Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 305 of 333
Found at i:100365672 original size:52 final size:51
Alignment explanation
Indices: 100365563--100365673 Score: 116
Period size: 52 Copynumber: 2.2 Consensus size: 51
100365553 AAAATTTATA
* * * *
100365563 ATAAAAAATTAGGTGCTGTGACACTGATGACCTGCACCCTTGTACTAGATT
1 ATAAAAAATTAGGTGCTGAGACACTGATGACCGGCACCCTTGTACCAAATT
* * * *
100365614 AAAAAAAATTGGGGTGTTGAGACACTGATGATCGGCA-CCTTAGTACCAAATT
1 ATAAAAAATT-AGGTGCTGAGACACTGATGACCGGCACCCTT-GTACCAAATT
*
100365666 TTAAAAAA
1 ATAAAAAA
100365674 AAAATTGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
51 13 0.27
52 35 0.73
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (51 bp):
ATAAAAAATTAGGTGCTGAGACACTGATGACCGGCACCCTTGTACCAAATT
Found at i:100375632 original size:18 final size:17
Alignment explanation
Indices: 100375605--100375653 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
100375595 AACGAAAATT
*
100375605 TATTTGATAATAAGATAA
1 TATTTTATAATAA-ATAA
*
100375623 TATTTTATAATAAATAG
1 TATTTTATAATAAATAA
*
100375640 TATGTTAT-ATAAAT
1 TATTTTATAATAAAT
100375654 TTAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 6 0.21
17 10 0.36
18 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:100375797 original size:23 final size:24
Alignment explanation
Indices: 100375770--100375825 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
100375760 TGATTTAAAC
*
100375770 AAATATTTATA-TTTATATTATTA
1 AAATATTTATATTTTATATTATAA
*
100375793 AAATATTAATATTTTATATTATAA
1 AAATATTTATATTTTATATTATAA
*
100375817 AAATGTTTA
1 AAATATTTA
100375826 ATATGAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
AAATATTTATATTTTATATTATAA
Found at i:100378896 original size:15 final size:17
Alignment explanation
Indices: 100378875--100378915 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
100378865 TAATATTTTA
100378875 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
100378891 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
100378907 AAAATTATA
1 AAAATTATA
100378916 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:100381568 original size:9 final size:9
Alignment explanation
Indices: 100381554--100381590 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
100381544 TATAGTTTGA
100381554 TATTCGAAT
1 TATTCGAAT
100381563 TATTCGAAT
1 TATTCGAAT
*
100381572 TATTCGAGT
1 TATTCGAAT
100381581 TATTCGAAT
1 TATTCGAAT
100381590 T
1 T
100381591 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:100384157 original size:25 final size:25
Alignment explanation
Indices: 100384066--100384147 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
100384056 GTGGACACAC
* *
100384066 CACACCTCGTATAAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
** *
100384091 TGCAGCTCATGA-GAGCTTACCGATT
1 CACAGCTCGT-ATGAGCTTACCGATT
*
100384116 CTCAGCTCGTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
100384141 CACAGCT
1 CACAGCT
100384148 TGTCATAGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:100384357 original size:30 final size:30
Alignment explanation
Indices: 100384318--100384379 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
100384308 TACATGAAAT
100384318 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
100384349 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
100384378 AC
1 AC
100384380 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:100391982 original size:38 final size:38
Alignment explanation
Indices: 100391933--100392257 Score: 389
Period size: 38 Copynumber: 7.9 Consensus size: 38
100391923 TGATATGAAA
100391933 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
100391971 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
100392009 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
100392047 TGTGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
100392090 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
100392131 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
* *
100392174 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
100392215 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ---TG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
100392258 ATGACAGAAA
Statistics
Matches: 257, Mismatches: 9, Indels: 34
0.86 0.03 0.11
Matches are distributed among these distances:
38 146 0.57
41 8 0.03
43 4 0.02
44 1 0.00
46 98 0.38
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:100392119 original size:46 final size:46
Alignment explanation
Indices: 100392047--100392301 Score: 321
Period size: 46 Copynumber: 5.7 Consensus size: 46
100392037 TGGCAACCTG
* *
100392047 TGTGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
100392093 TGTGTAAGACCATGGTTGAAAGATACCATGGC-A----ACATG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
100392131 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
100392177 TGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
100392223 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
100392269 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
100392302 TCACGTCAAA
Statistics
Matches: 184, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
41 4 0.02
43 4 0.02
45 2 0.01
46 141 0.77
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:100392150 original size:84 final size:84
Alignment explanation
Indices: 100392009--100392301 Score: 399
Period size: 84 Copynumber: 3.4 Consensus size: 84
100391999 TGGCAACCTG
* *
100392009 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAATATACC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTGTGTAAGACCATGGTTGAAAGATACC
100392074 ATGGCAACCTGATATGAAA
66 ATGGCAACCTGATATGAAA
100392093 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTGTGTAAGACCATGGTTGAAAGATACC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTGTGTAAGACCATGGTTGAAAGATACC
100392158 ATGGCAACCTGATATGAAA
66 ATGGCAACCTGATATGAAA
* * *
100392177 TGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG---TG---TG--TAAGACCATGGTTGA
* *
100392242 AAGATACCATGGCAACATGACA-GAAAA
58 AAGATACCATGGCAACCTGATATG-AAA
* * * *
100392269 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
100392302 TCACGTCAAA
Statistics
Matches: 188, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
84 118 0.63
87 2 0.01
90 1 0.01
91 1 0.01
92 66 0.35
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (84 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATATGAAA
Found at i:100392607 original size:23 final size:25
Alignment explanation
Indices: 100392562--100392608 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
100392552 AATAAATATA
*
100392562 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
100392587 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
100392609 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:100404696 original size:18 final size:18
Alignment explanation
Indices: 100404675--100404713 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100404665 GATTGCGAGT
* *
100404675 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
100404693 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
100404711 GAA
1 GAA
100404714 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:100413182 original size:23 final size:23
Alignment explanation
Indices: 100413156--100413200 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
100413146 TATCATTACT
100413156 ATTACTTATATTTTA-TTATTATG
1 ATTA-TTATATTTTATTTATTATG
* *
100413179 ATTATTGTTTTTTATTTATTAT
1 ATTATTATATTTTATTTATTAT
100413201 TTATAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTATTATATTTTATTTATTATG
Found at i:100413295 original size:3 final size:3
Alignment explanation
Indices: 100412990--100413282 Score: 108
Period size: 3 Copynumber: 98.0 Consensus size: 3
100412980 TAATTTAATA
* * * * * *
100412990 TAT TAT TAT TAT TATT TCT TCT TCT TCT TAT TAT T-T TAC TGT TACT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
100413036 TA- TATT TAT TAT CAT TAC TAT TAT TAC TAT TAT T-T TAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
100413080 TAT T-T TCAC TAT CT-T CAT TAT TAT TAT TAC TAT TAT TAT T-T TCAT
1 TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
** * * * *
100413125 TAT TAT TAT CGT TAT TAC CAT TAT CAT TAC TAT TACT TA- TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * **
100413169 TAT TAT TAT GAT TAT TGT T-T T-T TATT TAT TAT T-T ATAA TAT GGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT
* * * * * *
100413213 TGT TAT TAT TAT TAT TAT TTT TAAT TAC TGT TAC TAT TAT T-T CTTT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT -TAT
*
100413259 TAT TAT T-T AAT ATAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT
100413283 CCTGTTTATT
Statistics
Matches: 214, Mismatches: 52, Indels: 48
0.68 0.17 0.15
Matches are distributed among these distances:
2 21 0.10
3 171 0.80
4 22 0.10
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:100413377 original size:19 final size:16
Alignment explanation
Indices: 100413338--100413385 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
100413328 CTTTCACCTA
100413338 TATTT-GTTTTCTTAT
1 TATTTAGTTTTCTTAT
100413353 TATTTAGTTTTCATTTAT
1 TATTTAGTTTTC--TTAT
*
100413371 CTATTTATTTTTCTT
1 -TATTTAGTTTTCTT
100413386 GCCTACTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTAGTTTTCTTAT
Found at i:100418289 original size:46 final size:46
Alignment explanation
Indices: 100418239--100418449 Score: 298
Period size: 46 Copynumber: 4.6 Consensus size: 46
100418229 CTATGATAGA
* *
100418239 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
*
100418285 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
**
100418331 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC-ATG
** * *
100418378 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
* *
100418423 AAAATGAGTAAGACCATAGTTGAAAGA
1 -AAATGTGTAAGACCATGGTTGAAAGA
100418450 CACTATGACA
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 108 0.72
47 40 0.27
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
Found at i:100418428 original size:93 final size:92
Alignment explanation
Indices: 100418231--100418449 Score: 305
Period size: 93 Copynumber: 2.4 Consensus size: 92
100418221 AGTGTGCTCT
* * * **
100418231 ATGATAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAG
100418296 ACCATGGTTGAAAGATACCATGACAAC
66 ACCATGGTTGAAAGATACCATGACAAC
* * *
100418323 GTGACATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATA
1 ATGACA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-GAGGAAATGAATA
* *
100418387 AGACCATGGTTGAATGATACCATGGCAAC
64 AGACCATGGTTGAAAGATACCATGACAAC
* *
100418416 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 ATGACAGAAAATGTGTAAGACCATGGTTGAAAGA
100418450 CACTATGACA
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 46 0.41
93 65 0.59
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (92 bp):
ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAG
ACCATGGTTGAAAGATACCATGACAAC
Found at i:100419717 original size:9 final size:10
Alignment explanation
Indices: 100419699--100419731 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
100419689 TCTCTTTCTT
100419699 TTTGCATGCA
1 TTTGCATGCA
100419709 TTT-CATGCA
1 TTTGCATGCA
100419718 TTTGCATTGCA
1 TTTGCA-TGCA
100419729 TTT
1 TTT
100419732 TTAGTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 5 0.24
11 7 0.33
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (10 bp):
TTTGCATGCA
Found at i:100423840 original size:74 final size:74
Alignment explanation
Indices: 100423718--100423952 Score: 265
Period size: 74 Copynumber: 3.0 Consensus size: 74
100423708 GCAGTAGGGT
* * *
100423718 TAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGAGG-AACAGATCGAAGGTGATGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAG-GGAAACAGATCGAAGGCGATGGG
*
100423782 CATTAAACCC
65 CCTTAAACCC
*
100423792 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGGC
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
100423857 CTTAAACCTC
66 CTTAAACC-C
* * *
100423867 TAAGCAGTAGGTTAATAGGCTGAATTTACAGATCTTATCACCCTAAGCAATAAGGAAACGGATCG
