Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 110 of 187
Found at i:32435534 original size:51 final size:51
Alignment explanation
Indices: 32435460--32435581 Score: 192
Period size: 51 Copynumber: 2.4 Consensus size: 51
32435450 TCTAATCCTC
32435460 TCAATTTCCT-TCCAAATTTCCTTCCAAAATTCTCTCAAACCCATATTGAATT
1 TCAATTTCCTCT-C-AATTTCCTTCCAAAATTCTCTCAAACCCATATTGAATT
* *
32435512 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTGAATT
*
32435563 TCAATTTCCCCTCAATTTC
1 TCAATTTCCTCTCAATTTC
32435582 ATTTTTGAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 54 0.82
52 11 0.17
53 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.01, T:0.41
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTGAATT
Found at i:32435619 original size:20 final size:20
Alignment explanation
Indices: 32435596--32435640 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
32435586 TTGAAAATAA
*
32435596 TTTTAAAAT-TTTTTATATTT
1 TTTTAAAATAATTTTA-ATTT
32435616 TTTTAAAATAATTTTAATTT
1 TTTTAAAATAATTTTAATTT
32435636 TTTTA
1 TTTTA
32435641 TATTTTCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAAAATAATTTTAATTT
Found at i:32435638 original size:30 final size:31
Alignment explanation
Indices: 32435583--32435646 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
32435573 CTCAATTTCA
32435583 TTTTTGAAAATAATTTTAAAATTTTTTATAT
1 TTTTTGAAAATAATTTTAAAATTTTTTATAT
* *
32435614 TTTTTTAAAATAATTTT-AATTTTTTTATAT
1 TTTTTGAAAATAATTTTAAAATTTTTTATAT
32435644 TTT
1 TTT
32435647 CATCAGTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTGAAAATAATTTTAAAATTTTTTATAT
Found at i:32437705 original size:51 final size:51
Alignment explanation
Indices: 32437644--32437821 Score: 125
Period size: 51 Copynumber: 3.5 Consensus size: 51
32437634 AATGGTCACA
*
32437644 TGTGTTGTACTAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAGCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAGCACG
* * * * * * * ** * **
32437695 TGTCTAGTACTGTA-TGAATGCTACCACATGT-C-TC-GGTAAACTACG-GTTATA
1 TGTGTAGTACT-AAGTGAAGGCTA-C-TATGTGCACCAAG-AAGCTTTGAG-CACG
* *
32437746 TGTGTAGTACTAAGTGAAGGCTACTATGTGAACTAAGAAGC-TTGAGCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAGCACG
*
32437796 TGTGTAGTACTGAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
32437822 CGTGAGTCGT
Statistics
Matches: 89, Mismatches: 28, Indels: 21
0.64 0.20 0.15
Matches are distributed among these distances:
49 4 0.04
50 31 0.35
51 46 0.52
52 4 0.04
53 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAGCACG
Found at i:32437812 original size:50 final size:48
Alignment explanation
Indices: 32437746--32437924 Score: 218
Period size: 50 Copynumber: 3.6 Consensus size: 48
32437736 TACGGTTATA
* * *
32437746 TGTGTAGTACTAAGTGAAGGCTACTATGTGAACTAAGAAGCTTGAGCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACTAA-AA-CTTGATCACG
* *
32437796 TGTGTAGTACTGA-GTGAAGGCTACTACGTGAGTCGTAAAACTTGTTCACG
1 TGTGTAGTACT-ATGTGAAGGCTACTACGTGA-AC-TAAAACTTGATCACG
* *
32437846 TGTGTAGTACTATGTGAAAGCTACTACGTGAATTGTAAAAC-TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAA--CTAAAACTTGATCACG
32437895 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
32437925 TATCGAATGA
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
49 37 0.32
50 70 0.61
51 4 0.04
52 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACTAAAACTTGATCACG
Found at i:32439734 original size:18 final size:18
Alignment explanation
Indices: 32439708--32439742 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32439698 AGGTGTGTTT
* *
32439708 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
32439726 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
32439743 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:32440174 original size:25 final size:25
Alignment explanation
Indices: 32440145--32440330 Score: 83
Period size: 26 Copynumber: 7.7 Consensus size: 25
32440135 TTTAAATTTA
32440145 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
32440170 TTATTTGATGTAATACGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
* * ** *
32440196 TTGTTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
32440215 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* ** *
32440241 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
32440267 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
32440286 ATTATTTGATATAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
32440312 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
32440331 ACCCTAATTG
Statistics
Matches: 114, Mismatches: 28, Indels: 37
0.64 0.16 0.21
Matches are distributed among these distances:
19 2 0.02
20 12 0.11
21 10 0.09
23 4 0.04
24 6 0.05
25 38 0.33
26 42 0.37
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:32440231 original size:71 final size:71
Alignment explanation
Indices: 32440143--32440327 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
32440133 TATTTAAATT
32440143 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTGTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTGTTCGAGTTA
32440208 TTTTGA
66 TTTTGA
* * *
32440214 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTGTTCGAGTTA
32440279 TTTTGA
66 TTTTGA
*
32440285 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
32440328 AAAACCCTAA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.44
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTGTTCGAGTTA
TTTTGA
Found at i:32440456 original size:29 final size:29
Alignment explanation
Indices: 32440333--32440456 Score: 212
Period size: 29 Copynumber: 4.3 Consensus size: 29
32440323 TAATAAAAAC
* *
32440333 CCTAATTGAATTAAAAACCCTAATCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
32440362 CCTAATTGAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
32440391 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
32440420 CCTAATTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
32440449 CCTAATTT
1 CCTAATTT
32440457 TACATAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:32440517 original size:55 final size:55
Alignment explanation
Indices: 32440451--32440631 Score: 362
Period size: 55 Copynumber: 3.3 Consensus size: 55
32440441 AACCCTAACC
32440451 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
32440506 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
32440561 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
32440616 TAATTTTACATAATTT
1 TAATTTTACATAATTT
32440632 TACATAATGT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 126 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:32440630 original size:10 final size:10
