
* * *
1753313 TTGACCCTGGAGACTACCTCAT--
63 TTGACCTTAGAGACT--TTCATAC
* * * *** * * *
1753335 CTCAAGTCTGCCAT-T-GACTTTGACCTTAGAAACTTTTTTACCTTC-AGTCTGCCTGTCAGCTT
1 CTCAAGTCTGCC-TGTCGGCTTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTT
* * *
1753397 TGACCTTAGAGACTGTCTTAT
64 TGACCTTAGAGACTTTCATAC
** * ** * ** * *
1753418 CTCAAGTCTGATTATCAACTTTGACCCTAAAGACTGCCTCATCTCAAGTCTGTC-GATTGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTG-TCGGCTTT
* **
1753482 GACCTTGGAGACTTTTGTAC
65 GACCTTAGAGACTTTCATAC
* * * * *
1753502 CTTC-AGTTTGCTTGTCGACTTTGACCTTGGAGACTGCTTCATCTCAAGTCTACCTG-CAGGCTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTC-GGCTT
* *
1753565 TGACCCTAGAGACTGCCTCAT--
64 TGACCTTAGAGACT--TTCATAC
* * * ** **
1753586 TTCAAGTCTGCTTGTCGACTTTGACCTTGGAGACT-TTTTTTCCTTC-AGTCTGCCTGTCGGCTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCAT-C-TCAAGTCTGCCTGTCGGCTT
* *
1753649 TGACCCTAGAGACTGCCTCAT--
64 TGACCTTAGAGACT--TTCATAC
* * *** * * * *
1753670 CTCAAGTCTACCTGTCGGCTTTGACATTGGAGACTTTTTTACCTTC-AGTCTACCTGTCGACTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
*
1753734 GACCTTGGAGACTGCTTCAT--
65 GACCTTAGAGACT--TTCATAC
* * *
1753754 CTCAAGTCTGCCTGTCGGCTTTAACCCTGGAGACTGCCTCATCTCAAGTCTACCTGTCGGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1753819 ACCATGGAGACTTTCTTAC
66 ACCTTAGAGACTTTCATAC
** * * *
1753838 CTTTAGTCTGCCTATCGGCTTTGACCTTGGAGGCTGCCTCATCTCAAGTCTGCCTGTCGACTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1753903 ACCCTAGGAGACTGCCTCAT--
66 ACCTTA-GAGACT--TTCATAC
* * * * *
1753923 CTCAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTACCTCATCTCAAGTCTGCCTATCGACTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1753988 GCCTTAGAGCCTTTCTTAC
66 ACCTTAGAGACTTTCATAC
* ** * * * *
1754007 CTTC-AGTCTGCATGTTAGCTTTGACCCTAGG-GACTGCCTCATCTCAAGTCCGCCTATTGGCTT
1 C-TCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTT
* * *
1754070 TGACCTTGGAAACTGCCTCAT--
64 TGACCTTAGAGACT--TTCATAC
* * * ** * * * **
1754091 CTCAAGTCTGCCTGTCAGCTTTG-CCTTGAAAACTTTCTTACTTTCAA-TCTACCTGTCAACTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTT
* *
1754154 GACCCTAGAGACTGCCTCAT--
65 GACCTTAGAGACT--TTCATAC
* * ** * * ** * *
1754174 CTCAAGTTTGCCTTTCGGCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTATCGGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1754239 ACCCTAGAGACTGCCTCAT--
66 ACCTTAGAGACT--TTCATAC
* * * * * *
1754258 CTCAAGTCTGCTTGTTGACTTTGACCCTT-GAGACCGCCTCATCTTAAGTTTGCCTGTCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
*
1754322 GA-CTT-GAAGACTTTCTTAC
65 GACCTTAG-AGACTTTCATAC
* * * * * * * *
1754341 CTTC-AGTCTGCTTGTCGGCTTTAACCTTGGAGACTACCTCATTTTAAGTCTACTTGTTGGCTTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
*
1754405 GACCCTAGAGACTGTCTCAT--
65 GACCTTAGAGACT-T-TCATAC
* * * ** * *
1754425 CTCAAGTCTGCCAGTCAGCTTTGACCTTAGAGA-TTTCTTATCTTC-AGTCTGCCTATCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
* ** * *
1754488 GACCCTAGAGACTGCCTTAT
65 GACCTTAGAGACTTTCATAC
* * * * * * * *
1754508 CTCAAGTCTGCCTTTCGGCTTTAACCCTAGAGACTGCCTTATCTTAAGTCTGCCTATCAGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* **
1754573 ACCTTGGAGACTTTTTTAC
66 ACCTTAGAGACTTTCATAC
* * * * *
1754592 CTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCTTCATCTCAAGTTTGCCTGTCAGCTTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* * ** * *
1754656 GACCCTAAAGACTACCTTAT
65 GACCTTAGAGACTTTCATAC
* * * ** * * ** *
1754676 CTTAAGTCTGCCTATCGGCTTTGACTTTGGAGACTTTCTTACCTTTAGTCTGCCTGTCGGCTTTA
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
*
1754741 ACCTTAGAGACTGCCTCAT--
66 ACCTTAGAGACT--TTCATAC
* * * * * * * * *
1754760 CTCAAATTTACCTATCGGCTTTGACCCTAGAGACTGCCTCATCTCAAATCTGCCTATCGGCTTTA
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* *
1754825 ACCTTGGAGACTTTCTTAC
66 ACCTTAGAGACTTTCATAC
* * ** * * * * *