1 TAA-C---AGG-----A---TGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCG
100423932 AAGGCGATGGGCCTTAAACCC
54 AAGGCGATGGGCCTTAAACCC
100423953 CTAAGCAGTA
Statistics
Matches: 138, Mismatches: 9, Indels: 16
0.85 0.06 0.10
Matches are distributed among these distances:
73 2 0.01
74 65 0.47
75 4 0.03
76 1 0.01
79 3 0.02
84 1 0.01
86 1 0.01
87 61 0.44
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (74 bp):
TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
CTTAAACCC
Found at i:100423999 original size:44 final size:43
Alignment explanation
Indices: 100423792--100424865 Score: 345
Period size: 44 Copynumber: 25.0 Consensus size: 43
100423782 CATTAAACCC
100423792 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** * ** * *
100423835 AAACA-GATCGAAGGCGATAGGCCTTA-AACCTCTAAGCAGTAGGT
1 TAACAGGAT-GAA-TTTACAGATCTTATCACC-CTAAGCAGTAGGG
* * * *
100423879 TAATAGGCTGAATTTACAGATCTTATCACCCTAAGCAATAAGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** ** ** *
100423922 AAAC-GGATCGAAGGCGATGGGCCTTA-AACCCCTAAGCAGTAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
* *
100423966 TTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGG
1 -TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* * * ** ** *
100424010 GAACA-GATCGAAGGTGATGGGCCTTA--AACC----C--T----
1 TAACAGGAT-GAA-TTTACAGATCTTATCACCCTAAGCAGTAGGG
*
100424042 -AACAGGATGAATTTACAAATCTTATCACCCTAAG-AGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** * ** * *
100424083 AAACA-GATCGAAGGCGATAGGCCTTA-AACCTCTAAGCAATAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCACC-CTAAGCAGTAGGG
* * *
100424127 TAACAGGCTGAATTTACAGATCTTATCACCCTTAGTAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** ** ** *
100424170 AAACA-GATTGAAGGCGATGGGCCTTA-AACCCCTAAGCAGTAGGG
1 TAACAGGA-TGAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
*** ** ** * *
100424214 TAACA-GATCGAAGGCGATGGGCCTTA-AACCCTTAAGTAGTAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCACCC-TAAGCAGTAGGG
*
100424258 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** ** ** *
100424301 AAACA-GATCGAAGGCGATGGGCCTTA-AACCCCTAAGCAGTAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
*
100424345 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** ** ** * * *
100424388 AAACA-GATTGAAGGCGATGGGCCTTA-AACCCCTAAGCCGTAGAG
1 TAACAGGA-TGAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
*
100424432 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** ** ** *
100424475 AAACA-GATCGAAGGCGATGGGCCTTA-AACCCCTAAGCAGTAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
* * * *
100424519 TAACAGGCTGAATTTATAGATTTTATCACCCTAAGCAGAAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
*** * ** * *
100424562 -ACACA-GATCGAACGCGATAGGCCTTA-AACCCCTAAACAGTAGGG
1 TA-ACAGGAT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
* *
100424606 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
*
100424649 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** ** ** * *
100424692 AAACA-GATCGAAGGCGATGGGCCTTA-AACCCCTAAGTAGTAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
* * *
100424736 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGCAAGG
1 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* *** * ** * *
100424779 AAACA-GATCGAAGGCGATAGGCCTTA-AACCCCTAAGTAGTAGGG
1 TAACAGGAT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGG
100424823 TAACA-GACTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 TAACAGGA-TGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
100424866 AAACGGTCGA
Statistics
Matches: 720, Mismatches: 239, Indels: 144
0.65 0.22 0.13
Matches are distributed among these distances:
30 6 0.01
31 7 0.01
32 6 0.01
36 1 0.00
37 1 0.00
38 1 0.00
41 3 0.00
42 34 0.05
43 307 0.43
44 327 0.45
45 24 0.03
46 3 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (43 bp):
TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
Found at i:100424019 original size:88 final size:87
Alignment explanation
Indices: 100423792--100424040 Score: 399
Period size: 87 Copynumber: 2.9 Consensus size: 87
100423782 CATTAAACCC
* *
100423792 TAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGGC
1 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
*
100423857 CTTAAACCTCTAAGCAGTAGGT
66 CTTAAACCCCTAAGCAGTAGGT
* * * *
100423879 TAATAGGCTGAATTTACAGATCTTATCACCCTAAGCAATAAGGAAACGGATCGAAGGCGATGGGC
1 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
100423944 CTTAAACCCCTAAGCAGTAGGGT
66 CTTAAACCCCTAAGCAGTA-GGT
* * *
100423967 TAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGGAACAGATCGAAGGTGATGGGC
1 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
100424032 CTTAAACCC
66 CTTAAACCC
100424041 TAACAGGATG
Statistics
Matches: 147, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 77 0.52
88 70 0.48
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (87 bp):
TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
CTTAAACCCCTAAGCAGTAGGT
Found at i:100424157 original size:160 final size:162
Alignment explanation
Indices: 100423887--100424200 Score: 497
Period size: 160 Copynumber: 2.0 Consensus size: 162
100423877 GTTAATAGGC
* * *
100423887 TGAATTTACAGATCTTATCACCCTAAGCAATAAGGAAACGGATCGAAGGCGATGGGCCTTAAACC
1 TGAATTTACAAATCTTATCACCCTAAGCAATAAGGAAACAGATCGAAGGCGATAGGCCTTAAACC
* *
100423952 CCTAAGCAGTAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGGAACAGA
66 CCTAAGCAATAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGAAACAGA
*
100424017 TCGAAGGTGATGGGCCTTAAACCCTAACAGGA
131 TCGAAGGCGATGGGCCTTAAACCCTAACAGGA
* *
100424049 TGAATTTACAAATCTTATCACCCTAAG-AGTAGGGAAACAGATCGAAGGCGATAGGCCTTAAACC
1 TGAATTTACAAATCTTATCACCCTAAGCAATAAGGAAACAGATCGAAGGCGATAGGCCTTAAACC
* * **
100424113 TCTAAGCAATAGGG-TAACAGGCTGAATTTACAGATCTTATCACCCTTAGTAGTAGGGAAACAGA
66 CCTAAGCAATAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGAAACAGA
*
100424177 TTGAAGGCGATGGGCCTTAAACCC
131 TCGAAGGCGATGGGCCTTAAACCC
100424201 CTAAGCAGTA
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
160 68 0.49
161 45 0.32
162 26 0.19
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (162 bp):
TGAATTTACAAATCTTATCACCCTAAGCAATAAGGAAACAGATCGAAGGCGATAGGCCTTAAACC
CCTAAGCAATAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGAAACAGA
TCGAAGGCGATGGGCCTTAAACCCTAACAGGA
Found at i:100424194 original size:87 final size:86
Alignment explanation
Indices: 100424041--100424219 Score: 286
Period size: 87 Copynumber: 2.1 Consensus size: 86
100424031 CCTTAAACCC
100424041 TAACAGGATGAATTTACAAATCTTATCACCCTAAGAGTAGGGAAACAGATCGAAGGCGATAGGCC
1 TAACAGGATGAATTTACAAATCTTATCACCCTAAGAGTAGGGAAACAGATCGAAGGCGATAGGCC
*
100424106 TTAAACCTCTAAGCAATAGGG
66 TTAAACCCCTAAGCAATAGGG
* * * * *
100424127 TAACAGGCTGAATTTACAGATCTTATCACCCTTAGTAGTAGGGAAACAGATTGAAGGCGATGGGC
1 TAACAGGATGAATTTACAAATCTTATCACCCTAAG-AGTAGGGAAACAGATCGAAGGCGATAGGC
*
100424192 CTTAAACCCCTAAGCAGTAGGG
65 CTTAAACCCCTAAGCAATAGGG
100424214 TAACAG
1 TAACAG
100424220 ATCGAAGGCG
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 32 0.38
87 53 0.62
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (86 bp):
TAACAGGATGAATTTACAAATCTTATCACCCTAAGAGTAGGGAAACAGATCGAAGGCGATAGGCC
TTAAACCCCTAAGCAATAGGG
Found at i:100424245 original size:87 final size:87
Alignment explanation
Indices: 100424199--100424654 Score: 777
Period size: 87 Copynumber: 5.2 Consensus size: 87
100424189 GGCCTTAAAC
* * *
100424199 CCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTAAACCCTTAAGTAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
100424264 GCTGAATTTACAGATCTTATCA
66 GCTGAATTTACAGATCTTATCA
100424286 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
100424351 GCTGAATTTACAGATCTTATCA
66 GCTGAATTTACAGATCTTATCA
* * *
100424373 CCCTAAGCAGTAGGGAAACAGATTGAAGGCGATGGGCCTTAAACCCCTAAGCCGTAGAGTAACAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
100424438 GCTGAATTTACAGATCTTATCA
66 GCTGAATTTACAGATCTTATCA
100424460 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
* *
100424525 GCTGAATTTATAGATTTTATCA
66 GCTGAATTTACAGATCTTATCA
* * * * *
100424547 CCCTAAGCAGAAGGGACACAGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
100424612 GCTGAATTTACAGATCTTATCA
66 GCTGAATTTACAGATCTTATCA
* *
100424634 CCCTAAGTAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
100424655 GCTGAATTTA
Statistics
Matches: 347, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 347 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
GCTGAATTTACAGATCTTATCA
Found at i:100424257 original size:248 final size:249
Alignment explanation
Indices: 100423637--100424219 Score: 1035
Period size: 249 Copynumber: 2.3 Consensus size: 249
100423627 GTAGCAACGT
100423637 CTGAATTTACAGATCTTATCACCCTAAGCAGTAAGGAAACAGATCGAAGGCGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTATCACCCTAAGCAGTAAGGAAACAGATCGAAGGCGATGGGCCTTAAAC
* *
100423702 TCCTAAGCAGTAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGAGGAACAG
66 CCCTAAGCAGTAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGGAACAG
*
100423767 ATCGAAGGTGATGGGCATTAAACCCTAACAGGATGAATTTACAGATCTTATCACCCTAAGCAGTA
131 ATCGAAGGTGATGGGCATTAAACCCTAACAGGATGAATTTACAAATCTTATCACCCTAAGCAGTA
* * *
100423832 GGGAAACAGATCGAAGGCGATAGGCCTTAAACCTCTAAGCAGTAGGTTAATAGG
196 GGGAAACAGATCGAAGGCGATAGGCCTTAAACCTCTAAGCAATAGGGTAACAGG
* *
100423886 CTGAATTTACAGATCTTATCACCCTAAGCAATAAGGAAACGGATCGAAGGCGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTATCACCCTAAGCAGTAAGGAAACAGATCGAAGGCGATGGGCCTTAAAC
100423951 CCCTAAGCAGTAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGGAACAG
66 CCCTAAGCAGTAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGGAACAG
*
100424016 ATCGAAGGTGATGGGCCTTAAACCCTAACAGGATGAATTTACAAATCTTATCACCCTAAG-AGTA
131 ATCGAAGGTGATGGGCATTAAACCCTAACAGGATGAATTTACAAATCTTATCACCCTAAGCAGTA
100424080 GGGAAACAGATCGAAGGCGATAGGCCTTAAACCTCTAAGCAATAGGGTAACAGG
196 GGGAAACAGATCGAAGGCGATAGGCCTTAAACCTCTAAGCAATAGGGTAACAGG
* * * *
100424134 CTGAATTTACAGATCTTATCACCCTTAGTAGTAGGGAAACAGATTGAAGGCGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTATCACCCTAAGCAGTAAGGAAACAGATCGAAGGCGATGGGCCTTAAAC
100424199 CCCTAAGCAGTAGGG-TAACAG
66 CCCTAAGCAGTAGGGTTAACAG
100424220 ATCGAAGGCG
Statistics
Matches: 319, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
247 6 0.02
248 129 0.40
249 184 0.58
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (249 bp):
CTGAATTTACAGATCTTATCACCCTAAGCAGTAAGGAAACAGATCGAAGGCGATGGGCCTTAAAC
CCCTAAGCAGTAGGGTTAACAGGCTGAATTTACAGATCTTATCACCCTAAACAGTAGGGGAACAG
ATCGAAGGTGATGGGCATTAAACCCTAACAGGATGAATTTACAAATCTTATCACCCTAAGCAGTA
GGGAAACAGATCGAAGGCGATAGGCCTTAAACCTCTAAGCAATAGGGTAACAGG
Found at i:100424418 original size:218 final size:217
Alignment explanation
Indices: 100424041--100424437 Score: 704
Period size: 218 Copynumber: 1.8 Consensus size: 217
100424031 CCTTAAACCC
100424041 TAACAGGATGAATTTACAAATCTTATCACCCTAAGAGTAGGGAAACAGATCGAAGGCGATAGGCC
1 TAACAGGATGAATTTACAAATCTTATCACCCTAAGAGTAGGGAAACAGATCGAAGGCGATAGGCC
* * *
100424106 TTAAACCTCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTTAGTAGTAGGGA
66 TTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGA
*
100424171 AACAGATTGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGC
131 AACAGATTGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGAGTAACAGATCGAAGGCGATGGGC
100424236 CTTAAACCCTTAAGTAGTAGGG
196 CTTAAACCCTTAAGTAGTAGGG
* * *
100424258 TAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
1 TAACAGGATGAATTTACAAATCTTATCACCCTAAG-AGTAGGGAAACAGATCGAAGGCGATAGGC
*
100424323 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
65 CTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
*
100424388 AAACAGATTGAAGGCGATGGGCCTTAAACCCCTAAGCCGTAGAGTAACAG
130 AAACAGATTGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGAGTAACAG
100424438 GCTGAATTTA
Statistics
Matches: 170, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
217 33 0.19
218 137 0.81
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (217 bp):
TAACAGGATGAATTTACAAATCTTATCACCCTAAGAGTAGGGAAACAGATCGAAGGCGATAGGCC
TTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGA
AACAGATTGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGAGTAACAGATCGAAGGCGATGGGC
CTTAAACCCTTAAGTAGTAGGG
Found at i:100424664 original size:217 final size:217
Alignment explanation
Indices: 100424417--100424865 Score: 783
Period size: 217 Copynumber: 2.1 Consensus size: 217
100424407 GGCCTTAAAC
* *
100424417 CCCTAAGCCGTAGAGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
* *
100424482 TCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATTTTATCA
66 TCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
*
100424547 CCCTAAGCAG-AAGGGACACAGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACA
131 CCCTAAGCAGCAA-GGAAACAGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACA
*
100424611 GGCTGAATTTACAGATCTTATCA
195 GACTGAATTTACAGATCTTATCA
*
100424634 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
*
100424699 TCGAAGGCGATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
66 TCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
* **
100424764 CCCTAAGCAGCAAGGAAACAGATCGAAGGCGATAGGCCTTAAACCCCTAAGTAGTAGGGTAACAG
131 CCCTAAGCAGCAAGGAAACAGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAG
100424829 ACTGAATTTACAGATCTTATCA
196 ACTGAATTTACAGATCTTATCA
100424851 CCCTAAGCAGTAGGG
1 CCCTAAGCAGTAGGG
100424866 AAACGGTCGA
Statistics
Matches: 219, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
217 217 0.99
218 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (217 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
TCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
CCCTAAGCAGCAAGGAAACAGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAG
ACTGAATTTACAGATCTTATCA
Found at i:100424726 original size:87 final size:87
Alignment explanation
Indices: 100424634--100424925 Score: 514
Period size: 87 Copynumber: 3.4 Consensus size: 87
100424624 GATCTTATCA
100424634 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
*
100424699 TCGAAGGCGATGGGCCTTAAAC
66 TCGAAGGCGATAGGCCTTAAAC
* *
100424721 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGCAAGGAAACAGA
1 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
100424786 TCGAAGGCGATAGGCCTTAAAC
66 TCGAAGGCGATAGGCCTTAAAC
* *
100424808 CCCTAAGTAGTAGGGTAACAGACTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAAC-GG
1 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
*
100424872 TCGAAAGCGATAGGCCTTAAAC
66 TCGAAGGCGATAGGCCTTAAAC
*
100424894 CCCTAAGCAGTAGGGTAACAGGCTGAATTTAC
1 CCCTAAGTAGTAGGGTAACAGGCTGAATTTAC
100424926 CTAAACATTA
Statistics
Matches: 195, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
86 52 0.27
87 143 0.73
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (87 bp):
CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
TCGAAGGCGATAGGCCTTAAAC
Found at i:100424727 original size:174 final size:172
Alignment explanation
Indices: 100424114--100424914 Score: 618
Period size: 174 Copynumber: 4.6 Consensus size: 172
100424104 CCTTAAACCT
* * * *
100424114 CTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTTAGTAGTAGGGAAACAGATT
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAG-TC
* *
100424179 GAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTAAACC
65 GAA-GCGATAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATAGGCCTTAAACC
* *
100424244 CTTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACC
129 CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACC
* * *** ** ** * *
100424288 CTAAGCAGTAGGGAAACA-GATCGAAGGCGATGGGCCTTA-AACCCCTAAGCAGTAGGGTAACAG
1 CTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGGAAACAG
* *** * ** * * * *
100424351 GCTGAATTTACAGATCTT-ATCACCCTAAGCAGTAGGGAAACAGATTGAAGGCGATGGGCCTTAA
63 TC-GAAGCGATAGGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGATCGAAGGCGATAGGCCTTAA
* *
100424415 ACCCCTAAGCCGTAGAGTAACAGGCTGAATTTACAGATCTTATCACC
126 ACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACC
* * *** ** ** * *
100424462 CTAAGCAGTAGGGAAACA-GATCGAAGGCGATGGGCCTTA-AACCCCTAAGCAGTAGGGTAACAG
1 CTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGGAAACAG
* *** ** * * * *
100424525 GCTGAATTTATA-GATTTTATCACCCTAAGCAGAAGGG-ACACAGATCGAACGCGATAGGCCTTA
63 TC-GAAGCGATAGGCCTTAAAC-CCCTAAGCAGTAGGGTA-ACAGATCGAAGGCGATAGGCCTTA
*
100424588 AACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACC
125 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACC
*
100424636 CTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAG-TC
* * * *** * ** *
100424701 GAAGGCGATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAG-GCTGAA-TTTACAGATCTT-ATC
65 GAA-GCGATAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATC-GAAGGCGATAGGCCTTAAAC
* * * * *** * ** *
100424763 ACCCTAAGCAGCAAGGAAACA-GATCGAAGGCGATAGGCCTTA-AACCC
128 -CCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTTATCA-CC
* * *
100424810 CTAAGTAGTAGGGTAACAGACTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACGGTCG
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGTCG
100424875 AAAGCGATAGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
66 -AAGCGATAGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
100424915 GCTGAATTTA
Statistics
Matches: 520, Mismatches: 88, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
172 4 0.01
173 101 0.19
174 380 0.73
175 35 0.07
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (172 bp):
CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGTCG
AAGCGATAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATAGGCCTTAAACCCC
TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACC
Found at i:100424727 original size:261 final size:261
Alignment explanation
Indices: 100424114--100424741 Score: 841
Period size: 261 Copynumber: 2.4 Consensus size: 261
100424104 CCTTAAACCT
* * * *
100424114 CTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTTAGTAGTAGGGAAACAGATT
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
100424179 GAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTAAACC
66 GAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTAAACC
* * *
100424244 CTTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGAT
131 CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGAAGGGAAACAGAT
* * *
100424309 CGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCAC
196 CGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTATCAC
100424374 C
261 C
* ** *** ** ** * * * *
100424375 CTAAGCAGTAGGGAAACAGATTGAAGGCGATGGGCCTTA-AACCCCTAAGCCGTAGAGTAACAG-
1 CTAAGCAGTAGGGTAACAGGCTGAA-TTTACAGATCTTATCA-CCCTAAGCAGTAGGGAAACAGA
* *** ** ** * *
100424438 GCTGAA-TTTACAGATCTT-ATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTA
64 TC-GAAGGCGATGGGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTA
* * *
100424501 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATTTTATCACCCTAAGCAGAAGGGACAC
127 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGAAGGGAAAC
100424566 AGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTA
192 AGATCGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTA
100424631 TCACC
257 TCACC
*
100424636 CTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
*
100424701 GAAGGCGATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAG
66 GAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
100424742 GCTGAATTTA
Statistics
Matches: 296, Mismatches: 63, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
260 29 0.10
261 240 0.81
262 27 0.09
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (261 bp):
CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
GAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGAAGGGAAACAGAT
CGAACGCGATAGGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTATCAC
C
Found at i:100424898 original size:43 final size:44
Alignment explanation
Indices: 100424069--100424915 Score: 276
Period size: 43 Copynumber: 19.5 Consensus size: 44
100424059 AATCTTATCA
* *
100424069 CCCTAAG-AGTAGGGAAACAGATCGAAGGCGATAGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * * *** * ** *
100424112 CTCTAAGCAATAGGGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * * * * *
100424154 ACCCTTAGTAGTAGGGAAACAGATTGAAGGCGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * * *
100424199 CCCTAAGCAGTAGGGTAACAGATCGAAGGCGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * * *** * ** *
100424243 CCTTAAGTAGTAGGGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * *
100424285 ACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* *** * ** *
100424330 CCCTAAGCAGTAGGGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * * *
100424372 ACCCTAAGCAGTAGGGAAACAGATTGAAGGCGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * * *** * ** *
100424417 CCCTAAGCCGTAGAGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * *
100424459 ACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* *** ** * *
100424504 CCCTAAGCAGTAGGGTAACAGG-CTG-AATTTATA-GATTTTATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * * *
100424546 ACCCTAAGCAGAAGGGACACAGATCGAACGCGATAGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * *** * ** *
100424591 CCCTAAACAGTAGGGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * *** * ** *
100424633 ACCCTAAGTAGTAGGGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 -CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * *
100424676 ACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * *** * ** *
100424721 CCCTAAGTAGTAGGGTAACAGG-CTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
* * * *
100424763 ACCCTAAGCAGCAAGGAAACAGATCGAAGGCGATAGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
* * * *** * ** *
100424808 CCCTAAGTAGTAGGGTAACA-GACTG-AATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGGTC-GAAAGCGATAGGCCTTAAAC
100424850 ACCCTAAGCAGTAGGGAAAC-GGTCGAAAGCGATAGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
*
100424894 CCCTAAGCAGTAGGGTAACAGG
1 CCCTAAGCAGTAGGGAAACAGG
100424916 CTGAATTTAC
Statistics
Matches: 555, Mismatches: 207, Indels: 83
0.66 0.24 0.10
Matches are distributed among these distances:
42 20 0.04
43 280 0.50
44 238 0.43
45 17 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGGTCGAAAGCGATAGGCCTTAAAC
Found at i:100426745 original size:23 final size:23
Alignment explanation
Indices: 100426719--100426763 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
100426709 TATCATTACT
100426719 ATTACTTATATTTTA-TTATTATG
1 ATTA-TTATATTTTATTTATTATG
* *
100426742 ATTATTGTTTTTTATTTATTAT
1 ATTATTATATTTTATTTATTAT
100426764 TTATAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTATTATATTTTATTTATTATG
Found at i:100426887 original size:3 final size:3
Alignment explanation
Indices: 100426542--100426874 Score: 134
Period size: 3 Copynumber: 110.0 Consensus size: 3
100426532 TAATTTAATA
* * *
100426542 TAT TAT TATT TCT TAT TAT TAT TAT TAT TAT T-T TAC TGT TACT TA-
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * *
100426587 TAT GTAT TAT CAT TAC TAT TAT TAC TAT TA- TAT TAC TAT TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
100426632 T-T TCAC TAT T-T TCAT TAT TAT TAT TAC TAT TGT TAT T-T TCAT TAT
1 TAT T-AT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* * ** * * * * *
100426677 CTAC TAC TAT TATT TAT TAT CGT TGT TAC CAT TAT CAT TAC TAT TACT
1 -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* *
100426725 TA- TAT T-T TAT TAT TAT GAT TAT TGT T-T T-T TATT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* ** * * *
100426766 ATAA TAT GGT TGT TAT TAT TAT TAT TCCT TAT TTT CTAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT -TAT TAT TAT TAT
* * * * *
100426814 TAT TAT TAT TTT TAAT TAC TGT TAC TAT TAT T-T CTTT TAT TAT T-T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
100426859 AAT ATAT TAT TAT TAT
1 TAT -TAT TAT TAT TAT
100426875 CCTGTTTATT
Statistics
Matches: 244, Mismatches: 58, Indels: 56
0.68 0.16 0.16
Matches are distributed among these distances:
2 23 0.09
3 188 0.77
4 33 0.14
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:100426969 original size:19 final size:16