Alignment explanation
Indices: 32440615--32440639 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32440605 TTTGGACTTA
32440615 ATAATTTTAC
1 ATAATTTTAC
32440625 ATAATTTTAC
1 ATAATTTTAC
32440635 ATAAT
1 ATAAT
32440640 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:32441193 original size:29 final size:29
Alignment explanation
Indices: 32441070--32441193 Score: 212
Period size: 29 Copynumber: 4.3 Consensus size: 29
32441060 TAATAAAAAC
* *
32441070 CCTAATTGAATTAAAAACCCTAATCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
32441099 CCTAATTGAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
32441128 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
32441157 CCTAATTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
32441186 CCTAATTT
1 CCTAATTT
32441194 TACATAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:32441254 original size:55 final size:55
Alignment explanation
Indices: 32441188--32441313 Score: 252
Period size: 55 Copynumber: 2.3 Consensus size: 55
32441178 AACCCTAACC
32441188 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
32441243 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
32441298 TAATTTTACATAATTT
1 TAATTTTACATAATTT
32441314 TACATAATGT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:32441312 original size:10 final size:10
Alignment explanation
Indices: 32441297--32441321 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32441287 TTTGGACTTA
32441297 ATAATTTTAC
1 ATAATTTTAC
32441307 ATAATTTTAC
1 ATAATTTTAC
32441317 ATAAT
1 ATAAT
32441322 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:32445471 original size:37 final size:37
Alignment explanation
Indices: 32445421--32445500 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
32445411 ACCAGTCCAA
* *
32445421 GCTAAATCTTTAAAATGACAACAAATTACTGGACCAG
1 GCTAAACCTTTAAAATGACAACAAATTACTAGACCAG
*
32445458 GCTAAACCTTTAAAATGACAACAAATTACTAGTCCAG
1 GCTAAACCTTTAAAATGACAACAAATTACTAGACCAG
32445495 GCTAAA
1 GCTAAA
32445501 TTCGTATCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (37 bp):
GCTAAACCTTTAAAATGACAACAAATTACTAGACCAG
Found at i:32460090 original size:5 final size:5
Alignment explanation
Indices: 32460012--32460077 Score: 132
Period size: 5 Copynumber: 13.2 Consensus size: 5
32460002 AAATGATTGT
32460012 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
32460062 ATATA ATATA ATATA A
1 ATATA ATATA ATATA A
32460078 AATCATATCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 61 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:32478978 original size:40 final size:40
Alignment explanation
Indices: 32478934--32479197 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
32478924 GCTCCTCGTT
* *
32478934 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
32478974 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
32479014 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
32479054 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
32479094 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
32479133 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
32479174 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32479198 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:32486985 original size:39 final size:39
Alignment explanation
Indices: 32486868--32487168 Score: 400
Period size: 39 Copynumber: 7.6 Consensus size: 39
32486858 GCTCCTCGTT
*
32486868 CAAATGCCTTCGGGACATAGCCCGG--TTATCGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTA--GT-ATCTCGCA
* * *
32486908 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
32486948 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
32486987 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
32487026 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
32487065 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
32487104 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
32487145 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
32487169 CATCTTTCAA
Statistics
Matches: 242, Mismatches: 11, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
39 171 0.71
40 59 0.24
41 9 0.04
42 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:32496359 original size:46 final size:46
Alignment explanation
Indices: 32496292--32496383 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
32496282 CTTGAATGGG
32496292 TTTTAGGGTCTTGTGATCATGTGCTATAAGTTGGGATAGGTATCTA
1 TTTTAGGGTCTTGTGATCATGTGCTATAAGTTGGGATAGGTATCTA
32496338 TTTTAGGGTCTTGTGATCATGTGCTATAAGTTGGGATAGGTATCTA
1 TTTTAGGGTCTTGTGATCATGTGCTATAAGTTGGGATAGGTATCTA
32496384 AGCATTTGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (46 bp):
TTTTAGGGTCTTGTGATCATGTGCTATAAGTTGGGATAGGTATCTA
Found at i:32509057 original size:30 final size:30
Alignment explanation
Indices: 32509013--32509085 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
32509003 CGATCTGGCC
* *
32509013 ACACGGCCATGTGTCACATACGAGTTAGTG
1 ACACGGCCGTGTGTCACATACGAGCTAGTG
*
32509043 ACATGGCCGTGTGTCACATACGAGCTAGTG
1 ACACGGCCGTGTGTCACATACGAGCTAGTG
32509073 ACACGGCCGTGTG
1 ACACGGCCGTGTG
32509086 CCACTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (30 bp):
ACACGGCCGTGTGTCACATACGAGCTAGTG
Found at i:32516986 original size:22 final size:21
Alignment explanation
Indices: 32516961--32517025 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 21
32516951 TACAAATTAA
*
32516961 ATCTTTAAGATTACAAAATCAT
1 ATCTTTAAGATTAC-ATATCAT
*
32516983 ATCTTCTAAGATTGCATATCAT
1 ATCTT-TAAGATTACATATCAT
32517005 ATC--TAAGATTACATATCAT
1 ATCTTTAAGATTACATATCAT
32517024 AT
1 AT
32517026 GTAAGATAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 17 0.44
22 14 0.36
23 8 0.21
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (21 bp):
ATCTTTAAGATTACATATCAT
Found at i:32517011 original size:19 final size:19
Alignment explanation
Indices: 32516987--32517040 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
32516977 AATCATATCT
32516987 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
32517006 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
* *
32517025 TGTAAGATAGCATATC
1 TCTAAGATTGCATATC
32517041 CCTGAAGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:32522905 original size:33 final size:32
Alignment explanation
Indices: 32522858--32522973 Score: 151
Period size: 32 Copynumber: 3.6 Consensus size: 32
32522848 AAACGCGCGG
* * *
32522858 TTTTATGAAATGATAACAAATTTCAAGTTTTCA
1 TTTTGTGAAATGATAACAAATTTCAA-CTTTAA
* *
32522891 TTTTGTGAAATGATAATAAATTACAACTTTAA