1754844 CTTC-AGTCTCCCTATTAGCTTTGACCCTGAAGACTGCATCATCTTAAGTCTGCCTGTTGGCTTT
1 C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTT
* * *
1754908 GACCCTAGAGACTGCCTCTTA-
65 GACCTTAGAGACT--TTCATAC
** * * *
1754929 -TCAAGTCTGCCTGTCAACTTTGACCCTGAAGACT--TTCATACTTTC-AGTCTGCCTGTCGGCT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCAT-C--TCAAGTCTGCCTGTCGGCT
* * *
1754990 TTGAACTTGGAGACTGCCTCAT--
63 TTGACCTTAGAGACT--TTCATAC
* * * * *
1755012 CTCAAGTCTTGCCTGTCAGTTTTGACCCTT-GAAACTGCCTCATCTCAAGTCTGCTTGTCGACTT
1 CTCAAGTC-TGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTT
* *
1755076 TGACCTTAAAGACTTTCTTAC
64 TGACCTTAGAGACTTTCATAC
** ** * *
1755097 CTTTAGTCTGTTTGTCGGCTTTGACCTTGGAGACTACCCCATCTCAAGTCTGCCTGTCGGCTTTG
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
* * *
1755162 ACCCTGGAGACTGCCTCAT-C
66 ACCTTAGAGACT--TTCATAC
* * * ** * *
1755182 CT-AAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTTCTTACCTTCAA-TCTGCCTGTCGGCTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTT
* * *
1755245 GACCTTAGAGAC-TGCGTTAT
65 GACCTTAGAGACTTTC-ATAC
* * * * ** * * ** *
1755265 CTCAAGTCTGCCTATTGGCTTTGACCATAGAGACTTTCTTACTTTC-AGTCTGCCTGTTAGTTTT
1 CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTT
* * *
1755329 AACCTTGGAGACTACCTCAT--
65 GACCTTAGAGACT--TTCATAC
*
1755349 CTCAAGTCTGCCTATCGGCTTTGACC
1 CTCAAGTCTGCCTGTCGGCTTTGACC
1755375 CTAGACACTT
Statistics
Matches: 2371, Mismatches: 545, Indels: 267
0.74 0.17 0.08
Matches are distributed among these distances:
81 10 0.00
82 30 0.01
83 295 0.12
84 1716 0.72
85 273 0.12
86 38 0.02
87 9 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (84 bp):
CTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTG
ACCTTAGAGACTTTCATAC
Found at i:1752613 original size:126 final size:125
Alignment explanation
Indices: 1752235--1752687 Score: 333
Period size: 127 Copynumber: 3.6 Consensus size: 125
1752225 TTGGAGATTG
** * * * * ** * *
1752235 CCTCATCTCAAGTCTGCCTGTTGGTTTTAACCCTGGAGACTTCTTCACCCTTAAGTTTGCCTATC
1 CCTCATCTCAAGTCTGCCTGTCAGCTTTAACCCTGAAGACTACCT-AATCTCAAGTCTGCCTATC
* * * * * * * *
1752300 GGCTTTGACGTTGGAGAATTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACT
65 GACTTTGACTTTAGAGACTTCCTTACCTTCAGCCTGCCTGTCAGCTTTGACCCTACAGACT
* * ** * * * *
1752361 AACTTATCTCAAGTCTGCCTGT-AGGCTTGGACCTTAGAA-AC-ATCTTCA-CCCGTAAGTCTGC
1 -CCTCATCTCAAGTCTGCCTGTCA-GCTTTAACCCT-GAAGACTA-CCTAATCTC--AAGTCTGC
* * * ** ** **
1752422 CTATCGACTTTGACTTTGGAGACTTCCTTTCCTTCAGTCTGCCTGTTGGCTTTGACTTTGGAGAC
60 CTATCGACTTTGACTTTAGAGACTTCCTTACCTTCAGCCTGCCTGTCAGCTTTGACCCTACAGAC
1752487 T
125 T
* * * * * *
1752488 -TTCATACCTTAAGTCT-CCTTGTCAGCTTTAACCTTGGAGACTACCTCATCTCAAGTCTGCCTG
1 CCTCAT--CTCAAGTCTGCC-TGTCAGCTTTAACCCTGAAGACTACCTAATCTCAAGTCTGCCTA
* *
1752551 TCGACTTTGACTTTAGAGACTTTCTTACCTTCAGCCTGCTTGTCAGCTTTGACCCTACAGACT
63 TCGACTTTGACTTTAGAGACTTCCTTACCTTCAGCCTGCCTGTCAGCTTTGACCCTACAGACT
* * * * *
1752614 GCCTCATCTCAATTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCTAATCTCAAGTTTGCCTATC
1 -CCTCATCTCAAGTCTGCCTGTCAGCTTTAACCCTGAAGACTACCTAATCTCAAGTCTGCCTATC
1752679 GACTTTGAC
65 GACTTTGAC
1752688 CCTGAACACT
Statistics
Matches: 257, Mismatches: 54, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
125 4 0.02
126 120 0.47
127 123 0.48
128 10 0.04
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (125 bp):
CCTCATCTCAAGTCTGCCTGTCAGCTTTAACCCTGAAGACTACCTAATCTCAAGTCTGCCTATCG
ACTTTGACTTTAGAGACTTCCTTACCTTCAGCCTGCCTGTCAGCTTTGACCCTACAGACT
Found at i:1752726 original size:126 final size:126
Alignment explanation
Indices: 1752215--1755379 Score: 1896
Period size: 126 Copynumber: 25.1 Consensus size: 126
1752205 TCTGCTTATT
* * * * * * * * *
1752215 GGCTTTAACCTTGGAGATTGCCTCATCTCAAGTCTGCCTGTTGGTTTTAACCCTGGAGACTTCTT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * * * ** * *
1752280 CACCCTTAAGTTTGCCTATCGGCTTTGACGTTGGAGAATTTCTT-ACCTTC-AGTCTGCCTGTC