Alignment explanation
Indices: 100426930--100426977 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
100426920 CTTTCACCTA
100426930 TATTT-GTTTTCTTAT
1 TATTTAGTTTTCTTAT
100426945 TATTTAGTTTTCATTTAT
1 TATTTAGTTTTC--TTAT
*
100426963 CTATTTATTTTTCTT
1 -TATTTAGTTTTCTT
100426978 GCCTACTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTAGTTTTCTTAT
Found at i:100428472 original size:53 final size:53
Alignment explanation
Indices: 100428391--100428541 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
100428381 CTTACACGGT
* *
100428391 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
100428446 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
100428499 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
100428542 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:100435754 original size:3 final size:3
Alignment explanation
Indices: 100435748--100436132 Score: 145
Period size: 3 Copynumber: 128.7 Consensus size: 3
100435738 GTAAAAAAAT
100435748 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GCTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA
* * * * * *
100435795 TGA CAA -AA T-A TGAA GAAA TAA TAA TAA GAA TAA TGA TAA TTA TAA
1 TAA TAA TAA TAA T-AA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
100435840 -GA TAA -AA T-A TAA TTA TAG T-A TAA -AA GTAA AAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * * * *
100435881 TAA TAA TAA TAT TAA TAA AAA GAA TAA -AA -AA AAA CAA TGAA T-G
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * * * * *
100435924 TGA TAG TAA CATA TAA TAA TAA TGA -AA TAA CAC TAG TAA TAGA -AA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * ** * *
100435969 TATA TAA -AA TAA CAA TAA TAA TAA TGA T-A TGT TAA CAA TAA TGA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
100436013 TAA AAA AAA TAA TAA CATA TGAA TAA TAA TAGA CTAA TAA TAA CAA TAG
1 TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TA-A -TAA TAA TAA TAA TAA
* * * *
100436062 TAA AAA TAA -AA -AA TAA TAT TAA TGGAA TAA AAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TAA TAA TAA TAA
* * *
100436107 TCA TAC TAA TAA TAA CAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
100436133 TTAAAATTAA
Statistics
Matches: 279, Mismatches: 74, Indels: 58
0.68 0.18 0.14
Matches are distributed among these distances:
2 27 0.10
3 224 0.80
4 19 0.07
5 9 0.03
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:100442509 original size:135 final size:135
Alignment explanation
Indices: 100442183--100442521 Score: 482
Period size: 135 Copynumber: 2.5 Consensus size: 135
100442173 TACAGAGTTT
* *
100442183 ATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACACAGCAGATCTTATCTTCGCTGA
1 ATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACACAGCAGATCTTATCTTCACTGA
*** * * *
100442248 GCATTGGCGGAGCAGATCACATTGCAGTGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTC
66 GCAGAAGCGGAGCAAATCACATTGCAGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTC
*
100442313 TAACC
131 CAACC
* * *
100442318 ATCAACCTTATCTTCACTGAGTAGTAGTGAAGTAGGTTAAACACAGCAGATCTTATCTTCACTGA
1 ATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACACAGCAGATCTTATCTTCACTGA
* *
100442383 GCAGAAGCGGAGCAAATCACATTTTCAGTGAATCTTATCTCCATGTATCGGCAATAGAGTAGATT
66 GCAGAAGCGGAGCAAATCACA-TTGCAGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATT
100442448 CCAACC
130 CCAACC
* * * ** *
100442454 ATTAACCTTATTTTCACTGAGCAGGAGTGAAGCAGGTTAAACATATTAG-CCTTATCTTCACTGA
1 ATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACACAGCAGATCTTATCTTCACTGA
100442518 GCAG
66 GCAG
100442522 GGGTGGAGCA
Statistics
Matches: 180, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
135 95 0.53
136 85 0.47
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (135 bp):
ATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACACAGCAGATCTTATCTTCACTGA
GCAGAAGCGGAGCAAATCACATTGCAGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTC
CAACC
Found at i:100442522 original size:44 final size:44
Alignment explanation
Indices: 100442454--100442722 Score: 170
Period size: 44 Copynumber: 6.0 Consensus size: 44
100442444 GATTCCAACC
*
100442454 ATTAACCTTATTTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
1 ATTAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
* * * * *
100442498 ATTAGCCTTATCTTCACTGAGCAGGGGTGGAGCAGGCTAAGCAT
1 ATTAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
** * ** * * *
100442542 AGCAGATCTTATCTTCGTTGAGCAGGAGCGAAGCA-GAT-CACAT
1 ATTA-ACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
* * * * * * * * *
100442585 TTTCAACAAATCTTATATCCA-TGTATC-GGTAATGGAGCAGATTCCAAC-C
1 ATT-AAC----CTTATCTTCACTG-AGCAGG-AGTGAAGCAGGTT-AAACAT
**
100442634 ATCGACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
1 ATTAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
* * *
100442678 ATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACAT
1 ATTAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
100442722 A
1 A
100442723 CCAGATCTTA
Statistics
Matches: 164, Mismatches: 47, Indels: 28
0.69 0.20 0.12
Matches are distributed among these distances:
43 7 0.04
44 105 0.64
45 27 0.16
46 4 0.02
47 15 0.09
48 3 0.02
49 1 0.01
50 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (44 bp):
ATTAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
Found at i:100442752 original size:45 final size:44
Alignment explanation
Indices: 100442638--100442757 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 44
100442628 CCAACCATCG
* * *
100442638 ACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACATATCA
1 ACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCA
100442682 ACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCA
1 ACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCA
* **
100442726 GATCTTATCTTCGA-TGAGCAAAAGTGGAGCAG
1 -ACCTTATCTTC-ACTGAGCAGGAGTGGAGCAG
100442758 ATCGTATCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.60
45 26 0.38
46 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (44 bp):
ACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCA
Found at i:100442759 original size:180 final size:180
Alignment explanation
Indices: 100442318--100442760 Score: 627
Period size: 180 Copynumber: 2.5 Consensus size: 180
100442308 GATTCTAACC
* * * * * *
100442318 ATCAACCTTATCTTCACTGAGTAGTAGTGAAGTAGGTTAAACACAGCAGATCTTATCTTC-ACTG
1 ATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAGCAGATCTTATCTTCGA-TG
* *** * *
100442382 AGCAGAAGCGGAGCAAATCACATTTTCAGTGAATCTTATCTCCATGTATCGGCAATAGAGTAGAT
65 AGCAGAAGCGGAGCAGATCACATTTTCAACAAATCTTATATCCATGTATCGGCAATAGAGCAGAT
* *
100442447 TCCAACCATTAACCTTATTTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
130 TCCAACCATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
* * * * *
100442498 ATTAGCCTTATCTTCACTGAGCAGGGGTGGAGCAGGCTAAGCATAGCAGATCTTATCTTCGTTGA
1 ATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAGCAGATCTTATCTTCGATGA
* * * *
100442563 GCAGGAGCGAAGCAGATCACATTTTCAACAAATCTTATATCCATGTATCGGTAATGGAGCAGATT
66 GCAGAAGCGGAGCAGATCACATTTTCAACAAATCTTATATCCATGTATCGGCAATAGAGCAGATT
*
100442628 CCAACCATCGACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
131 CCAACCATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
*
100442678 ATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCGATGA
1 ATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAGCAGATCTTATCTTCGATGA
* *
100442743 GCAAAAGTGGAGCAGATC
66 GCAGAAGCGGAGCAGATC
100442761 GTATCTCTAC
Statistics
Matches: 228, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
180 228 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (180 bp):
ATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAGCAGATCTTATCTTCGATGA
GCAGAAGCGGAGCAGATCACATTTTCAACAAATCTTATATCCATGTATCGGCAATAGAGCAGATT
CCAACCATCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAACAT
Found at i:100444102 original size:14 final size:15
Alignment explanation
Indices: 100444081--100444122 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
100444071 TTTTTCCTAC
*
100444081 TATTTATTATGCTAT
1 TATTTATTATACTAT
100444096 T-TTTATTATACTAT
1 TATTTATTATACTAT
100444110 TATTTATTATACT
1 TATTTATTATACT
100444123 TATCATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTATTATACTAT
Found at i:100444244 original size:16 final size:16
Alignment explanation
Indices: 100444175--100444244 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
100444165 TTTTTGTATT
100444175 ATTTATTTTAAAT-T-
1 ATTTATTTTAAATATA
* *
100444189 ATTTTTTTCTATATATA
1 ATTTATTT-TAAATATA
* ** *
100444206 TTTTATTAAAAAAATA
1 ATTTATTTTAAATATA
100444222 A-TTATTTTAAATATA
1 ATTTATTTTAAATATA
100444237 ATTTATTT
1 ATTTATTT
100444245 CATTTATTAC
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
14 7 0.17
15 16 0.40
16 12 0.30
17 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATTTTAAATATA
Found at i:100446077 original size:30 final size:30
Alignment explanation
Indices: 100446042--100446101 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
100446032 TATTTTATTA
*
100446042 TTAATTTTGTTATTATTTTAAATGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
100446072 TTAATTTTTTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
100446102 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:100459182 original size:43 final size:43
Alignment explanation
Indices: 100459135--100459245 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
100459125 GCACTCATGA
100459135 TGCATCATC-GAATAAACCGAAGCAATCATACTAGCACACATAG
1 TGCATCATCAG-ATAAACCGAAGCAATCATACTAGCACACATAG
* * *
100459178 TGCAT-ATTCAGATAAACCGAAGCAATCATATTGGCATACATAG
1 TGCATCA-TCAGATAAACCGAAGCAATCATACTAGCACACATAG
* *
100459221 TACATCATCAGATAAATCGAAGCAA
1 TGCATCATCAGATAAACCGAAGCAA
100459246 ATAAATTGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 1 0.02
43 57 0.95
44 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (43 bp):
TGCATCATCAGATAAACCGAAGCAATCATACTAGCACACATAG
Found at i:100465498 original size:39 final size:38
Alignment explanation
Indices: 100465440--100465555 Score: 151
Period size: 39 Copynumber: 3.0 Consensus size: 38
100465430 TGGGGTTTCA
* * *
100465440 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCAGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTC-GGCTTCC
*
100465479 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGACTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGG-CTTCC
* *
100465518 GTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTC-GGCTTC
100465556 AAATCACGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.03
39 64 0.94
40 2 0.03
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (38 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGCTTCC
Found at i:100467149 original size:23 final size:23
Alignment explanation
Indices: 100467123--100467220 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
100467113 ATAAGTGCCA
100467123 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
100467146 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
100467169 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
100467191 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
100467214 CACTGAT
1 CACTGAT
100467221 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:100467188 original size:45 final size:45
Alignment explanation
Indices: 100467130--100467218 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
100467120 CCACACTGAT
* *
100467130 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
100467175 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
100467219 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:100467455 original size:75 final size:75
Alignment explanation
Indices: 100467369--100467516 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
100467359 CTATTCCTAA
100467369 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
100467434 CAACTTTCAT
66 CAACTTTCAT
100467444 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
100467509 CAACTTTC
66 CAACTTTC