1 TTTTGTGAAATGATAACAAATTTCAACTTTAA
* *
32522923 TTTTGTAAAATGATAACAAATATCAACTTTAA
1 TTTTGTGAAATGATAACAAATTTCAACTTTAA
*
32522955 TTTTGTTAAATGATAACAA
1 TTTTGTGAAATGATAACAA
32522974 TATTCATTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
32 50 0.68
33 23 0.32
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (32 bp):
TTTTGTGAAATGATAACAAATTTCAACTTTAA
Found at i:32531669 original size:42 final size:42
Alignment explanation
Indices: 32531598--32531681 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
32531588 TAGCAAACGA
**
32531598 CCTGGCACACGGGCATGTGTGGCAGCTCAGAGAGTTACACGG
1 CCTGGCACACGGGCATGTACGGCAGCTCAGAGAGTTACACGG
* * * *
32531640 CCTGGCACACGGGCGTGTACGGCATCTCAGTGAGTTGCACGG
1 CCTGGCACACGGGCATGTACGGCAGCTCAGAGAGTTACACGG
32531682 TTGAGGAGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.18
Consensus pattern (42 bp):
CCTGGCACACGGGCATGTACGGCAGCTCAGAGAGTTACACGG
Found at i:32534294 original size:3 final size:3
Alignment explanation
Indices: 32534286--32534318 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
32534276 ATTCCCACTC
*
32534286 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32534319 CTTACCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:32534991 original size:11 final size:11
Alignment explanation
Indices: 32534975--32535000 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32534965 TCTTTCTTTC
32534975 TTTCTCCCCTG
1 TTTCTCCCCTG
32534986 TTTCTCCCCTG
1 TTTCTCCCCTG
32534997 TTTC
1 TTTC
32535001 GTCTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:32535070 original size:20 final size:20
Alignment explanation
Indices: 32535036--32535075 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32535026 TTCTATTATG
*
32535036 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
32535056 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
32535076 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:32535242 original size:31 final size:28
Alignment explanation
Indices: 32535206--32535273 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
32535196 TTGTCTTTAT
**
32535206 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
32535236 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
32535265 TTAATTTAT
1 TTAATTTAT
32535274 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:32535290 original size:21 final size:20
Alignment explanation
Indices: 32535252--32535290 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
32535242 TAATTTAATA
*
32535252 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
32535272 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
32535291 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:32540233 original size:21 final size:21
Alignment explanation
Indices: 32540191--32540233 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32540181 TTCAATATAC
*
32540191 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
32540212 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
32540233 A
1 A
32540234 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:32541760 original size:3 final size:3
Alignment explanation
Indices: 32541752--32541787 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
32541742 ATTCCCACTC
* *
32541752 ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32541788 CTTACCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:32541988 original size:11 final size:11
Alignment explanation
Indices: 32541972--32541997 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32541962 TCTTTCTTTC
32541972 TTTCTCCCCTG
1 TTTCTCCCCTG
32541983 TTTCTCCCCTG
1 TTTCTCCCCTG
32541994 TTTC
1 TTTC
32541998 GTCTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:32542067 original size:20 final size:20
Alignment explanation
Indices: 32542033--32542072 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32542023 TTCTATTCTG
*
32542033 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
32542053 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
32542073 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:32542239 original size:31 final size:28
Alignment explanation
Indices: 32542203--32542270 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
32542193 TTGTCTTTAT
**
32542203 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
32542233 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
32542262 TTAATTTAT
1 TTAATTTAT
32542271 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:32542287 original size:21 final size:20
Alignment explanation
Indices: 32542249--32542287 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
32542239 TAATTTAATA
*
32542249 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
32542269 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
32542288 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:32555767 original size:5 final size:5
Alignment explanation
Indices: 32555759--32555783 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32555749 TTTAGAACAA
32555759 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
32555784 TCAGCAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:32556700 original size:6 final size:6
Alignment explanation
Indices: 32556691--32556786 Score: 93
Period size: 6 Copynumber: 15.3 Consensus size: 6
32556681 AAATAAAAAT
* * * * *
32556691 AAAACAA AAAAGCA CAAAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA
1 AAAAC-A AAAA-CA -AAAA-CA AAAACA AAAACA AAAACA AAAACA AAAACA
* *
32556743 AAAGCA AAAGCA AAAACA AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AA
32556787 TATAAATATA
Statistics
Matches: 85, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
6 69 0.81
7 8 0.09
8 8 0.09
ACGTcount: A:0.74, C:0.17, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:32556720 original size:12 final size:12
Alignment explanation
Indices: 32556705--32556786 Score: 119
Period size: 12 Copynumber: 6.8 Consensus size: 12
32556695 CAAAAAAGCA
32556705 CAAAAGCAAAAG
1 CAAAAGCAAAAG
32556717 CAAAAGCAAAAG
1 CAAAAGCAAAAG
32556729 CAAAAGCAAAAG
1 CAAAAGCAAAAG
32556741 CAAAAGCAAAAG
1 CAAAAGCAAAAG
* *
32556753 CAAAAACAAAAA
1 CAAAAGCAAAAG
* *
32556765 CAAAAACAAAAA
1 CAAAAGCAAAAG
*
32556777 CAAAAACAAA
1 CAAAAGCAAA
32556787 TATAAATATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 68 1.00
ACGTcount: A:0.73, C:0.17, G:0.10, T:0.00
Consensus pattern (12 bp):
CAAAAGCAAAAG
Found at i:32556728 original size:18 final size:18
Alignment explanation
Indices: 32556704--32556786 Score: 121
Period size: 18 Copynumber: 4.6 Consensus size: 18