66 CA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAG-ACTTCTTCATC-TCAAGTCTGCCTGTC
* ** * * * *
1752342 GGCTTTGACCCTAGAGACTAACTTATCTCAAGTCTGCCTGTAGGCTTGGACCTTAGAA-ACAT-C
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCT-GAAGAC-TGC
* * * * ** *
1752405 TTCA-CCCGTAAGTCTGCCTATCGACTTTGACTTTGGAGACTTCCTTTCCT-TC-AGTCTGCCTG
64 CTCATCTC--AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-C-TTCATCTCAAGTCTGCCTG
*
1752467 TT
125 TC
* * * * * * * * *
1752469 GGCTTTGACTTTGGAGACT--TTCATACCTTAAGTCT-CCTTGTCAGCTTTAACCTTGGAGACTA
1 GGCTTTGACCTTAGAGACTGCCTCAT--CTCAAGTCTGCC-TGTCGGCTTTGACCCTGAAGACTG
* ** * * * *
1752531 CCTCATCTCAAGTCTGCCTGTCGACTTTGACTTTAGAGACTTTCTT-ACCTTC-AGCCTGCTTGT
63 CCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATC-TCAAGTCTGCCTGT
1752594 C
126 C
* * * *
1752595 AGCTTTGACCCTACAGACTGCCTCATCTCAATTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * * * * * * * *
1752660 AATCTCAAGTTTGCCTATCGACTTTGACCCTGAACACTACTTCATCTCAAGTGTGCCTGTT
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
* * * * * * **
1752721 GGCTTTGACCTTGGAAACTGTCTCTTCTCAAGTCTGCCTGTCGGCTTTAACCCTAAAGACTTTCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * * * * * *
1752786 TACTTTC-AGTGTGCCTGTTGGCTTTGAACCT--AGACATTACCTCATCTCAAGTCTGCCTATC
66 CA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TT-CTTCATCTCAAGTCTGCCTGTC
* * * * **
1752847 GGTTTTGACCCTT-GAGACTGCCTCATCTCAAGTCTGCCTATCGACTTTGA-CCTTAGAGACTTT
1 GGCTTTGA-CCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGC
* * ** * * * * * * * *
1752910 CTTACCTTTAGTCTGCCTGTCGGTTTTAACCTTGGAGACTGCCTCATCTCAAGTCTACTTATC
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
* * * * * ** * * **
1752973 AGCTTTGACCCTAGAAACTACCTCATCTCAAATCTGCCTGTCAACTTTGACCTTGGAGACTTTCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * * * * * *
1753038 TACTTTCAA-TCTGCCTGTCGGCTTTGACTCTGGAGACTACTTTATCTCAAGTTTGCTTGTC
66 CA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
** * * * * * *
1753099 AACTTTGACCCTAGGGACTGCCTCATCTTAAGTCTGCCTTTCAGCTTTGACCCT-AGAGACT--T
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGCC
** * * * * * * * * * *
1753161 TCATACCTTTAGTTTGCTTATCGGCTTTGACCTTGGAGGCTGCCTCATCTCAAGTTTGCTTGCC
65 TCAT--CTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
* ** * * * * * * **
1753225 GGCTTTGACCTTGGAGACTTTCTTACTTTC-AG-CTTGTCTGTCGGCTTTGACCTTGGAGAATTT
1 GGCTTTGACCTTAGAGACTGCCTCA-TCTCAAGTC-TGCCTGTCGGCTTTGACCCTGAAGACTGC
* * * * * * *
1753288 CTTACTTTC-AGCCTGTCTGTTGGCTTTGACCCTGGAGACTACCTCATCTCAAGTCTGCCAT-T-
64 CTCA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCC-TGTC
* * *** * * * * *
1753350 GACTTTGACCTTAGAAACTTTTTTACCTTC-AGTCTGCCTGTCAGCTTTGA-CCTTAGAGACTGT
1 GGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGC
* ** * ** ** * * * *
1753413 CTTATCTCAAGTCTGATTATCAACTTTGACCCTAAAGACTGCCTCATCTCAAGTCTGTC-GATT
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTG-TC
* ** * * * * * * *
1753476 GGCTTTGACCTTGGAGACT-TTTGTACCTTC-AGTTTGCTTGTCGACTTTGACCTTGGAGACTGC
1 GGCTTTGACCTTAGAGACTGCCT-CATC-TCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGC
* * * * * * *
1753539 TTCATCTCAAGTCTACCTG-CAGGCTTTGACCCTAGAGACTGCCTCATTTCAAGTCTGCTTGTC
64 CTCATCTCAAGTCTGCCTGTC-GGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
* * ** **
1753602 GACTTTGACCTTGGAGACT-TTTTTTCCTTC-AGTCTGCCTGTCGGCTTTGACCCT-AGAGACTG
1 GGCTTTGACCTTAGAGACTGCCTCAT-C-TCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTG
* ** * * * *
1753664 CCTCATCTCAAGTCTACCTGTCGGCTTTGACATTGGAGACTTTTTTACCTTC-AGTCTACCTGTC
63 CCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATC-TCAAGTCTGCCTGTC
* * * * *
1753728 GACTTTGACCTTGGAGACTGCTTCATCTCAAGTCTGCCTGTCGGCTTTAACCCTGGAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * * ** *