100467517 CTTCCACATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:100472704 original size:23 final size:23
Alignment explanation
Indices: 100472678--100472775 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
100472668 ATAAGTGCCA
100472678 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
100472701 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
100472724 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
100472746 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
100472769 CACTGAT
1 CACTGAT
100472776 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:100472743 original size:45 final size:45
Alignment explanation
Indices: 100472685--100472773 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
100472675 CCACACTGAT
* *
100472685 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
100472730 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
100472774 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:100473010 original size:75 final size:75
Alignment explanation
Indices: 100472924--100473071 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
100472914 CTATTCCTAA
100472924 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
100472989 CAACTTTCAT
66 CAACTTTCAT
100472999 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
100473064 CAACTTTC
66 CAACTTTC
100473072 CTTCCACATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:100476351 original size:45 final size:43
Alignment explanation
Indices: 100476230--100476377 Score: 233
Period size: 43 Copynumber: 3.4 Consensus size: 43
100476220 TTGAAAAAAG
*
100476230 CGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCACAAA
*
100476273 CGCCGCTAAAGGTCATGGCCATTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCACAAA
**
100476316 CGCCGCTAAAGGGGTCATGGCCTTTAGCGATGCTTTTCCCACAAA
1 CGCCGCTAAA--GGTCATGGCCTTTAGCGGCGCTTTTCCCACAAA
*
100476361 CGCTGCTAAAGGTCATG
1 CGCCGCTAAAGGTCATG
100476378 AAATTTTAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
43 58 0.60
45 39 0.40
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCACAAA
Found at i:100476561 original size:19 final size:19
Alignment explanation
Indices: 100476516--100476562 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
100476506 ATCAAATTAA
*
100476516 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
100476535 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
100476554 AATAAAAAT
1 AATAAAAAT
100476563 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:100478502 original size:46 final size:46
Alignment explanation
Indices: 100478449--100478885 Score: 524
Period size: 46 Copynumber: 9.5 Consensus size: 46
100478439 ATAATCCACA
*
100478449 ACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
*
100478495 ACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * ** * *
100478541 ATTTCAATTAACAATATTTATAGCACTTCAATTTGCAACA-TTTAAGC
1 ACTTCAATTTACAGCATTTA-AACACTTCAATTTGCAGCACTTTAA-C
*
100478588 ACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * *
100478634 ATTTCAATTAACAACATTTAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
*
100478680 ACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * * * *
100478726 ATTTCAATTAACAACATTTAAACA-TCTCAATTTCCAGCAAC-TAAAC
1 ACTTCAATTTACAGCATTTAAACACT-TCAATTTGCAGC-ACTTTAAC
* * * * * *
100478772 ACTTCAATTTGCAGTACTTAAACACTCCAATTTACAGCACTCTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * *
100478818 ACTTCAATTTGCAGCACTTT-AACAGTTCAATTTACAGCA-TTTAAAC
1 ACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTT-AAC
*
100478864 ACTTCAATTTGCAGCACTTTAA
1 ACTTCAATTTACAGCA-TTTAA
100478886 CATCTCAATT
Statistics
Matches: 337, Mismatches: 44, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
45 5 0.01
46 288 0.85
47 44 0.13
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (46 bp):
ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
Found at i:100478887 original size:23 final size:23
Alignment explanation
Indices: 100478449--100478895 Score: 414
Period size: 23 Copynumber: 19.4 Consensus size: 23
100478439 ATAATCCACA
*
100478449 ACTTCAATTTACAGCA-TTCAAAC
1 ACTTCAATTTACAGCACTT-TAAC
*
100478472 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
*
100478495 ACTTCAATTTACAGCA-TTAAAAC
1 ACTTCAATTTACAGCACTT-TAAC
*
100478518 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
* * **
100478541 ATTTCAATTAACAATA-TTTATAGC
1 ACTTCAATTTACAGCACTTTA-A-C
* *
100478565 ACTTCAATTTGCAACA-TTTAAGC
1 ACTTCAATTTACAGCACTTTAA-C
*
100478588 ACTTCAATTTACAGCA-TTCAAAC
1 ACTTCAATTTACAGCACTT-TAAC
*
100478611 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
* * *
100478634 ATTTCAATTAACAACA-TTTAAAC
1 ACTTCAATTTACAGCACTTT-AAC
*
100478657 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
*
100478680 ACTTCAATTTACAGCA-TTAAAAC
1 ACTTCAATTTACAGCACTT-TAAC
*
100478703 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
* * *
100478726 ATTTCAATTAACAACA-TTTAA-
1 ACTTCAATTTACAGCACTTTAAC
* *
100478747 ACATCTCAATTTCCAGCAAC-TAAAC
1 AC-T-TCAATTTACAGC-ACTTTAAC
* * *
100478772 ACTTCAATTTGCAGTACTTAAAC
1 ACTTCAATTTACAGCACTTTAAC
* *
100478795 ACTCCAATTTACAGCACTCTAAC
1 ACTTCAATTTACAGCACTTTAAC
*
100478818 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
*
100478841 AGTTCAATTTACAGCA-TTTAAAC
1 ACTTCAATTTACAGCACTTT-AAC
*
100478864 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAAC
100478887 A-TCTCAATT
1 ACT-TCAATT
100478896 AACAACATTT
Statistics
Matches: 349, Mismatches: 55, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.00
22 23 0.07
23 285 0.82
24 38 0.11
25 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (23 bp):
ACTTCAATTTACAGCACTTTAAC
Found at i:100479282 original size:12 final size:12
Alignment explanation
Indices: 100479265--100479314 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
100479255 ACACACACAT
100479265 ATTAACATCTCA
1 ATTAACATCTCA
*
100479277 ATTAACA--ACA
1 ATTAACATCTCA
* *
100479287 TTTATACACCTCA
1 ATTA-ACATCTCA
100479300 ATTAACATCTCA
1 ATTAACATCTCA
100479312 ATT
1 ATT
100479315 TCCAGCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 17 0.57
13 5 0.17
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAACATCTCA
Found at i:100482921 original size:15 final size:15
Alignment explanation
Indices: 100482901--100482931 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
100482891 CCTTGAATTA
100482901 GAAGAAAACCAGTAG
1 GAAGAAAACCAGTAG
100482916 GAAGAAAACCAGTAG
1 GAAGAAAACCAGTAG
100482931 G
1 G
100482932 TTACCTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.29, T:0.06
Consensus pattern (15 bp):
GAAGAAAACCAGTAG
Found at i:100484169 original size:7 final size:7
Alignment explanation
Indices: 100484157--100484292 Score: 64
Period size: 7 Copynumber: 19.1 Consensus size: 7
100484147 ACTAATTAAT
100484157 CTAAACC
1 CTAAACC
100484164 CTAAACC
1 CTAAACC
*
100484171 TCTTAACCC
1 -C-TAAACC
*
100484180 CT-ATCC
1 CTAAACC
*
100484186 CATAAACA
1 C-TAAACC
*
100484194 CTAAACT
1 CTAAACC
100484201 CTAAACC
1 CTAAACC
100484208 CTTAAA-C
1 C-TAAACC
*
100484215 CTTAACC
1 CTAAACC
*
100484222 CCAAACC
1 CTAAACC
*
100484229 CCAAACC
1 CTAAACC
* *
100484236 TTTACACC
1 -CTAAACC
* *
100484244 TTAAACT
1 CTAAACC
100484251 CT-AACC
1 CTAAACC
100484257 CT-AACC
1 CTAAACC
100484263 CATAAACC
1 C-TAAACC
*
100484271 CTAAATC
1 CTAAACC
* *
100484278 ATAATCC
1 CTAAACC
100484285 CTAAACC
1 CTAAACC
100484292 C
1 C
100484293 ATAATTCATC
Statistics
Matches: 98, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
6 17 0.17
7 58 0.59
8 18 0.18
9 5 0.05
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:100484388 original size:7 final size:7
Alignment explanation
Indices: 100484374--100484408 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
100484364 ATAGTTAACT
100484374 CATAAAC
1 CATAAAC
*
100484381 CTTAAAC
1 CATAAAC
*
100484388 CCTAAAC
1 CATAAAC
100484395 CATAAAC
1 CATAAAC
100484402 CATAAAC
1 CATAAAC
100484409 TGTAATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (7 bp):
CATAAAC
Found at i:100484408 original size:46 final size:47
Alignment explanation
Indices: 100484302--100484409 Score: 157
Period size: 46 Copynumber: 2.3 Consensus size: 47
100484292 CATAATTCAT
*
100484302 CATAAACCTTCAAA-TACTAGTTAACTCCTAAACCTTAAACCCTAAAC
1 CATAAACCTT-AAACTACTAGTTAACTCATAAACCTTAAACCCTAAAC
* *
100484349 CATATATCTTAAACTA-TAGTTAACTCATAAACCTTAAACCCTAAAC
1 CATAAACCTTAAACTACTAGTTAACTCATAAACCTTAAACCCTAAAC
*
100484395 CATAAACCATAAACT
1 CATAAACCTTAAACT
100484410 GTAATGATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
46 44 0.81
47 10 0.19
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (47 bp):
CATAAACCTTAAACTACTAGTTAACTCATAAACCTTAAACCCTAAAC
Found at i:100484616 original size:41 final size:38
Alignment explanation
Indices: 100484570--100484707 Score: 105
Period size: 41 Copynumber: 3.4 Consensus size: 38
100484560 GTTATATGAC
* *
100484570 TTTTAGTGGCATTTTTCCAAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCATTTTT-CAAAAACG-CGCTAATGCTCT-GT
* * * *
100484611 TTTTAGCGGCGTTTTGCAAAAAATCGCCTCTAATGCTCTTT
1 TTTTAGCGGCATTTTTC-AAAAA-CG-CGCTAATGCTCTGT
* * *
100484652 TTTTTGCGGCATTTTTACTAAAACGCTGCTATTGCTCTGT
1 TTTTAGCGGCATTTTT-CAAAAACGC-GCTAATGCTCTGT
* *
100484692 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCATTTTT
100484708 GGTAAAACGC
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
39 1 0.01
40 26 0.34
41 35 0.46
42 14 0.18
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (38 bp):
TTTTAGCGGCATTTTTCAAAAACGCGCTAATGCTCTGT
Found at i:100484688 original size:40 final size:40
Alignment explanation
Indices: 100484570--100484737 Score: 124
Period size: 40 Copynumber: 4.1 Consensus size: 40
100484560 GTTATATGAC
* * * *
100484570 TTTTAGTGGCATTTTT-CCAAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCATTTTTACTAAAA-CGCCGCTATTGCTCT-GT
* * * * * *
100484611 TTTTAGCGGC-GTTTTGCAAAAAATCGCCTCTAATGCTCTTT
1 TTTTAGCGGCATTTTTAC-TAAAA-CGCCGCTATTGCTCTGT
* *
100484652 TTTTTGCGGCATTTTTACTAAAACGCTGCTATTGCTCTGT
1 TTTTAGCGGCATTTTTACTAAAACGCCGCTATTGCTCTGT
* * ** *
100484692 TTTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCTATGT
1 TTTTAGCGGCATTTTTACTAAAACGCCGCTATTGCTCTGT
100484732 GTTTTA
1 -TTTTA
100484738 CAATTTTTGC
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 50 0.50
41 29 0.29
42 22 0.22
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (40 bp):
TTTTAGCGGCATTTTTACTAAAACGCCGCTATTGCTCTGT
Found at i:100494139 original size:17 final size:17
Alignment explanation
Indices: 100494117--100494152 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
100494107 ATTATTTAAT
100494117 AATATTTTTATT-TCTAA
1 AATATTTTT-TTATCTAA
100494134 AATATTTTTTTATCTAA
1 AATATTTTTTTATCTAA
100494151 AA
1 AA
100494153 AAATGATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATTTTTTTATCTAA
Found at i:100505104 original size:3 final size:3
Alignment explanation
Indices: 100505091--100505302 Score: 62
Period size: 3 Copynumber: 69.3 Consensus size: 3
100505081 CAAAAAAAGA
* ** * * * *
100505091 AAT AAT GAT AAT AAT AAT AGG AGT AAT AAT AAT -AT AAT GAT GAT AAAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * *
100505139 AAT AAT AA- AAGG AAC AAA AAT AAT AGT AAT AAT AA- AGAT ATTT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT
* * * *
100505185 AAT AGT AAT AAT AAC GAT AAT -AT AAAT AAT AAT ATAT ACAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT AAT AAT
* * * * *
100505232 AAT AGTT AGA- AAT AAA AAT AAT GGA- AAT AGT AAT AA- AGAT AAC AGA-
1 AAT A-AT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT A-AT
*
100505278 AAG AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
100505303 TATTTAATTC
Statistics
Matches: 155, Mismatches: 37, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
2 11 0.07
3 124 0.80
4 20 0.13
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:100505977 original size:18 final size:18
Alignment explanation
Indices: 100505931--100505974 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
100505921 TAGGTTCTAA
*
100505931 AAAATAAA-AATAAAAAT