32556694 ACAAAAAAGC
32556704 ACAAAAGCAAAAGCAAAA
1 ACAAAAGCAAAAGCAAAA
*
32556722 GCAAAAGCAAAAGCAAAA
1 ACAAAAGCAAAAGCAAAA
*
32556740 GCAAAAGCAAAAGCAAAA
1 ACAAAAGCAAAAGCAAAA
* *
32556758 ACAAAAACAAAAACAAAA
1 ACAAAAGCAAAAGCAAAA
*
32556776 ACAAAAACAAA
1 ACAAAAGCAAA
32556787 TATAAATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.73, C:0.17, G:0.10, T:0.00
Consensus pattern (18 bp):
ACAAAAGCAAAAGCAAAA
Found at i:32559764 original size:13 final size:13
Alignment explanation
Indices: 32559723--32559757 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
32559713 AGAAACAAAC
32559723 AAATGAAAAATTA
1 AAATGAAAAATTA
*
32559736 TAATGAAAAATTA
1 AAATGAAAAATTA
*
32559749 AAATTAAAA
1 AAATGAAAA
32559758 TAAAAAAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
AAATGAAAAATTA
Found at i:32561140 original size:36 final size:36
Alignment explanation
Indices: 32561092--32561166 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
32561082 TATCAATATC
*
32561092 AAATTCAAGAAATGGTAACAACATTAAATCAGCAGG
1 AAATTCAAGAAATGGTAACAACATTAAATCAGAAGG
*
32561128 AAATTCACGAAATGGTAACAACATTAAATCAGAAGG
1 AAATTCAAGAAATGGTAACAACATTAAATCAGAAGG
32561164 AAA
1 AAA
32561167 GTCATAGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (36 bp):
AAATTCAAGAAATGGTAACAACATTAAATCAGAAGG
Found at i:32569023 original size:6 final size:7
Alignment explanation
Indices: 32568998--32569022 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32568988 TTCTCATTTT
32568998 TTTTTCA
1 TTTTTCA
32569005 TTTTTCA
1 TTTTTCA
32569012 TTTTTCA
1 TTTTTCA
32569019 TTTT
1 TTTT
32569023 CTCTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:32570472 original size:28 final size:28
Alignment explanation
Indices: 32570432--32570610 Score: 254
Period size: 28 Copynumber: 6.4 Consensus size: 28
32570422 CTATTCAGTG
*
32570432 ACAGT-ACAGTGTAGGTCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAT
*
32570459 ACAGTAATAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAT
* *
32570487 ACAGTAACAGTGTGGGCCTTAACCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAT
*
32570515 ATAGTAACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAT
* *
32570543 ACAGTAACAATGTAGGCCTGAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAT
*
32570571 ACAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTAGGCCTTAGCCCAAT
*
32570599 ATAGTAACAGTG
1 ACAGTAACAGTG
32570611 CAGTGCAATA
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
27 7 0.05
28 125 0.93
29 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTAGGCCTTAGCCCAAT
Found at i:32570545 original size:84 final size:84
Alignment explanation
Indices: 32570437--32570610 Score: 287
Period size: 84 Copynumber: 2.1 Consensus size: 84
32570427 CAGTGACAGT
* * * *
32570437 ACAGTGTAGGTCTTAGCCCAATACAGTAATAGTGTAGGCCTTAGCCCAATACAGTAA-CAGTGTG
1 ACAGTGTAGGCCTTAGCCCAATACAGTAACAATGTAGGCCTGAGCCCAATACAG-AATCAGTGTG
32570501 GGCCTTAACCCAATATAGTA
65 GGCCTTAACCCAATATAGTA
32570521 ACAGTGTAGGCCTTAGCCCAATACAGTAACAATGTAGGCCTGAGCCCAATACAGAATCAGTGTGG
1 ACAGTGTAGGCCTTAGCCCAATACAGTAACAATGTAGGCCTGAGCCCAATACAGAATCAGTGTGG
*
32570586 GCCTTAGCCCAATATAGTA
66 GCCTTAACCCAATATAGTA
32570605 ACAGTG
1 ACAGTG
32570611 CAGTGCAATA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
83 2 0.02
84 82 0.98
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (84 bp):
ACAGTGTAGGCCTTAGCCCAATACAGTAACAATGTAGGCCTGAGCCCAATACAGAATCAGTGTGG
GCCTTAACCCAATATAGTA
Found at i:32570777 original size:26 final size:26
Alignment explanation
Indices: 32570711--32570791 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
32570701 AACACACCAA
* *
32570711 TATCGCAGCAAAGCTGCCAATAAT-AG
1 TATCGCAGCAAAGCTGTCAGT-ATCAG
* * * *
32570737 CATCACAACAGAGCTGTCAGTATCAG
1 TATCGCAGCAAAGCTGTCAGTATCAG
*
32570763 TATCGCAGCAAAGCT-TCCAGTAACAG
1 TATCGCAGCAAAGCTGT-CAGTATCAG
32570789 TAT
1 TAT
32570792 ATGTGGCAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
25 3 0.07
26 39 0.93
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGTCAGTATCAG
Found at i:32571045 original size:27 final size:27
Alignment explanation
Indices: 32570992--32571074 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
32570982 ACATAAGGCC
32570992 ATAACAGTCATTTTATCTCC--TAGGGGT
1 ATAACAGTCATTTTA-C-CCTATAGGGGT
*
32571019 ATAACAGTCATTTTACCCTATAAGGGT
1 ATAACAGTCATTTTACCCTATAGGGGT
** *
32571046 ATTTC-GATCATTTTCCCCTATAGGGGT
1 ATAACAG-TCATTTTACCCTATAGGGGT
32571073 AT
1 AT
32571075 TTCGATCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 44 0.92
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATAGGGGT
Found at i:32571070 original size:54 final size:54
Alignment explanation
Indices: 32571012--32571433 Score: 282
Period size: 54 Copynumber: 7.9 Consensus size: 54
32571002 TTTTATCTCC
** *
32571012 TAGGGGTATAACAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTCCCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTA
32571066 TAGGGGTATTTC-GATCATTTTA--C------GGTATTTC-AGTCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTATAAGGGTATTTCGA-TCATTTTACCCTA
* * * * * * * *
32571112 TAAGGGTGTTTCGGTTATTTTATCCTATAGGGGTATTTCGATTATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTA
** * ** * * * *
32571166 T-GAGGGTATTTTGGTCATTCTACCCTAGGAGGGTATTTTGGTCATTTTACACAA
1 TAG-GGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTA
* * * * ** * *
32571220 TAGGGGCATTTCGGTTATTCTACCCTATGGGGGTATTTCGGTCATTCTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTA
* * * *
32571274 TAAGGGTATTTTAGTCATTTTATCCTATGAGGGTATTTC-AGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGA-TCATTTTACCCTA
* * * *
32571328 T-GGAGGTACTTCAGTCATTTTACCCTATAGGGGTATTTCAATCATTTTTA-TCTA
1 TAGG-GGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCA-TTTTACCCTA
** * * *
32571382 TTAGGGGTAAAAT-AGTCATTTTACCCT-TCAGGGATATTTTGGTCATTTTACC
1 -TAGGGGT-ATTTCAGTCATTTTACCCTATAAGGG-TATTTCGATCATTTTACC
32571434 TATTTTAGGG
Statistics
Matches: 288, Mismatches: 57, Indels: 45
0.74 0.15 0.12
Matches are distributed among these distances:
45 1 0.00
46 37 0.13
47 1 0.00
48 1 0.00
52 1 0.00
53 2 0.01
54 207 0.72
55 34 0.12
56 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (54 bp):
TAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTA
Found at i:32571075 original size:27 final size:27
Alignment explanation
Indices: 32571026--32571375 Score: 255
Period size: 27 Copynumber: 13.3 Consensus size: 27
32571016 GGTATAACAG
*
32571026 TCATTTTACCCTATAAGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
32571053 TCATTTTCCCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