1753793 CATCTCAAGTCTACCTGTCGGCTTTGACCATGGAGACTTTCTT-ACCTTTAGTCTGCCTATC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATCTCAAGTCTGCCTGTC
* * * *
1753854 GGCTTTGACCTTGGAGGCTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCCTAGGAGACTGCC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCT-GAAGACTGCC
* * * *
1753919 TCATCTCAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTACCTCATCTCAAGTCTGCCTATC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
* * * ** * * * ** *
1753981 GACTTTGGCCTTAGAGCCTTTCTTACCTTC-AGTCTGCATGTTAGCTTTGACCCT-AGGGACTGC
1 GGCTTTGACCTTAGAGACTGCCTCATC-TCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGC
* * * * * * *
1754044 CTCATCTCAAGTCCGCCTATTGGCTTTGACCTTGGAAACTGCCTCATCTCAAGTCTGCCTGTC
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
* * ** * * * **
1754107 AGCTTTG-CCTT-GAAAACTTTCTTACTTTCAA-TCTACCTGTCAACTTTGACCCT-AGAGACTG
1 GGCTTTGACCTTAG-AGACTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTG
* * * * ** * *
1754168 CCTCATCTCAAGTTTGCCTTTCGGCTTTGACCTTGGAGACTTTCTT-ACCTTTAGTCTGCTTATC
63 CCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATCTCAAGTCTGCCTGTC
* * * * *
1754232 GGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCTTGTTGACTTTGACCCTTG-AGACCGCC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCC-TGAAGACTGCC
* * * * * *
1754296 TCATCTTAAGTTTGCCTGTCGGCTTTGA-CTTGAAGACTTTCTT-ACCTTC-AGTCTGCTTGTC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATC-TCAAGTCTGCCTGTC
* * * * * * * * *
1754357 GGCTTTAACCTTGGAGACTACCTCATTTTAAGTCTACTTGTTGGCTTTGACCCT-AGAGACTGTC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGCC
* * * * * *
1754421 TCATCTCAAGTCTGCCAGTCAGCTTTGACCTTAGAGATTTCTT-ATCTTC-AGTCTGCCTATC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATC-TCAAGTCTGCCTGTC
* * * *
1754482 GGCTTTGACCCTAGAGACTGCCTTATCTCAAGTCTGCCTTTCGGCTTTAACCCT-AGAGACTGCC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGCC
* * * * * * * *
1754546 TTATCTTAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTTTTTACCTTC-AGTCTGCCTGTC
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATC-TCAAGTCTGCCTGTC
* * * * * *
1754608 GGCTTTGACCCTAGAGACTGCTTCATCTCAAGTTTGCCTGTCAGCTTTGACCCTAAAGACTACCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * * ** * **
1754673 TATCTTAAGTCTGCCTATCGGCTTTGACTTTGGAGACTTTCTT-ACCTTTAGTCTGCCTGTC
66 CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATCTCAAGTCTGCCTGTC
* * * * *
1754734 GGCTTTAACCTTAGAGACTGCCTCATCTCAAATTTACCTATCGGCTTTGACCCT-AGAGACTGCC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGCC
* * * * * * * *
1754798 TCATCTCAAATCTGCCTATCGGCTTTAACCTTGGAGACTTTCTT-ACCTTC-AGTCTCCCTATT
65 TCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATC-TCAAGTCTGCCTGTC
* * * * *
1754860 AGCTTTGACCCT-GAAGACTGCATCATCTTAAGTCTGCCTGTTGGCTTTGACCCT-AGAGACTGC
1 GGCTTTGACCTTAG-AGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGC
* * ** *
1754923 CTCTTATCAAGTCTGCCTGTCAACTTTGACCCTGAAGAC-T-TTCATACTTTC-AGTCTGCCTGT
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCAT-C--TCAAGTCTGCCTGT
1754985 C
126 C
* * * *
1754986 GGCTTTGAACTTGGAGACTGCCTCATCTCAAGTCTTGCCTGTCAGTTTTGACCCTTGAA-ACTGC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTC-TGCCTGTCGGCTTTGACCC-TGAAGACTGC
* * * ** * ** **
1755050 CTCATCTCAAGTCTGCTTGTCGACTTTGACCTTAAAGACTTTCTT-ACCTTTAGTCTGTTTGTC
64 CTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATCTCAAGTCTGCCTGTC
* * * *
1755113 GGCTTTGACCTTGGAGACTACCCCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCT
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
* * *
1755178 CATC-CTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTTCTT-ACCTTCAA-TCTGCCTGTC
66 CATCTC-AAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCATC-TCAAGTCTGCCTGTC
* * * * * **
1755239 GGCTTTGACCTTAGAGACTGCGTTATCTCAAGTCTGCCTATTGGCTTTGACCAT-AGAGACTTTC
1 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTGCC
* * ** * * * * * *
1755303 TTACTTTC-AGTCTGCCTGTTAGTTTTAACCTTGGAGACTACCTCATCTCAAGTCTGCCTATC
65 TCA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
*
1755365 GGCTTTGACCCTAGA
1 GGCTTTGACCTTAGA
1755380 CACTTTTTTA
Statistics
Matches: 2432, Mismatches: 500, Indels: 213
0.77 0.16 0.07
Matches are distributed among these distances:
123 3 0.00
124 14 0.01
125 444 0.18
126 1572 0.65
127 370 0.15
128 23 0.01
129 4 0.00
130 2 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (126 bp):
GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTGCCT
CATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCATCTCAAGTCTGCCTGTC
Found at i:1756809 original size:79 final size:80
Alignment explanation
Indices: 1756717--1756933 Score: 287
Period size: 79 Copynumber: 2.7 Consensus size: 80
1756707 GAGATAAAGA
1756717 CGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAG-TG
1 CGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGATG
*
1756781 TTTTAAAAATAAAAT
66 TTCTAAAAATAAAAT
** * * *
1756796 CGGGGTTAAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTAGAAAA-TCGATG
1 CGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGATG
**
1756860 TTCTGCAAATAAAAT
66 TTCTAAAAATAAAAT
** * * *
1756875 TAGGGTTGGAGTATCTCC-GATGAAATAATAGGGTTAGAGTATCCCCGATTGTGGAAAAT
1 CGGGGTTGGAGTATCCCCTCA-GAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAAT
1756934 CAATATTTTA
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.03
79 115 0.97
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGATG
TTCTAAAAATAAAAT
Found at i:1757057 original size:143 final size:143
Alignment explanation
Indices: 1756804--1757077 Score: 340
Period size: 143 Copynumber: 1.9 Consensus size: 143
1756794 ATCGGGGTTA
* *
1756804 AAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTAGAAAATCGATGTTCTGCAAA
1 AAGTATCCCCTCAGAAAAAACAGGGTTGGAGTATCCCCGACTGTAGAAAATCGATGTTCTGCAAA
* ** * * * *
1756869 TAAAATTAGGGTTGGAGTATCTCCGATGAAATAATAGGGTTAGAGTATCCCCGATTGTGGAAAAT
66 CAAAACGAGGGTTGGAGTATCTCC-ATCAAATAATAGGATAAGAGTATCCCCGATTATGGAAAAT
1756934 CAATATTTTAGTTG
130 CAATATTTTAGTTG
** * * * *
1756948 AAGTATCCCCTCA-AAAAAATGGGGTTGGAGTATCCCCGACTGTGGACAATCGATGTTTTGGAAA
1 AAGTATCCCCTCAGAAAAAACAGGGTTGGAGTATCCCCGACTGTAGAAAATCGATGTTCTGCAAA
1757012 CAAAACCGA-GGTTGGAGTATCTCC-TCAAA-AATTACGAGATAAGAGTATCCCCGATTATGGAA
66 CAAAA-CGAGGGTTGGAGTATCTCCATCAAATAA-TA-G-GATAAGAGTATCCCCGATTATGGAA
1757074 AATC
127 AATC
1757078 GAGGTTTTAG
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
140 2 0.02
141 6 0.05
142 1 0.01
143 88 0.79
144 14 0.13
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (143 bp):
AAGTATCCCCTCAGAAAAAACAGGGTTGGAGTATCCCCGACTGTAGAAAATCGATGTTCTGCAAA
CAAAACGAGGGTTGGAGTATCTCCATCAAATAATAGGATAAGAGTATCCCCGATTATGGAAAATC
AATATTTTAGTTG
Found at i:1760039 original size:42 final size:42
Alignment explanation
Indices: 1759948--1760068 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
1759938 GAGTACGTCT
* * *
1759948 TGCTCTTCGAGGACAAAGGAAAAGAAAGAAATTAAA-TGTGTCC
1 TGCTCTTAGAGGACAAAGGAGAA-AAGGAAA-TAAAGTGTGTCC
* *
1759991 TACTCTTAAAGGACAAAGGAGAAAAGGAAATAAAGTGTGTCC
1 TGCTCTTAGAGGACAAAGGAGAAAAGGAAATAAAGTGTGTCC
* *
1760033 TGCTCTTTGAGGACAAA-GAGAAAAGGAAATCAAGTG
1 TGCTCTTAGAGGACAAAGGAGAAAAGGAAATAAAGTG
1760069 CATCCTACTC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 22 0.32
42 27 0.40
43 19 0.28
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (42 bp):
TGCTCTTAGAGGACAAAGGAGAAAAGGAAATAAAGTGTGTCC
Found at i:1760068 original size:41 final size:41
Alignment explanation
Indices: 1759950--1760082 Score: 144
Period size: 41 Copynumber: 3.2 Consensus size: 41
1759940 GTACGTCTTG
*
1759950 CTCTTCGAGGACAAAG-GAAAAGAAAGAAATTAAA-TGTGTCCTA
1 CTCTTTGAGGACAAAGAGAAAAG---GAAA-TAAAGTGTGTCCTA
** *
1759993 CTCTTAAAGGACAAAGGAGAAAAGGAAATAAAGTGTGTCCTG
1 CTCTTTGAGGACAAA-GAGAAAAGGAAATAAAGTGTGTCCTA
* **