1 AAAATAAATAACAAAAAT
100505948 AAAATGAAATAACAAAAAT
1 AAAAT-AAATAACAAAAAT
100505967 AAAGATAA
1 AAA-ATAA
100505975 TAAACCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 13 0.57
20 2 0.09
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATAAATAACAAAAAT
Found at i:100506886 original size:44 final size:44
Alignment explanation
Indices: 100506754--100507259 Score: 216
Period size: 44 Copynumber: 11.5 Consensus size: 44
100506744 TTTAGCCTGC
* * * * *
100506754 TACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATATAT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* * * ** * * ** *
100506798 TTCCCTACTGCTTAGGGGGATAA-GATCTTGTAAATTC-AGCCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCAT-CACCTTCGA-TCTGT
*
100506842 TA-CCTCACTACTTAGGGGTTTAAGGCCCATCACCTTCGATCTGT
1 TACCCT-ACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* * ** ** * ** * *
100506886 TTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-CCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* * *
100506929 TACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* ** * * ** * *
100506973 TTCCCTACTACTTAGGGGGTTAA-GATCTTGTAAATTCAACCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCAT-CACCTTCGATCTGT
* * * **
100507017 TACCCTACTGCTTAGGGGTTTAAGGTCCATTGCCTTCGATCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* * ** ** * ** * *
100507061 TTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-CCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* * * *
100507104 TACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTAT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* * * ** * * ** * * *
100507148 TTCCCTATTGCTTAGGGGGTTAA-GATCTTGTAAATTCAACCTAT
1 TACCCTACTACTTAGGGGGTTAAGGCCCAT-CACCTTCGATCTGT
* * * **
100507192 TACCCTACTGCTTAGGGGTTTAAGGTCCATTGCCTTCGATCTGT
1 TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
* *
100507236 TTCCCTACTGCTTAGGGGGTTAAG
1 TACCCTACTACTTAGGGGGTTAAG
100507260 ATCTTGTAAA
Statistics
Matches: 331, Mismatches: 119, Indels: 24
0.70 0.25 0.05
Matches are distributed among these distances:
43 75 0.23
44 243 0.73
45 13 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (44 bp):
TACCCTACTACTTAGGGGGTTAAGGCCCATCACCTTCGATCTGT
Found at i:100506896 original size:88 final size:88
Alignment explanation
Indices: 100506747--100507278 Score: 827
Period size: 88 Copynumber: 6.1 Consensus size: 88
100506737 TATAATTTTT
* * * *
100506747 AGCCTGCTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATATATTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
*
100506812 GGGGGATAAGATCTTGTAAATTC
66 GGGGGTTAAGATCTTGTAAATTC
*
100506835 AGCCTGTTA-CCTCACTACTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
1 AGCCTGTTACCCT-ACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
*
100506899 AGGGGGTTAAGATC-TGTAAATTT
65 AGGGGGTTAAGATCTTGTAAATTC
* *
100506922 AGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTACTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
100506987 GGGGGTTAAGATCTTGTAAATTC
66 GGGGGTTAAGATCTTGTAAATTC
* * **
100507010 AACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATTGCCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
*
100507075 GGGGGTTAAGATC-TGTAAATTT
66 GGGGGTTAAGATCTTGTAAATTC
* * *
100507097 AGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTATTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
100507162 GGGGGTTAAGATCTTGTAAATTC
66 GGGGGTTAAGATCTTGTAAATTC
* * * **
100507185 AACCTATTACCCTACTGCTTAGGGGTTTAAGGTCCATTGCCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
*
100507250 GGGGGTTAAGATCTTGTAAATTT
66 GGGGGTTAAGATCTTGTAAATTC
100507273 AGCCTG
1 AGCCTG
100507279 CTCCACTGCG
Statistics
Matches: 403, Mismatches: 37, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
87 161 0.40
88 242 0.60
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (88 bp):
AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
GGGGGTTAAGATCTTGTAAATTC
Found at i:100507035 original size:175 final size:175
Alignment explanation
Indices: 100506744--100507278 Score: 919
Period size: 175 Copynumber: 3.1 Consensus size: 175
100506734 ATCTATAATT
* *
100506744 TTTAGCCTGCTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATATATTTCCCTACTGC
1 TTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGC
* * * * *
100506809 TTAGGGGGATAAGATCTTGTAAATTCAGCCTGTTA-CCTCACTACTTAGGGGTTTAAGGCCCATC
66 TTAGGGGGTTAAGATCTTGTAAATTCAACCTGTTACCCT-ACTGCTTAGGGGTTTAAGGTCCATT
*
100506873 ACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
130 GCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * *
100506919 TTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTAC
1 TTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGC
100506984 TTAGGGGGTTAAGATCTTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATTG
66 TTAGGGGGTTAAGATCTTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATTG
100507049 CCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
131 CCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
*
100507094 TTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTATTGC
1 TTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGC
*
100507159 TTAGGGGGTTAAGATCTTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTCCATTG
66 TTAGGGGGTTAAGATCTTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATTG
100507224 CCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
131 CCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTAAA
100507270 TTTAGCCTG
1 TTTAGCCTG
100507279 CTCCACTGCG
Statistics
Matches: 340, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
175 322 0.95
176 18 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (175 bp):
TTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGC
TTAGGGGGTTAAGATCTTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATTG
CCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:100507312 original size:44 final size:43
Alignment explanation
Indices: 100507262--100507344 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
100507252 GGGTTAAGAT
* *
100507262 CTTGTAAATTTAGCCTGCTCCACTGCGATTTCAAGGAGATGAGA
1 CTTGTAAATTCAGCCTGCTCCACTGC-ACTTCAAGGAGATGAGA
* * *
100507306 CTTGTAACTTCAGTCTGCTCCACTGCACTTCAGGGAGAT
1 CTTGTAAATTCAGCCTGCTCCACTGCACTTCAAGGAGAT
100507345 AAGGCTAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 11 0.32
44 23 0.68
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (43 bp):
CTTGTAAATTCAGCCTGCTCCACTGCACTTCAAGGAGATGAGA
Found at i:100507359 original size:43 final size:44
Alignment explanation
Indices: 100507276--100507367 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
100507266 TAAATTTAGC
* * * *
100507276 CTGCTCCACTGCGATTTCAAGGAGATGAGACTTGTAACTTCAGT
1 CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCACT
* * *
100507320 CTGCTCCACTGC-ACTTCAGGGAGATAAGGCTAGTGACTTCACT
1 CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCACT
100507363 CTGCT
1 CTGCT
100507368 TCGCTGAGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 29 0.71
44 12 0.29
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCACT
Found at i:100512936 original size:62 final size:61
Alignment explanation
Indices: 100512860--100512978 Score: 179
Period size: 62 Copynumber: 1.9 Consensus size: 61
100512850 AACTATCCAT
*
100512860 TGGCAACCTATTCAGAGTAGATAGGGGTAGGGCATTCAGCGCAG-ACCCATTGTCGATCAATAC
1 TGGCAACCTATTCAGAGTAGATA-GGGTAGGACATTCAGCGCAGCACCCA-TG-CGATCAATAC
*
100512923 TGGC-ACCTATTCAGCGTAGATAGGGTAGGACATTCAGCGCAGCACCCATGCGATCA
1 TGGCAACCTATTCAGAGTAGATAGGGTAGGACATTCAGCGCAGCACCCATGCGATCA
100512979 TACCGTAATG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
60 6 0.11
61 21 0.40
62 22 0.42
63 4 0.08
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (61 bp):
TGGCAACCTATTCAGAGTAGATAGGGTAGGACATTCAGCGCAGCACCCATGCGATCAATAC
Found at i:100515561 original size:9 final size:9
Alignment explanation
Indices: 100515543--100515574 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
100515533 TGCAATGCCG
100515543 ATGC-ATGA
1 ATGCAATGA
100515551 ATGCAATGA
1 ATGCAATGA
100515560 ATGCAATGA
1 ATGCAATGA
100515569 ATGCAA
1 ATGCAA
100515575 AAAGCGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:100519561 original size:3 final size:3
Alignment explanation
Indices: 100519553--100519577 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100519543 TAACAGCAAG
100519553 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
100519578 TATTTAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:100521688 original size:16 final size:16
Alignment explanation
Indices: 100521669--100521699 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100521659 TTACAATGTG
100521669 TTCAAGTATCAATATT
1 TTCAAGTATCAATATT
100521685 TTCAAGTATCAATAT
1 TTCAAGTATCAATAT
100521700 ACACCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
TTCAAGTATCAATATT
Found at i:100523085 original size:17 final size:16
Alignment explanation
Indices: 100523063--100523095 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
100523053 TGAATTAACA
100523063 ACTTTTTAGATTATTTT
1 ACTTTTTA-ATTATTTT
100523080 ACTTTTTAATTATTTT
1 ACTTTTTAATTATTTT
100523096 GATTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (16 bp):
ACTTTTTAATTATTTT
Found at i:100525054 original size:58 final size:60
Alignment explanation
Indices: 100524949--100525093 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 60
100524939 ATATTTTTAA
* * ** * ** *
100524949 ATAAGTTTT-TTGAAATTTTTAGAATTAGAGTTAAATTGAAAAATTTTGTAAATGTTGAGGG
1 ATAA-TTTTATTGAATTTTTTAG-ATTTGAACTAAAATGAAAAATTTTGTAAACATTAAGGG
*
100525010 ATAATTTTATTG-ATTTTTTA-ATTTGAACTAAAATGACAAATTTTGTAAACATTAAGGG
1 ATAATTTTATTGAATTTTTTAGATTTGAACTAAAATGAAAAATTTTGTAAACATTAAGGG
*
100525068 CTAATTTTATTGAATTTTTTAGATTT
1 ATAATTTTATTGAATTTTTTAGATTT
100525094 AGGATCAAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 41 0.58
59 8 0.11
60 15 0.21
61 7 0.10
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (60 bp):
ATAATTTTATTGAATTTTTTAGATTTGAACTAAAATGAAAAATTTTGTAAACATTAAGGG
Found at i:100527724 original size:22 final size:22
Alignment explanation
Indices: 100527680--100527737 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
100527670 CAAGAGAACG
*
100527680 AAATAAATAACATAAAACCATTTA
1 AAATAAAT-A-ATAAAACAATTTA
* *
100527704 AAATAAATAATGAAACAATTTT
1 AAATAAATAATAAAACAATTTA
*
100527726 AAATAAGTAATA
1 AAATAAATAATA
100527738 CATAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 20 0.69
23 1 0.03
24 8 0.28
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:100527840 original size:21 final size:21
Alignment explanation
Indices: 100527816--100527857 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
100527806 TAATTAATAC
*
100527816 ATAAAGTAAT-TTAAAAATAAA
1 ATAAAGCAATCTT-AAAATAAA
*
100527837 ATAATGCAATCTTAAAATAAA
1 ATAAAGCAATCTTAAAATAAA
100527858 TAATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAAAGCAATCTTAAAATAAA
Found at i:100528312 original size:25 final size:23
Alignment explanation
Indices: 100528259--100528312 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
100528249 GATTTTAAAA
*
100528259 TAAATAATATAAGAAAACAAACT
1 TAAATAATATAAGAAAACAAACC
* *
100528282 TAAAATAATAATAATAAAACAATTCC
1 T-AAATAAT-ATAAGAAAACAA-ACC
100528308 TAAAT
1 TAAAT
100528313 TTTTTTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 7 0.28
25 15 0.60
26 2 0.08
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAATAATATAAGAAAACAAACC
Found at i:100529093 original size:9 final size:9
Alignment explanation
Indices: 100529081--100529108 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
100529071 GTAAAAATAA
100529081 AAAAAGAAC
1 AAAAAGAAC
100529090 AAAAAGAAC
1 AAAAAGAAC
100529099 AAAAAGAAC
1 AAAAAGAAC
100529108 A
1 A
100529109 CGAGAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAGAAC
Found at i:100529685 original size:10 final size:10
Alignment explanation
Indices: 100529670--100529700 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
100529660 ATATATTTTT
100529670 TATAAATTTA
1 TATAAATTTA