32571080 TCATTTTA--C------GGTATTTC-A
1 TCATTTTACCCTATAGGGGTATTTCGA
* * *
32571098 GTCATTTTACCCTATAAGGGTGTTTCGG
1 -TCATTTTACCCTATAGGGGTATTTCGA
* *
32571126 TTATTTTATCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* * * *
32571153 TTATTTTACCTTAT-GAGGGTATTTTGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
* * * *
32571180 TCATTCTACCCTA-GGAGGGTATTTTGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
* * * *
32571207 TCATTTTACACAATAGGGGCATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* * * *
32571234 TTATTCTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* * *
32571261 TCATTCTACCCTATAAGGGTATTT-TA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
32571287 GTCATTTTATCCTAT-GAGGGTATTTC-A
1 -TCATTTTACCCTATAG-GGGTATTTCGA
*
32571314 GTCATTTTACCCTAT-GGAGGTACTTC-A
1 -TCATTTTACCCTATAGG-GGTATTTCGA
*
32571341 GTCATTTTACCCTATAGGGGTATTTCAA
1 -TCATTTTACCCTATAGGGGTATTTCGA
32571369 TCATTTT
1 TCATTTT
32571376 TATCTATTAG
Statistics
Matches: 264, Mismatches: 40, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.00
19 16 0.06
21 1 0.00
25 1 0.00
26 2 0.01
27 239 0.91
28 4 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:32571094 original size:19 final size:19
Alignment explanation
Indices: 32571070--32571107 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
32571060 CCCCTATAGG
32571070 GGTATTTC-GATCATTTTAC
1 GGTATTTCAG-TCATTTTAC
32571089 GGTATTTCAGTCATTTTAC
1 GGTATTTCAGTCATTTTAC
32571108 CCTATAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (19 bp):
GGTATTTCAGTCATTTTAC
Found at i:32571111 original size:46 final size:46
Alignment explanation
Indices: 32571043--32571133 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
32571033 ACCCTATAAG
* *
32571043 GGTATTTCGATCATTTTCCCCTATAGGGGTATTTCGATCATTTTAC
1 GGTATTTCGATCATTTTACCCTATAAGGGTATTTCGATCATTTTAC
* * *
32571089 GGTATTTC-AGTCATTTTACCCTATAAGGGTGTTTCGGTTATTTTA
1 GGTATTTCGA-TCATTTTACCCTATAAGGGTATTTCGATCATTTTA
32571134 TCCTATAGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.03
46 38 0.97
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (46 bp):
GGTATTTCGATCATTTTACCCTATAAGGGTATTTCGATCATTTTAC
Found at i:32571139 original size:73 final size:73
Alignment explanation
Indices: 32571023--32571161 Score: 224
Period size: 73 Copynumber: 1.9 Consensus size: 73
32571013 AGGGGTATAA
*
32571023 CAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTCCCCTATAGGGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTA
32571088 CGGTATTT
66 CGGTATTT
* * * * *
32571096 CAGTCATTTTACCCTATAAGGGTGTTTCGGTTATTTTATCCTATAGGGGTATTTCGATTATTTTA
1 CAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTA
32571161 C
66 C
32571162 CTTATGAGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (73 bp):
CAGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTA
CGGTATTT
Found at i:32571191 original size:81 final size:80
Alignment explanation
Indices: 32571089--32571390 Score: 306
Period size: 81 Copynumber: 3.7 Consensus size: 80
32571079 ATCATTTTAC
* * *
32571089 GGTATTTCAGTCATTTTACCCTATAAGGGTGTTTCGGTTATTTTATCCTATAGGGGTATTTCGAT
1 GGTATTTCAGTCATTCTACCCTATAAGGGTATTTCGGTCATTTTATCCTATAGGGGTATTTCGAT
*
32571154 TATTTTACCTTATGAG
66 TATTTTACCCTATG-G
** ** * * * *
32571170 GGTATTTTGGTCATTCTACCCTAGGAGGGTATTTTGGTCATTTTA-CACAATAGGGGCATTTCGG
1 GGTATTTCAGTCATTCTACCCTATAAGGGTATTTCGGTCATTTTATC-CTATAGGGGTATTTCGA
*
32571234 TTATTCTACCCTATGGG
65 TTATTTTACCCTAT-GG
* **
32571251 GGTATTTCGGTCATTCTACCCTATAAGGGTATTTTAGTCATTTTATCCTAT-GAGGGTATTTC-A
1 GGTATTTCAGTCATTCTACCCTATAAGGGTATTTCGGTCATTTTATCCTATAG-GGGTATTTCGA
*
32571314 GTCATTTTACCCTATGG
65 -TTATTTTACCCTATGG
* * * **
32571331 AGGTACTTCAGTCATTTTACCCTATAGGGGTATTTCAATCATTTTTAT-CTATTAGGGGTA
1 -GGTATTTCAGTCATTCTACCCTATAAGGGTATTTCGGTCA-TTTTATCCTA-TAGGGGTA
32571391 AAATAGTCAT
Statistics
Matches: 184, Mismatches: 28, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
80 4 0.02
81 165 0.90
82 14 0.08
83 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.42
Consensus pattern (80 bp):
GGTATTTCAGTCATTCTACCCTATAAGGGTATTTCGGTCATTTTATCCTATAGGGGTATTTCGAT
TATTTTACCCTATGG
Found at i:32571382 original size:27 final size:27
Alignment explanation
Indices: 32571089--32571433 Score: 256
Period size: 27 Copynumber: 12.7 Consensus size: 27
32571079 ATCATTTTAC
*
32571089 GGTATTTCAGTCATTTTACCCTATAAG
1 GGTATTTCAGTCATTTTACCCTATAGG
* * * *
32571116 GGTGTTTCGGTTATTTTATCCTATAGG
1 GGTATTTCAGTCATTTTACCCTATAGG
* *
32571143 GGTATTTC-GATTATTTTACCTTAT-GAG
1 GGTATTTCAG-TCATTTTACCCTATAG-G
** * *
32571170 GGTATTTTGGTCATTCTACCCTA-GGAG
1 GGTATTTCAGTCATTTTACCCTATAG-G
** * *
32571197 GGTATTTTGGTCATTTTACACAATAGG
1 GGTATTTCAGTCATTTTACCCTATAGG
* * * * *
32571224 GGCATTTCGGTTATTCTACCCTATGGG
1 GGTATTTCAGTCATTTTACCCTATAGG
* * *
32571251 GGTATTTCGGTCATTCTACCCTATAAG
1 GGTATTTCAGTCATTTTACCCTATAGG
* *
32571278 GGTATTTTAGTCATTTTATCCTAT-GAG
1 GGTATTTCAGTCATTTTACCCTATAG-G
32571305 GGTATTTCAGTCATTTTACCCTAT-GG
1 GGTATTTCAGTCATTTTACCCTATAGG
*
32571331 AGGTACTTCAGTCATTTTACCCTATAGG
1 -GGTATTTCAGTCATTTTACCCTATAGG
* *
32571359 GGTATTTCAATCATTTTTA-TCTATTAGG
1 GGTATTTCAGTCA-TTTTACCCTA-TAGG
**
32571387 GGTAAAAT-AGTCATTTTACCCT-TCAGG
1 GGT-ATTTCAGTCATTTTACCCTAT-AGG
* **
32571414 GATATTTTGGTCATTTTACC
1 GGTATTTCAGTCATTTTACC
32571434 TATTTTAGGG
Statistics
Matches: 258, Mismatches: 46, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.02
27 228 0.88
28 22 0.09
29 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTCAGTCATTTTACCCTATAGG
Found at i:32573233 original size:48 final size:47
Alignment explanation
Indices: 32573160--32573250 Score: 155
Period size: 48 Copynumber: 1.9 Consensus size: 47
32573150 TTATCTGCGA
*
32573160 TTATGTGGTCGTTATTGGCAATTATGTGGTGGCTTGTCCACAATGTG
1 TTATGTGGTCGTTATCGGCAATTATGTGGTGGCTTGTCCACAATGTG
*
32573207 TTATGTGGTCATTTATCGGCAATTATGTGGTGGCTTGTCCACAA
1 TTATGTGGTC-GTTATCGGCAATTATGTGGTGGCTTGTCCACAA
32573251 ATAGTGTGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 10 0.24
48 31 0.76
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.40
Consensus pattern (47 bp):
TTATGTGGTCGTTATCGGCAATTATGTGGTGGCTTGTCCACAATGTG
Found at i:32574541 original size:17 final size:17
Alignment explanation
Indices: 32574519--32574587 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
32574509 TTCAGATTTG
*
32574519 AAACTATAGACTGTGAA
1 AAACTATAGACTATGAA
*
32574536 AAACTATAGACAATGAA
1 AAACTATAGACTATGAA
* *
32574553 ACACTATAAAC--TGAGA
1 AAACTATAGACTATGA-A
*
32574569 CAACTATAGACTATGAA
1 AAACTATAGACTATGAA
32574586 AA
1 AA