1760035 CTCTTTGAGGACAAAGAGAAAAGGAAATCAAGTGCATCCTA
1 CTCTTTGAGGACAAAGAGAAAAGGAAATAAAGTGTGTCCTA
1760076 CTCTTTG
1 CTCTTTG
1760083 GGGGCTAGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
41 33 0.42
42 25 0.32
43 13 0.17
44 1 0.01
45 6 0.08
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (41 bp):
CTCTTTGAGGACAAAGAGAAAAGGAAATAAAGTGTGTCCTA
Found at i:1760175 original size:61 final size:61
Alignment explanation
Indices: 1760071--1760572 Score: 588
Period size: 61 Copynumber: 8.3 Consensus size: 61
1760061 ATCAAGTGCA
* * * * ***
1760071 TCCTACTCTTTGGGGGCTAGAAGATGCCACCAACTTGTTTGGGCTTTGCTAGGAGAAA-GCG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCG
* * *
1760132 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GTG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
1760191 TCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
1760252 TCCTACTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCG
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
1760313 TCCTACTCTTTGAGGA-TTGAAAGGTGTCACCAACTTGTATGGGCTTTAAAAGGAAATGGCT
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
1760374 TTCTCCTTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * *
1760435 TCTTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTGTAGGCTTTGAAA-GAAAA-GTG
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * * *
1760494 TCATGCTCTTTGCGGACTGGAAGGTGCCGCCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
1760555 TCCTGCTCTTTGAGGACT
1 TCCTACTCTTTGAGGACT
1760573 GAAAGGATAA
Statistics
Matches: 383, Mismatches: 50, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
59 100 0.26
60 14 0.04
61 267 0.70
62 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (61 bp):
TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1760390 original size:122 final size:121
Alignment explanation
Indices: 1760071--1760578 Score: 571
Period size: 120 Copynumber: 4.2 Consensus size: 121
1760061 ATCAAGTGCA
* * * * *** * * *
1760071 TCCTACTCTTTGGGGGCT-AGAAGATGCCACCAACTTGTTTGGGCTTTGCTAGGAGAAAGCGTCC
1 TCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCTTTC
* * *
1760135 TGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GTG
64 TACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1760191 TCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCTTTCT
* *
1760256 ACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCG
65 ACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1760313 TCCTACTCTTTGAGGATTGAAAGGTGTCACCAACTTGTATGGGCTTTAAAAGGAAATGGCTTTCT
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-GGCTTTCT
* * *
1760378 CCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
65 ACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * *
1760435 TCTTACTCTTTGAGGATTAGAAA-GTGCCACCAACTTGTGTAGGCTTTGAAA-GAAAAG-TGTCA
1 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCTTTC-
* * * * * *
1760497 TGCTCTTTGCGGACTGGAAGGTGCCGCCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
64 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
1760555 TCCTGCTCTTTGAGGACTGAAAGG
1 TCCTACTCTTTGAGGACTGAAAGG
1760579 ATAAAAGGTT
Statistics
Matches: 336, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
119 7 0.02
120 163 0.49
121 12 0.04
122 150 0.45
123 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (121 bp):
TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCTTTCTA
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1765233 original size:266 final size:266
Alignment explanation
Indices: 1764759--1765294 Score: 1018
Period size: 266 Copynumber: 2.0 Consensus size: 266
1764749 CCCCAAATGC
*
1764759 CTTGTTCATCATGTATGTATTTCTAGCAAAGCTAGCATTGATGTGTCCTTCAGAATGGAAACTTT
1 CTTGTTCATCATGTATGTATTGCTAGCAAAGCTAGCATTGATGTGTCCTTCAGAATGGAAACTTT
*
1764824 CTTGAAGTGAAGGAATTCTCCTTATCTCATTCCCCATGCCCTGTCCTAACGAGTGCGCCATTCCT
66 CTTGAAGTGAAGGAATTCTCCTTATCTCATTCCCCATGCCCTGTCCTAACGAGTGAGCCATTCCT