100529680 TATAAATTTA
1 TATAAATTTA
*
100529690 AATAAATTTA
1 TATAAATTTA
100529700 T
1 T
100529701 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATAAATTTA
Found at i:100530167 original size:8 final size:8
Alignment explanation
Indices: 100530142--100530176 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
100530132 TATTCTAATC
100530142 AAATAAAA
1 AAATAAAA
100530150 AAATTGAAAA
1 AAA-T-AAAA
100530160 AAATAAAA
1 AAATAAAA
100530168 AAATAAAA
1 AAATAAAA
100530176 A
1 A
100530177 GTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.64
9 2 0.08
10 7 0.28
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:100530229 original size:30 final size:29
Alignment explanation
Indices: 100530189--100530257 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
100530179 TTTAATTTAT
*
100530189 TAATTCTTAACATTATCTTAAAATTTTAAA
1 TAATT-TTAACAGTATCTTAAAATTTTAAA
* * **
100530219 TATATTTTAACAGTATTTTTATTTTTTAAA
1 TA-ATTTTAACAGTATCTTAAAATTTTAAA
100530249 TAATTTTAA
1 TAATTTTAA
100530258 ATAATTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 23 0.70
31 3 0.09
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (29 bp):
TAATTTTAACAGTATCTTAAAATTTTAAA
Found at i:100530397 original size:12 final size:12
Alignment explanation
Indices: 100530380--100530424 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
100530370 TTTATATTTT
100530380 TATTTTAATAAA
1 TATTTTAATAAA
*
100530392 TATTTTTATAGAA
1 TATTTTAATA-AA
*
100530405 TATTTTAATAAT
1 TATTTTAATAAA
100530417 TATTTTAA
1 TATTTTAA
100530425 AGTAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATTTTAATAAA
Found at i:100530398 original size:13 final size:13
Alignment explanation
Indices: 100530382--100530422 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
100530372 TATATTTTTA
100530382 TTTTAATAAATAT
1 TTTTAATAAATAT
100530395 TTTT-ATAGAATA-
1 TTTTAATA-AATAT
*
100530407 TTTTAATAATTAT
1 TTTTAATAAATAT
100530420 TTT
1 TTT
100530423 AAAGTAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTAATAAATAT
Found at i:100535484 original size:28 final size:28
Alignment explanation
Indices: 100535432--100535516 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
100535422 ATGATATTAG
*
100535432 ATTTATATTAAATGATAA-TACAAAAT-T
1 ATTT-TATTAAATAATAATTACAAAATAT
100535459 ATGTTGTATTAAATAATAATTA-AAAATAT
1 AT-TT-TATTAAATAATAATTACAAAATAT
* *
100535488 ATTTAATCTAAATAATAATAACAATAATA
1 ATTTTAT-TAAATAATAATTACAA-AATA
100535517 GGGCTAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
27 4 0.08
28 33 0.69
29 7 0.15
30 4 0.08
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (28 bp):
ATTTTATTAAATAATAATTACAAAATAT
Found at i:100537177 original size:12 final size:12
Alignment explanation
Indices: 100537160--100537192 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
100537150 TACGGGAAAA
100537160 TATAAAAATAAT
1 TATAAAAATAAT
100537172 TATAAAAA-AAT
1 TATAAAAATAAT
*
100537183 TATTAAAATA
1 TATAAAAATA
100537193 TTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TATAAAAATAAT
Found at i:100537291 original size:9 final size:9
Alignment explanation
Indices: 100537266--100537295 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
100537256 TAATTATAAA
100537266 AAAATTATT
1 AAAATTATT
100537275 AAAA-TATT
1 AAAATTATT
100537283 AAAATTATT
1 AAAATTATT
100537292 AAAA
1 AAAA
100537296 CAAATGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATT
Found at i:100537770 original size:83 final size:85
Alignment explanation
Indices: 100537683--100537839 Score: 210
Period size: 87 Copynumber: 1.8 Consensus size: 85
100537673 AGATGGCTAC
* * * * *
100537683 AGTGTAATTT-TACTATATA-TTAATTTATAACTTCTTTATTTATTAGAGGATTGAATTGAAAAT
1 AGTGTAATTTATAATATATAGTTAAATTATAACTTCTGTATTTATAAGAGGATTAAATTGAAAAT
100537746 TTTTCATTTTGGGAGACTAA
66 TTTTCATTTTGGGAGACTAA
**
100537766 AGTGTAATTTCATAATATATATGTTAAATTATAGTTTCTGTATTTATAAGAGGATTAAATTGAAA
1 AGTGTAATTT-ATAATATATA-GTTAAATTATAACTTCTGTATTTATAAGAGGATTAAATTGAAA
*
100537831 TTTTTTCAT
64 ATTTTTCAT
100537840 CCTGGGAGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 10 0.16
85 8 0.13
87 44 0.71
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (85 bp):
AGTGTAATTTATAATATATAGTTAAATTATAACTTCTGTATTTATAAGAGGATTAAATTGAAAAT
TTTTCATTTTGGGAGACTAA
Found at i:100542561 original size:54 final size:54
Alignment explanation
Indices: 100542479--100542975 Score: 375
Period size: 54 Copynumber: 9.3 Consensus size: 54
100542469 TCTTAACCAG
* * * *
100542479 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGTGTCTCACCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGGGTCTCGCCGA
* * * * *
100542533 TTTAAGATCGCAGCCTTACACTTACAAGATTTTTCAAATCTTGCGGT-TTGTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTG-GGTCTCGCCGA
* ** * * *
100542587 TTTAAGATCACAGTCTTATACTTTCAAGATTTTTC-AATCTTGGGGCTCGCCTA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGGGTCTCGCCGA
* * * ** * * *
100542640 ATTAAGATCACAACCTTATACTTACAGGATTTTTCGAATCTTGCATTTTGTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGGGTCTCGCCGA
* * * * *** *
100542694 TTTAAGATCGCAGCCTTATATTTACATGATTTTTTGAATCTTGTGGT-TTTTCAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTG-GGTCTCGCCGA
* *
100542748 TTTAAGAACGCAACCTTATACTTACAAGATTTTTCGAATCTTGCAG-CTCGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTG-GGTCTCGCCGA
** * * *** * *
100542802 TTTAAGATCTTAACCTTATACTTACAAGATTTTACGAATATTTTAAT-TTGTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAAT-CTTGGGTCTCGCCGA
* * * * * * *
100542856 TTTAGGATCACATCCTTATACTTTCAAGATTTTT-GAATCTTGCGG-CTTGTCAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTG-GGTCTCGCCGA
* * * * *
100542909 ATTAAGATCCCAGCCTTATACTTACAAGATTTCTAGAATCTT---TCAGTCGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGGGTC--TCGCCGA
100542962 TTTAAGATCGCAAC
1 TTTAAGATCGCAAC
100542976 TTTCTCATGC
Statistics
Matches: 350, Mismatches: 80, Indels: 27
0.77 0.18 0.06
Matches are distributed among these distances:
51 1 0.00
52 4 0.01
53 94 0.27
54 246 0.70
55 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (54 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGGGTCTCGCCGA
Found at i:100542753 original size:161 final size:162
Alignment explanation
Indices: 100542480--100542975 Score: 559
Period size: 161 Copynumber: 3.1 Consensus size: 162
100542470 CTTAACCAGT
* * * * * ***
100542480 TTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGTGTCTCACCGATTTAAGATCGCA
1 TTAAGATCACAACCTTATACTTACAAGATTTTACGAATCTTGTATTTTGTCGATTTAAGATCGCA
* * ** * *
100542545 GCCTTACACTTACAAGATTTTTCAAATCTTGCGGTTTGTCGATTTAAGATCACAGTCTTATACTT
66 GCCTTATATTTACAAGATTTTTTGAATCTTGCGGTTTGTCAATTTAAGATCACAGCCTTATACTT
* ** *
100542610 TCAAGATTTTTC-AATCTTGGGGCTCGCCTAA
131 ACAAGATTTTTCGAATCTTGCAGCTCGCCGAA
* * *
100542641 TTAAGATCACAACCTTATACTTACAGGATTTTTCGAATCTTGCATTTTGTCGATTTAAGATCGCA
1 TTAAGATCACAACCTTATACTTACAAGATTTTACGAATCTTGTATTTTGTCGATTTAAGATCGCA
* * * * * *
100542706 GCCTTATATTTACATGATTTTTTGAATCTTGTGGTTTTTCAATTTAAGAACGCAACCTTATACTT
66 GCCTTATATTTACAAGATTTTTTGAATCTTGCGGTTTGTCAATTTAAGATCACAGCCTTATACTT
*
100542771 ACAAGATTTTTCGAATCTTGCAGCTCGCCGAT
131 ACAAGATTTTTCGAATCTTGCAGCTCGCCGAA
** * * * * *
100542803 TTAAGATCTTAACCTTATACTTACAAGATTTTACGAATATTTTAATTTGTCGATTTAGGATCACA
1 TTAAGATCACAACCTTATACTTACAAGATTTTACGAATCTTGTATTTTGTCGATTTAAGATCGCA
* * * *
100542868 TCCTTATACTTT-CAAGA-TTTTTGAATCTTGCGGCTTGTCAAATTAAGATCCCAGCCTTATACT
66 GCCTTATA-TTTACAAGATTTTTTGAATCTTGCGGTTTGTCAATTTAAGATCACAGCCTTATACT
* * * *
100542931 TACAAGATTTCTAGAATCTTTCAG-TCGCCGAT
130 TACAAGATTTTTCGAATCTTGCAGCTCGCCGAA
*
100542963 TTAAGATCGCAAC
1 TTAAGATCACAAC
100542976 TTTCTCATGC
Statistics
Matches: 282, Mismatches: 51, Indels: 5
0.83 0.15 0.01
Matches are distributed among these distances:
160 19 0.07
161 179 0.63
162 81 0.29
163 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (162 bp):
TTAAGATCACAACCTTATACTTACAAGATTTTACGAATCTTGTATTTTGTCGATTTAAGATCGCA
GCCTTATATTTACAAGATTTTTTGAATCTTGCGGTTTGTCAATTTAAGATCACAGCCTTATACTT
ACAAGATTTTTCGAATCTTGCAGCTCGCCGAA
Found at i:100543100 original size:23 final size:23
Alignment explanation
Indices: 100543028--100543109 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 23
100543018 CAGTTAGCAG
* *
100543028 TATTTTTACAATGCAATCTACAA
1 TATTTTTACAATACAATTTACAA
* * ** ** *
100543051 TATTTTTGCAACACTGTTCGCAT
1 TATTTTTACAATACAATTTACAA
100543074 TATTTTTACAATACAATTTACAA
1 TATTTTTACAATACAATTTACAA
*
100543097 TATTTTCACAATA
1 TATTTTTACAATA
100543110 AAGCTCGCAA
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (23 bp):
TATTTTTACAATACAATTTACAA
Found at i:100543118 original size:46 final size:46
Alignment explanation
Indices: 100543028--100543123 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
100543018 CAGTTAGCAG
* ** ** * *
100543028 TATTTTTACAATGCAATCTACAATATTTTTGCAACACTGTTCGCAT
1 TATTTTTACAATACAATCTACAATATTTTCACAACAAAGCTCGCAA
* *
100543074 TATTTTTACAATACAATTTACAATATTTTCACAATAAAGCTCGCAA
1 TATTTTTACAATACAATCTACAATATTTTCACAACAAAGCTCGCAA
100543120 TATT
1 TATT
100543124 ATGTAGTACC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (46 bp):
TATTTTTACAATACAATCTACAATATTTTCACAACAAAGCTCGCAA
Found at i:100543834 original size:21 final size:22
Alignment explanation
Indices: 100543790--100543834 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
100543780 CCAAAGATTT
* *
100543790 ATTATATTATAAATTCTAAAAA
1 ATTACATTATAAATACTAAAAA
*
100543812 ATTACATTATAAA-ACTAATAA
1 ATTACATTATAAATACTAAAAA
100543833 AT
1 AT
100543835 ATTAAGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTACATTATAAATACTAAAAA
Found at i:100549841 original size:46 final size:46
Alignment explanation
Indices: 100549784--100550125 Score: 587
Period size: 46 Copynumber: 7.4 Consensus size: 46
100549774 AGTGTGCTCT
* * *
100549784 CTGAAATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100549830 CTGATATGAAATGTGTAAGA-CAGTGGTTAAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCA-TGGTTGAAAGATACCATGGCAAC
100549876 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100549922 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100549968 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100550014 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100550060 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100550106 CTGATATGAAATGTGTAAGA
1 CTGATATGAAATGTGTAAGA
100550126 TACCATGGCA
Statistics
Matches: 283, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 280 0.99
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100550037 original size:138 final size:135
Alignment explanation
Indices: 100549784--100550227 Score: 685
Period size: 138 Copynumber: 3.3 Consensus size: 135
100549774 AGTGTGCTCT
* * *
100549784 CTGAAATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
* *
100549849 ACAGTGGTTAAAAGATACCATGACAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACA-TGGTT-AAAGA-ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
100549914 ATGGCAAC
128 ATGGCAAC
* *
100549922 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
100549987 ACCATGGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 A-CATGGTT-AAAGA-ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
100550052 ATGGCAAC
128 ATGGCAAC
100550060 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
100550125 --A----T-----ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATG
66 ACATGGTTAAAGAACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATG
100550179 GCAAC
131 GCAAC
*
100550184 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
100550228 TCATGTCAAA
Statistics
Matches: 293, Mismatches: 12, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
124 100 0.34
131 1 0.00
135 1 0.00
138 189 0.65
139 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (135 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
ACATGGTTAAAGAACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATG
GCAAC
Found at i:100550131 original size:32 final size:32
Alignment explanation
Indices: 100550090--100550157 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