32574588 CTCTAAGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
15 3 0.07
16 9 0.22
17 26 0.63
18 3 0.07
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (17 bp):
AAACTATAGACTATGAA
Found at i:32582044 original size:25 final size:25
Alignment explanation
Indices: 32582016--32582072 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
32582006 TGTATGTGCT
*
32582016 TACCATTATTCAGCTTGGAGGAGCA
1 TACCATTATTCAGCTCGGAGGAGCA
* * *
32582041 TACCGTTATTTAGCTCGGAGGAGCT
1 TACCATTATTCAGCTCGGAGGAGCA
32582066 TACCATT
1 TACCATT
32582073 TACAACTCGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (25 bp):
TACCATTATTCAGCTCGGAGGAGCA
Found at i:32584645 original size:43 final size:43
Alignment explanation
Indices: 32584593--32584713 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
32584583 TTATGTGAAA
* *
32584593 AAACGCCGCTAAAGACCATGATATTTAGCGGCGCATATACTAC
1 AAACGCCGCTAAAGACCATGACATTTAGCGACGCATATACTAC
* * * **
32584636 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTATGTTAC
1 AAACGCCGCTAAAGACCATGACATTTAGCGACGCATATACTAC
* ** *
32584679 AAACGCCGCTATAAAAAAATGACTTTTAGCGACGC
1 AAACGCCGCTA-AAGACCATGACATTTAGCGACGC
32584714 TTTTTTAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 47 0.71
44 19 0.29
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACATTTAGCGACGCATATACTAC
Found at i:32584726 original size:43 final size:43
Alignment explanation
Indices: 32584571--32584732 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
32584561 TTTTTTAGGT
* * * * ** *
32584571 CTTTAGCGGCGTTTATGTGAAAAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGACGCTTATGT-TAAAAACGCCGCTAAAAAAAATGAC
* * * ** * * **
32584615 ATTTAGCGGCGCATATACTACAAACGCCGCTAAAGATCATGAC
1 CTTTAGCGACGCTTATGTTAAAAACGCCGCTAAAAAAAATGAC
*
32584658 CTTTAGCGACGCTTATGTTACAAACGCCGCTATAAAAAAATGAC
1 CTTTAGCGACGCTTATGTTAAAAACGCCGCTA-AAAAAAATGAC
* *
32584702 TTTTAGCGACGCTT-TTTTAAAAACGCCGCTA
1 CTTTAGCGACGCTTATGTTAAAAACGCCGCTA
32584733 GAAACATGCT
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
43 63 0.65
44 34 0.35
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
CTTTAGCGACGCTTATGTTAAAAACGCCGCTAAAAAAAATGAC
Found at i:32585811 original size:47 final size:46
Alignment explanation
Indices: 32585757--32585848 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
32585747 CCCTACATGT
*
32585757 GCCATCATGTCAGATGTAGAAAAGGCTTAATATGTAATGATAAAAAG
1 GCCATCAT-TCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
**** *
32585804 GCCATCATTTTTTTGTGGAAAAGGCTTAATATGTAATGACAAAAA
1 GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAA
32585849 TGGAAGCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 31 0.79
47 8 0.21
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
Found at i:32590011 original size:14 final size:15
Alignment explanation
Indices: 32589992--32590024 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
32589982 CTTAAACCAG
32589992 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
32590006 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
32590021 AATC
1 AATC
32590025 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:32590092 original size:14 final size:14
Alignment explanation
Indices: 32590073--32590109 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
32590063 ATCCTAAATT
32590073 AACCATATACCCTA
1 AACCATATACCCTA
32590087 AACCATATACCCTA
1 AACCATATACCCTA
*
32590101 AAACATATA
1 AACCATATA
32590110 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:32590501 original size:41 final size:41
Alignment explanation
Indices: 32590433--32590665 Score: 283
Period size: 41 Copynumber: 5.7 Consensus size: 41
32590423 AAATGTTTTT
* *
32590433 GCGGCGCTTTATCAAAAACGCCACTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
** * *
32590474 GCGATGCTTTTTCAAAAACGTCGCTAAAAGCATGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
32590515 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* ** *
32590556 GCGGCGCTTTTTTAAAAACGCCGCT-AAAGAATTGAGTATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CCTGAGCATTA
*
32590597 GCGGCGC-TTTTCGAAAAACGCCGCT-AAATCTCTGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAAGC-CTGAGCATTA
* ** *
32590638 GCAGTACTTTTTCAAAAACGCTGCTAAA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAA
32590666 GCACCAAATG
Statistics
Matches: 164, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
40 8 0.05
41 149 0.91
42 7 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:32590748 original size:39 final size:40
Alignment explanation
Indices: 32590705--32590789 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 40
32590695 AGGCATAGGT
32590705 TTTTTACT-GCG-TTTTTCTGAAAAACGCCGCTAATGCT-AA
1 TTTTTACTGGCGCTTTTT-TG-AAAACGCCGCTAATGCTCAA
* * *
32590744 TTTTTAGTGGCGCTTTTTTGGAAGCGCCGCTAATGCTCAA
1 TTTTTACTGGCGCTTTTTTGAAAACGCCGCTAATGCTCAA
32590784 TTTTTA
1 TTTTTA
32590790 GCGGCATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
39 22 0.55
40 13 0.32
41 5 0.12
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTTTACTGGCGCTTTTTTGAAAACGCCGCTAATGCTCAA
Found at i:32603040 original size:55 final size:55
Alignment explanation
Indices: 32602937--32603048 Score: 147
Period size: 55 Copynumber: 2.0 Consensus size: 55
32602927 GATTCATGGG
*
32602937 AAAATTATTGAAATACCCTCGAAAGGGTAAAATTACTGAAATACCCTCGAAAGGGT
1 AAAATTACTGAAATACCCTCGAAAGGGTAAAATTACTGAAATACCCTCG-AAGGGT
* * **
32602993 AAAATTACTGAAATACCCTTG-AAGGGTAAAATTA-TCGAACTTTCCTCGAAGGGT
1 AAAATTACTGAAATACCCTCGAAAGGGTAAAATTACT-GAAATACCCTCGAAGGGT
32603047 AA
1 AA
32603049 TGTCGAAACC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 9 0.18
55 22 0.44
56 19 0.38
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (55 bp):
AAAATTACTGAAATACCCTCGAAAGGGTAAAATTACTGAAATACCCTCGAAGGGT
Found at i:32603048 original size:27 final size:28
Alignment explanation
Indices: 32602937--32603026 Score: 155
Period size: 28 Copynumber: 3.2 Consensus size: 28
32602927 GATTCATGGG
*
32602937 AAAATTATTGAAATACCCTCGAAAGGGT
1 AAAATTACTGAAATACCCTCGAAAGGGT
32602965 AAAATTACTGAAATACCCTCGAAAGGGT
1 AAAATTACTGAAATACCCTCGAAAGGGT
*
32602993 AAAATTACTGAAATACCCTTG-AAGGGT
1 AAAATTACTGAAATACCCTCGAAAGGGT
32603020 AAAATTA
1 AAAATTA
32603027 TCGAACTTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 13 0.22
28 47 0.78
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAATTACTGAAATACCCTCGAAAGGGT
Found at i:32605997 original size:50 final size:50
Alignment explanation
Indices: 32605923--32606069 Score: 150
Period size: 50 Copynumber: 2.9 Consensus size: 50
32605913 GTCGGAGAAG
* *