1764889 TTCTTGTGGTTCATTTGAGCTTCTCTCCTTTTCTACTAAAAATTGCGCTTGAACCCCAACCCTCT
131 TTCTTGTGGTTCATTTGAGCTTCTCTCCTTTTCTACTAAAAATTGCGCTTGAACCCCAACCCTCT
1764954 TTTACTATTCTGGTTGACAACTTCCAAAGCTCCAGCCATCCTTTGGAGGTGTTTCCCACGACCTC
196 TTTACTATTCTGGTTGACAACTTCCAAAGCTCCAGCCATCCTTTGGAGGTGTTTCCCACGACCTC
1765019 TTCCAA
261 TTCCAA
1765025 CTTGTTCATCATGTATGTATTGCTAGCAAAGCTAGCATTGATGTGTCCTTCAGAATGGAAACTTT
1 CTTGTTCATCATGTATGTATTGCTAGCAAAGCTAGCATTGATGTGTCCTTCAGAATGGAAACTTT
*
1765090 CTTGAAGTGAAGGAATTCTCCTTATCTCATTCCCCATGCCCTGTCCTGACGAGTGAGCCATTCCT
66 CTTGAAGTGAAGGAATTCTCCTTATCTCATTCCCCATGCCCTGTCCTAACGAGTGAGCCATTCCT
1765155 TTCTTGTGGTTCATTTGAGCTTCTCTCCTTTTCTACTAAAAATTGCGCTTGAACCCCAACCCTCT
131 TTCTTGTGGTTCATTTGAGCTTCTCTCCTTTTCTACTAAAAATTGCGCTTGAACCCCAACCCTCT
* * *
1765220 TTTACTATTCTGGTTGACAACTTCCAAAGCTCCAGCCATCCTTTGGAGGTGTTTCTCGCGGCCTC
196 TTTACTATTCTGGTTGACAACTTCCAAAGCTCCAGCCATCCTTTGGAGGTGTTTCCCACGACCTC
1765285 TTCCAA
261 TTCCAA
1765291 CTTG
1 CTTG
1765295 GGCACCCTTA
Statistics
Matches: 264, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 264 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (266 bp):
CTTGTTCATCATGTATGTATTGCTAGCAAAGCTAGCATTGATGTGTCCTTCAGAATGGAAACTTT
CTTGAAGTGAAGGAATTCTCCTTATCTCATTCCCCATGCCCTGTCCTAACGAGTGAGCCATTCCT
TTCTTGTGGTTCATTTGAGCTTCTCTCCTTTTCTACTAAAAATTGCGCTTGAACCCCAACCCTCT
TTTACTATTCTGGTTGACAACTTCCAAAGCTCCAGCCATCCTTTGGAGGTGTTTCCCACGACCTC
TTCCAA
Found at i:1770763 original size:36 final size:36
Alignment explanation
Indices: 1770695--1770778 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
1770685 GACTTTTCGG
** *
1770695 ATATTATTTATTTTTGTTTTGTAATATGTAAATTAT
1 ATATTATTTATTTTAATTTTATAATATGTAAATTAT
*
1770731 ATATTATTTATTTTAATTTTAATAAT-TTTAAATTAT
1 ATATTATTTATTTTAATTTT-ATAATATGTAAATTAT
*
1770767 TTATTAATTTAT
1 ATATT-ATTTAT
1770779 CAAATATGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (36 bp):
ATATTATTTATTTTAATTTTATAATATGTAAATTAT
Found at i:1771499 original size:29 final size:31
Alignment explanation
Indices: 1771453--1771512 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
1771443 TGATGTATCA
* *
1771453 AAAATAAATTTTTAATT-ATATTTATAAAATT
1 AAAATAAATTATTAATTAATATAT-TAAAATT
1771484 AAAA-AAATTATT-ATTAATATATTAAAATT
1 AAAATAAATTATTAATTAATATATTAAAATT
1771513 TAATTTAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 10 0.38
30 12 0.46
31 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATAAATTATTAATTAATATATTAAAATT
Found at i:1774773 original size:30 final size:30
Alignment explanation
Indices: 1774739--1774887 Score: 103
Period size: 30 Copynumber: 5.0 Consensus size: 30
1774729 ACATGCTTAA
1774739 ATAAAAATTAAAAGTTAAAGATTTATTTAG
1 ATAAAAATTAAAAGTTAAAGATTTATTTAG
* *
1774769 ATAAAAATT-AAAGATTAATGACTTATTT-G
1 ATAAAAATTAAAAG-TTAAAGATTTATTTAG
* *
1774798 AAAAAAAATTAAAAG-TAAAAAGTTTATTTTA-
1 -ATAAAAATTAAAAGTTAAAGA-TTTA-TTTAG
* * *
1774829 AT-ATAA-TAAAAGTATAAAGATTTACTTAA
1 ATAAAAATTAAAAGT-TAAAGATTTATTTAG
* * * *
1774858 ATAAAATTATAAAATTTAACGATTTTTTTA
1 ATAAAAAT-TAAAAGTTAAAGATTTATTTA
1774888 TTATTTTAAC
Statistics
Matches: 91, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
28 9 0.10
29 18 0.20
30 40 0.44
31 18 0.20
32 6 0.07
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (30 bp):
ATAAAAATTAAAAGTTAAAGATTTATTTAG
Found at i:1774857 original size:28 final size:27
Alignment explanation
Indices: 1774807--1774861 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
1774797 GAAAAAAAAT
*
1774807 TAAAAGTAAAAAGTTTATTTTAATATAA
1 TAAAAGTAAAAAGTTTATCTTAA-ATAA
*
1774835 TAAAAGTATAAAGATTTA-CTTAAATAA
1 TAAAAGTAAAAAG-TTTATCTTAAATAA
1774862 AATTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 16 0.67
29 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (27 bp):
TAAAAGTAAAAAGTTTATCTTAAATAA
Found at i:1774940 original size:43 final size:44
Alignment explanation