100550080 CCATGGTTGA
100550090 AAGATACCATGGCAACCTGATATGAAATGTGT
1 AAGATACCATGGCAACCTGATATGAAATGTGT
100550122 AAGATACCATGGCAACCTGATATGAAATGTGT
1 AAGATACCATGGCAACCTGATATGAAATGTGT
100550154 AAGA
1 AAGA
100550158 CCATGGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (32 bp):
AAGATACCATGGCAACCTGATATGAAATGTGT
Found at i:100550137 original size:78 final size:78
Alignment explanation
Indices: 100550044--100550203 Score: 320
Period size: 78 Copynumber: 2.1 Consensus size: 78
100550034 CCATGGTTGA
100550044 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
100550109 ATATGAAATGTGT
66 ATATGAAATGTGT
100550122 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
100550187 ATATGAAATGTGT
66 ATATGAAATGTGT
100550200 AAGA
1 AAGA
100550204 CCATAGTTGA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (78 bp):
AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
ATATGAAATGTGT
Found at i:100550148 original size:124 final size:124
Alignment explanation
Indices: 100549998--100550227 Score: 442
Period size: 124 Copynumber: 1.9 Consensus size: 124
100549988 CCATGGTTGA
100549998 AAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
100550063 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
66 ATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
*
100550122 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
100550187 ATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCA
66 ATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCA
100550228 TCATGTCAAA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 104 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (124 bp):
AAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
ATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
Found at i:100550174 original size:46 final size:46
Alignment explanation
Indices: 100550122--100550227 Score: 203
Period size: 46 Copynumber: 2.3 Consensus size: 46
100550112 TGAAATGTGT
*
100550122 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
1 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTGA
100550168 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTGA
1 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTGA
100550214 AAGATACCATGGCA
1 AAGATACCATGGCA
100550228 TCATGTCAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (46 bp):
AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTGA
Found at i:100550480 original size:18 final size:17
Alignment explanation
Indices: 100550448--100550481 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100550438 ATGACGGAGC
*
100550448 ATGAAATATTGATATAA
1 ATGAAATAATGATATAA
100550465 ATGAAATGAATGATATA
1 ATGAAAT-AATGATATA
100550482 TGCTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (17 bp):
ATGAAATAATGATATAA
Found at i:100556396 original size:31 final size:30
Alignment explanation
Indices: 100556326--100556397 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
100556316 TTTAATAGTC
* *
100556326 TATATTTTTATAATTTTTAAAAAATTAAAT
1 TATAATTTTATAATTTTTAAAAAATTAAAA
* *
100556356 TA-AATTTTTATTATTTTTAAAAAGGTTAAAA
1 TATAA-TTTTATAATTTTTAAAAA-ATTAAAA
100556387 TATAATTTTAT
1 TATAATTTTAT
100556398 CTTTATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.03
30 19 0.54
31 13 0.37
32 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAAAATTAAAA
Found at i:100560563 original size:23 final size:25
Alignment explanation
Indices: 100560536--100560584 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
100560526 TTTTTAAACC
100560536 TTCCTCTCTTT-TTT-TTCTTTTTT
1 TTCCTCTCTTTATTTGTTCTTTTTT
*
100560559 TTCCTTTCTTTAATTTGTTCTTTTTT
1 TTCCTCTCTTT-ATTTGTTCTTTTTT
100560585 CTTGTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
25 3 0.14
26 9 0.41
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (25 bp):
TTCCTCTCTTTATTTGTTCTTTTTT
Found at i:100560586 original size:33 final size:37
Alignment explanation
Indices: 100560546--100560630 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 37
100560536 TTCCTCTCTT
*
100560546 TTTTTTCTTTT-T-TTTCCTTTC-TTT-AATTTGTTC
1 TTTTTTCTTTTATCTTTCCCTTCTTTTCAATTTGTTC
*
100560579 TTTTTTCTTGTTTACTCTTTCCCTTCTTTTCAATTTTTTC
1 TTTTTTC-T-TTTA-TCTTTCCCTTCTTTTCAATTTGTTC
100560619 TTTTTTCTTTTA
1 TTTTTTCTTTTA
100560631 ACTATTTAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
33 7 0.16
34 1 0.02
35 3 0.07
37 1 0.02
38 12 0.28
39 4 0.09
40 15 0.35
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (37 bp):
TTTTTTCTTTTATCTTTCCCTTCTTTTCAATTTGTTC
Found at i:100564724 original size:11 final size:10
Alignment explanation
Indices: 100564700--100564787 Score: 60
Period size: 9 Copynumber: 9.1 Consensus size: 10
100564690 GTATGTACAC
*
100564700 AATATACAT-
1 AATATATATA
100564709 AATATAT-TA
1 AATATATATA
100564718 AATATATATA
1 AATATATATA
*
100564728 TAATATTTATA
1 -AATATATATA
*
100564739 AAAATATATA
1 AATATATATA
*
100564749 CATA-ATATA
1 AATATATATA
*
100564758 CATA-A-AGTA
1 AATATATA-TA
*
100564767 CATATATATA
1 AATATATATA
*
100564777 CATATATATA
1 AATATATATA
100564787 A
1 A
100564788 TACTTAAAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
8 2 0.03
9 29 0.44
10 25 0.38
11 10 0.15
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (10 bp):
AATATATATA
Found at i:100564763 original size:23 final size:21
Alignment explanation
Indices: 100564701--100564757 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
100564691 TATGTACACA
*
100564701 ATATACATAATATAT-TAAAT
1 ATATACATAATATATAAAAAT
*
100564721 ATATATATAATATTTATAAAAAT
1 ATATACATAATA--TATAAAAAT
100564744 ATATACATAATATA
1 ATATACATAATATA
100564758 CATAAAGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.35
21 2 0.06
22 3 0.10
23 15 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATACATAATATATAAAAAT
Found at i:100572028 original size:20 final size:20
Alignment explanation
Indices: 100572003--100572043 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
100571993 GCTTATAAGG
100572003 AAAGAAACAATCATTCAAGT
1 AAAGAAACAATCATTCAAGT
100572023 AAAGAAACAATCATTCAAGT
1 AAAGAAACAATCATTCAAGT
100572043 A
1 A
100572044 CTTCAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
AAAGAAACAATCATTCAAGT
Found at i:100580834 original size:13 final size:13
Alignment explanation
Indices: 100580816--100580841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100580806 GTAGACACAC
100580816 GGCCGTGTGTCTA
1 GGCCGTGTGTCTA
100580829 GGCCGTGTGTCTA
1 GGCCGTGTGTCTA
100580842 CCATATGGGT
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:0.08, C:0.23, G:0.38, T:0.31
Consensus pattern (13 bp):
GGCCGTGTGTCTA
Found at i:100587236 original size:18 final size:17
Alignment explanation
Indices: 100587203--100587241 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
100587193 TTGTATAAAT
100587203 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
100587221 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
100587238 TGTG
1 TGTG
100587242 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:100587494 original size:23 final size:23
Alignment explanation
Indices: 100587467--100587564 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
100587457 AGTGTTATTG
100587467 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
100587490 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
100587513 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100587535 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100587558 ATCAGTG
1 ATCAGTG
100587565 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:100587533 original size:45 final size:45
Alignment explanation
Indices: 100587469--100587557 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
100587459 TGTTATTGAT
* *
100587469 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
100587514 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
100587558 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:100594600 original size:18 final size:17
Alignment explanation
Indices: 100594567--100594605 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
100594557 TTGTATAAAT
100594567 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
100594585 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
100594602 TGTG
1 TGTG
100594606 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:100594858 original size:23 final size:23
Alignment explanation
Indices: 100594831--100594928 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
100594821 AGTGTTATTG
100594831 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
100594854 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
100594877 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100594899 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100594922 ATCAGTG
1 ATCAGTG
100594929 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:100594897 original size:45 final size:45
Alignment explanation
Indices: 100594833--100594921 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
100594823 TGTTATTGAT
* *
100594833 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
100594878 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
100594922 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:100604714 original size:3 final size:3
Alignment explanation
Indices: 100604706--100604748 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
100604696 GAAGATGGCA
100604706 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
100604749 GTGATGAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:100605500 original size:26 final size:26
Alignment explanation
Indices: 100605450--100605498 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
100605440 AGATTGATCA
100605450 AATTTGACAACATAAACTAAATTTAT
1 AATTTGACAACATAAACTAAATTTAT
*
100605476 AATTT-ACAA-ATAATAGTAAATTT
1 AATTTGACAACATAA-ACTAAATTT
100605499 TAACCAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (26 bp):
AATTTGACAACATAAACTAAATTTAT
Found at i:100607940 original size:17 final size:16
Alignment explanation
Indices: 100607897--100607945 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 16
100607887 TCAAATATGG
100607897 TTAAA-AATTTAA-TT
1 TTAAATAATTTAATTT
*
100607911 TT-AATATTTTAATTT
1 TTAAATAATTTAATTT
*
100607926 TTAACATAATTTAATAT
1 TTAA-ATAATTTAATTT
100607943 TTA
1 TTA
100607946 TATTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 4 0.14
16 1 0.04
17 13 0.46
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATAATTTAATTT
Found at i:100610606 original size:9 final size:9
Alignment explanation
Indices: 100610592--100610637 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
100610582 TTATGAAACA
100610592 TTTAAAAAT
1 TTTAAAAAT
100610601 TTT-AAAAT
1 TTTAAAAAT
100610609 TTTAAAAAT
1 TTTAAAAAT
** *
100610618 AATAAAAAA
1 TTTAAAAAT
100610627 TTTAAAAAT
1 TTTAAAAAT
100610636 TT
1 TT
100610638 CACAAAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:100610633 original size:8 final size:8
Alignment explanation
Indices: 100610577--100610637 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
100610567 GATATCATCT
100610577 AAAATTTA
1 AAAATTTA
100610585 TGAAACATTTA
1 --AAA-ATTTA
100610596 AAAATTTTA
1 AAAA-TTTA
*
100610605 AAATTTTA
1 AAAATTTA
*
100610613 AAAATAATAA
1 AAAAT--TTA
100610623 AAAATTTA
1 AAAATTTA
100610631 AAAATTT
1 AAAATTT
100610638 CACAAAAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 18 0.42
9 10 0.23
10 10 0.23
11 5 0.12
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (8 bp):
AAAATTTA
Found at i:100611238 original size:29 final size:30
Alignment explanation
Indices: 100611200--100611272 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
100611190 TTTTTAGTCT
* * *
100611200 AAATTTTAAAATATTAATATCAATA-TTAC
1 AAATTATAAAATATTAAGATCAAGATTTAC
*
100611229 AAATTAT-AAATACTAAGATCAAGATTTAC
1 AAATTATAAAATATTAAGATCAAGATTTAC
100611258 AAA-TATTAAAATATT
1 AAATTA-TAAAATATT
100611273 CCAATCCTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 16 0.44
29 14 0.39
30 6 0.17
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTATAAAATATTAAGATCAAGATTTAC
Done.