32605923 TAAGATTCGCCATTGTGGCGTTAATCTGTTCCACTGCACCGCCAGGGAAA
1 TAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
* * * ** ** * * *
32605973 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAG
1 TAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
* * *
32606023 CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTCAGG
1 TAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGC-CAGG
32606070 AAGATAGAAT
Statistics
Matches: 72, Mismatches: 24, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
50 69 0.96
51 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (50 bp):
TAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
Found at i:32606050 original size:100 final size:102
Alignment explanation
Indices: 32605873--32606069 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 102
32605863 TTGAAGAAGC
* * *
32605873 AAGATTCGCTGTCGTAGCTTTAATCTTTTTTAATTGCAATGTCGGAGAAGTAAGATTCGCCATTG
1 AAGATTCGCTGTCGTAGCTTTAATCTTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCATTG
32605938 TGGCGTTAATCTGTTCCACTGCACCGC-CAGGGAAAT
66 TGGCGTTAATCTGTTCCACTGCACCGCTCAGGGAAAT
* *
32605974 AAGATTCGCTGTTGTAGCTTTAATC-TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-T
1 AAGATTCGCTGTCGTAGCTTTAATCTTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACC-ATT
*
32606037 GTGGCTTTAATCTGTTCCACTGCACCGCTCAGG
65 GTGGCGTTAATCTGTTCCACTGCACCGCTCAGG
32606070 AAGATAGAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
100 59 0.67
101 29 0.33
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (102 bp):
AAGATTCGCTGTCGTAGCTTTAATCTTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCATTG
TGGCGTTAATCTGTTCCACTGCACCGCTCAGGGAAAT
Found at i:32606307 original size:87 final size:87
Alignment explanation
Indices: 32606127--32606920 Score: 1196
Period size: 87 Copynumber: 9.1 Consensus size: 87
32606117 GTAAAATCCC
* * * * **
32606127 CTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTTTATTTCTTCGATCTGCTTCGTT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-GTT-TTCGATCTGCTTCACT
**
32606192 GTCAGCGCAGGAAGGCAAGATCTA
64 GTCAATGCAGGAAGGCAAGATCTA
*
32606216 CTATCTTTAACCTA-CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTG
1 CTATCTTTAACC-AGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTG
*
32606280 TCAATGCAGGAAGGCAAGATCTG
65 TCAATGCAGGAAGGCAAGATCTA
* * * * * *
32606303 CTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTTTATTTCTTCGATCTACTTCATT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-GTT-TTCGATCTGCTTCACT
**
32606368 GTCAGCGCAGGAAGGCAAGATCTA
64 GTCAATGCAGGAAGGCAAGATCTA
*
32606392 CTATCTTTAACCTA-CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTG
1 CTATCTTTAACC-AGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTG
*
32606456 TCAATGCAGGAAGGCAAGATCTG
65 TCAATGCAGGAAGGCAAGATCTA
32606479 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
32606544 CAATGCAGGAAGGCAAGATCTA
66 CAATGCAGGAAGGCAAGATCTA
* * *
32606566 CTATCTTTAACCAGCTCCATTACAACCGATGGAGGCAAGGCTTTGTTTTCAATCTGCTTCACTGT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
* *
32606631 CAATGCAGGAAGGAAAGATCTG
66 CAATGCAGGAAGGCAAGATCTA
* * *
32606653 CTATCTTTAACCAGCTCCATTACAACCGATGGAGGCAAGGCTTTGTTTTCAATCTGCTTCACTGT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
32606718 CAATGCAGGAAGGCAAGATCTA
66 CAATGCAGGAAGGCAAGATCTA
* * *
32606740 CTATCTTTAACCAGCTCCATTACAACCGATGGAGGCAAGGCTTTGTTTTCAATCTGCTTCACTGT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
32606805 CAATGCAGGAAGGCAAGATCTA
66 CAATGCAGGAAGGCAAGATCTA
* * *
32606827 CTATCTTTAACCAGCTCCATTACAACCGATGGAGGCAAGGCTTTGTTTTCAATCTGCTTCACTGT
1 CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
* *
32606892 CAATGCAGGAAGGAAAGATCTG
66 CAATGCAGGAAGGCAAGATCTA
32606914 CTATCTT
1 CTATCTT
32606921 CACTGATCTT
Statistics
Matches: 660, Mismatches: 39, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
86 1 0.00
87 539 0.82
88 6 0.01
89 114 0.17
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGT
CAATGCAGGAAGGCAAGATCTA
Found at i:32613294 original size:43 final size:43
Alignment explanation
Indices: 32613245--32613381 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
32613235 CAACCGATGG
*
32613245 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
* * ** * * * *
32613288 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTCACTGTCAATGC-A-GGA
32613332 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
32613375 AGGCAAG
1 AGGCAAG
32613382 ATCTACTATC
Statistics
Matches: 68, Mismatches: 17, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
42 18 0.26
43 20 0.29
44 13 0.19
45 17 0.25
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
Found at i:32613308 original size:87 final size:87
Alignment explanation
Indices: 32612972--32613480 Score: 709
Period size: 87 Copynumber: 5.8 Consensus size: 87
32612962 NNNNNNNNNN
*
32612972 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGC
1 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGC
*
32613037 TATCTTTAACCTGCTCCACTGC
66 TATCTTTAACCTACTCCACTGC
* * * ** ** * *
32613059 AACCGAGGGAGGCAAGGC-TGGTATCTTAGATCTGCTTCGTTGTCAGCGTAAGAAGGCAAGATCT
1 AACCGATGGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
* *
32613123 GCTATCTTCAACCTGCTCCACTGC
64 GCTATCTTTAACCTACTCCACTGC
* * * * **
32613147 AACCGAGGGAGGCAAGGCTTTATTTCTTCGATCTACTTCATTGTCAGCGCAGGAAGGCAAGATCT
1 AACCGATGGAGGCAAGGCTTT-GTT-TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
*
32613212 ACTATCTTTAACCTACTCCACTGC
64 GCTATCTTTAACCTACTCCACTGC
*
32613236 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGC
1 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGC
32613301 TATCTTTAACC-AGCTCCACTGC
66 TATCTTTAACCTA-CTCCACTGC
*
32613323 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTAC
1 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGC
* *
32613388 TATCTTTAACC-AGCTCCATTAC
66 TATCTTTAACCTA-CTCCACTGC
* *
32613410 AACCGATGGAGGCAAGGCTTTGTTTTCAATCTGCTTCACTGTCAATGCAGGAAGGAAAGATCTGC
1 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGC
32613475 TATCTT
66 TATCTT
32613481 CACTGATCTT
Statistics
Matches: 383, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
86 4 0.01
87 224 0.58
88 76 0.20
89 78 0.20
90 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGC
TATCTTTAACCTACTCCACTGC
Found at i:32614727 original size:7 final size:7
Alignment explanation
Indices: 32614708--32614756 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
32614698 TTAGCCTCTC
32614708 CATTTTT
1 CATTTTT
32614715 -ACTTTTT
1 CA-TTTTT
32614722 CA-TTTT
1 CATTTTT