Indices: 1774858--1774950 Score: 152
Period size: 43 Copynumber: 2.1 Consensus size: 44
1774848 ATTTACTTAA
*
1774858 ATAAAATTATAAAATTTAACGATTTTTTTATTATTTTAACTTTAC
1 ATAAAATTATAAAATTTAAC-ATTTTTTTATTATATTAACTTTAC
*
1774903 ATAAAATTATAAAATTTAA-ATTTTTTTATTATATTAACTTTAT
1 ATAAAATTATAAAATTTAACATTTTTTTATTATATTAACTTTAC
1774946 ATAAA
1 ATAAA
1774951 TAAATTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 27 0.59
45 19 0.41
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (44 bp):
ATAAAATTATAAAATTTAACATTTTTTTATTATATTAACTTTAC
Found at i:1775536 original size:20 final size:22
Alignment explanation
Indices: 1775504--1775544 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1775494 TATTATTTAT
1775504 TTTTATCTAAAAATTT-TAAAC
1 TTTTATCTAAAAATTTATAAAC
1775525 TTTTAT-TAAAAATTTATAAA
1 TTTTATCTAAAAATTTATAAA
1775545 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTATCTAAAAATTTATAAAC
Found at i:1776833 original size:2 final size:2
Alignment explanation
Indices: 1776828--1776860 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1776818 TATATAATTA
*
1776828 AT AT AT AT AT AT AT AT AT AG AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1776861 TCCTAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1777572 original size:21 final size:21
Alignment explanation
Indices: 1777546--1777592 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
1777536 TAATACAAAA
1777546 TTATT-TTAAGAGATTTAAATT
1 TTATTGTTAAG-GATTTAAATT
1777567 TTATTTGTTAAGGATTTAAATT
1 TTA-TTGTTAAGGATTTAAATT
1777589 TTAT
1 TTAT
1777593 AATATTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.17
22 15 0.62
23 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (21 bp):
TTATTGTTAAGGATTTAAATT
Found at i:1777574 original size:72 final size:72
Alignment explanation
Indices: 1777441--1777583 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 72
1777431 TTTTTTATTG
* * *
1777441 AATAATTATTTTGACTTTAAACATAATATAAAATTACTATAAAAAATTTAAATCTCCTTTGTTGA
1 AATAATTATTTTAACTTTAAACATAATACAAAATTACTATAAAAAATTTAAATCTCATTTGTT-A
1777506 A-GATTTT
65 AGGATTTT
* * * * * * * *
1777513 AATAGTTATTTTAATTTTAAACATAATACAAAATTATTTTAAGAGATTTAAATTTTATTTGTTAA
1 AATAATTATTTTAACTTTAAACATAATACAAAATTACTATAAAAAATTTAAATCTCATTTGTTAA
1777578 GGATTT
66 GGATTT
1777584 AAATTTTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (72 bp):
AATAATTATTTTAACTTTAAACATAATACAAAATTACTATAAAAAATTTAAATCTCATTTGTTAA
GGATTTT
Found at i:1779459 original size:15 final size:14
Alignment explanation
Indices: 1779435--1779465 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1779425 ACCTACTTAA
1779435 AATACTTATTATTT
1 AATACTTATTATTT
1779449 AATATCTTATTATTT
1 AATA-CTTATTATTT
1779464 AA
1 AA
1779466 AGTTATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
AATACTTATTATTT
Found at i:1784968 original size:13 final size:13
Alignment explanation
Indices: 1784950--1784974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1784940 CATTTTATGG
1784950 TGTATCGATACAA
1 TGTATCGATACAA
1784963 TGTATCGATACA
1 TGTATCGATACA
1784975 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1784990 original size:32 final size:33
Alignment explanation
Indices: 1784927--1784994 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1784917 CGTTACAAGC
**
1784927 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
1784960 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
1784992 CAA
1 CAA
1784995 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:1785073 original size:20 final size:21
Alignment explanation
Indices: 1785026--1785078 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1785016 GCCAATGACC
**
1785026 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
1785047 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
1785067 TGTATCGATACA
1 TGTATCGATACA
1785079 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Done.