32614728 CATTTTT
1 CATTTTT
32614735 CA-TTTT
1 CATTTTT
32614741 CATTTTT
1 CATTTTT
*
32614748 CACTTTT
1 CATTTTT
32614755 CA
1 CA
32614757 CCCCCTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
6 13 0.35
7 23 0.62
8 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (7 bp):
CATTTTT
Found at i:32614733 original size:13 final size:13
Alignment explanation
Indices: 32614717--32614756 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
32614707 CCATTTTTAC
32614717 TTTTTCATTTTCA
1 TTTTTCATTTTCA
32614730 TTTTTCATTTTCA
1 TTTTTCATTTTCA
32614743 TTTTTCACTTTTCA
1 TTTTTCA-TTTTCA
32614757 CCCCCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:32614747 original size:20 final size:19
Alignment explanation
Indices: 32614708--32614756 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
32614698 TTAGCCTCTC
*
32614708 CATTTTTACTTTTTCATTTT
1 CATTTTT-CATTTTCATTTT
32614728 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTCA-TTTT
*
32614748 CACTTTTCA
1 CATTTTTCA
32614757 CCCCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (19 bp):
CATTTTTCATTTTCATTTT
Found at i:32615614 original size:13 final size:13
Alignment explanation
Indices: 32615591--32615624 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
32615581 TGGTCTCTCC
32615591 TTTTC-TTTTCTT
1 TTTTCTTTTTCTT
32615603 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
*
32615616 CTTTCTTTT
1 TTTTCTTTT
32615625 AATTTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:32615665 original size:11 final size:10
Alignment explanation
Indices: 32615645--32615677 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
32615635 TTGACTTTGA
32615645 TTTTGATTTT
1 TTTTGATTTT
32615655 TTTTAGATTTT
1 TTTT-GATTTT
32615666 TTTTG-TTTT
1 TTTTGATTTT
32615675 TTT
1 TTT
32615678 GAATCTACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.32
10 5 0.23
11 10 0.45
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (10 bp):
TTTTGATTTT
Found at i:32622545 original size:27 final size:27
Alignment explanation
Indices: 32622108--32622553 Score: 537
Period size: 27 Copynumber: 16.6 Consensus size: 27
32622098 AGGCCTTATA
* *
32622108 GGTAAAATTATCAAAATACCCTCGAAG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
32622135 GGTAAAATTATTGAAATACCCTCGAAG
1 GGTAAAATTATCGAAATACCCTCGATG
** *
32622162 GGTAAAATTA-CTGAAATACCCTTAAAG
1 GGTAAAATTATC-GAAATACCCTCGATG
* *
32622189 GGTAAAATTACCGAAATACCCTCTATG
1 GGTAAAATTATCGAAATACCCTCGATG
*
32622216 AGTAAAATTA-CTGAAATACCCTCGATG
1 GGTAAAATTATC-GAAATACCCTCGATG
*
32622243 GGTAAAATTA-CGAAATACTCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
*
32622269 GGTAAAATTATCGAAATACCTTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
32622296 GGTAAAATTATCGAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
32622323 GGTAAAATTATCGAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
32622350 GGTAAAATTA-CTGAAATACCCCCAATG
1 GGTAAAATTATC-GAAATACCCTCGATG
* * *
32622377 GATAAAATTA-CTGAAATACCCCCGATA
1 GGTAAAATTATC-GAAATACCCTCGATG
*
32622404 GGTAAAATTATCAAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
32622431 GATAAAATTATCGAAATACCCTCGATA
1 GGTAAAATTATCGAAATACCCTCGATG
* * *
32622458 GGTAAAATTATCGAAATATCGTCAATG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
32622485 GGTAAAATTATCGAAATACCCCCGAAG
1 GGTAAAATTATCGAAATACCCTCGATG
*
32622512 GGTAAAATTA-CTAAAATACCC-CTGATG
1 GGTAAAATTATC-GAAATACCCTC-GATG
* *
32622539 GGCAAAATTACCGAA
1 GGTAAAATTATCGAA
32622554 GTGTCCCTGT
Statistics
Matches: 369, Mismatches: 41, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
26 28 0.08
27 338 0.92
28 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
GGTAAAATTATCGAAATACCCTCGATG
Found at i:32622807 original size:24 final size:24
Alignment explanation
Indices: 32622754--32622800 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
32622744 TTATGTTATG
*
32622754 TATGACTGATTTTTCTATGATTTT
1 TATGACTGATTTGTCTATGATTTT
*
32622778 TATGACTGATTTGTCTGTGATTT
1 TATGACTGATTTGTCTATGATTT
32622801 GTTTGACCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.09, G:0.17, T:0.55
Consensus pattern (24 bp):
TATGACTGATTTGTCTATGATTTT
Found at i:32622970 original size:26 final size:26
Alignment explanation
Indices: 32622928--32622981 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
32622918 TTGGCCACAT
* *
32622928 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGTTACTGACAGCTTTGCTGCG
*
32622954 ATACTGTTGCTGACAGCTTTGCTGCG
1 ATACTGTTACTGACAGCTTTGCTGCG
32622980 AT
1 AT
32622982 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGACAGCTTTGCTGCG
Found at i:32623025 original size:32 final size:32
Alignment explanation
Indices: 32622983--32623075 Score: 123
Period size: 32 Copynumber: 2.9 Consensus size: 32
32622973 TGCTGCGATG
* * *
32622983 CTACTGATGGCTTTGTGCCGATCATGTTACCG
1 CTACTGATGGCTTTGTGCCAATCATATTACCA
* * * *
32623015 TTACTGATGGCTGTGTTCCAATCATATTACTA
1 CTACTGATGGCTTTGTGCCAATCATATTACCA
32623047 CTACTGATGGCTTTGTGCCAATCATATTA
1 CTACTGATGGCTTTGTGCCAATCATATTA
32623076 ATGTACTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (32 bp):
CTACTGATGGCTTTGTGCCAATCATATTACCA
Found at i:32623097 original size:31 final size:32
Alignment explanation
Indices: 32623016--32623097 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
32623006 ATGTTACCGT
*
32623016 TACTGATGGCTGTGTT-CCAATCATATTACTAC
1 TACTGATGGCT-TGTTGCCAATCATATTAATAC
*
32623048 TACTGATGGCTT-TGTGCCAATCATATTAAT-G
1 TACTGATGGCTTGT-TGCCAATCATATTAATAC
*
32623079 TACTTATGGCTTGTTGCCA
1 TACTGATGGCTTGTTGCCA
32623098 TTTTGTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 1 0.02
31 18 0.41
32 25 0.57
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTGTTGCCAATCATATTAATAC
Found at i:32627869 original size:7 final size:8
Alignment explanation
Indices: 32627853--32627887 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
32627843 CATAATAATA
32627853 TTTAATTT
1 TTTAATTT
32627861 TTTAATTT
1 TTTAATTT
32627869 TTTAATTT
1 TTTAATTT
32627877 TTTAATTT
1 TTTAATTT
32627885 TTT
1 TTT
32627888 TTACAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTAATTT
Found at i:32628771 original size:14 final size:17
Alignment explanation
Indices: 32628744--32628779 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
32628734 ATGTTTGGGC
32628744 AAAAATATAGGCTTGA-
1 AAAAATATAGGCTTGAG
32628760 AAAAAT-TA-GCTTGAG
1 AAAAATATAGGCTTGAG
32628775 AAAAA
1 AAAAA
32628780 AATAAGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.22
Consensus pattern (17 bp):
AAAAATATAGGCTTGAG
Found at i:32632531 original size:20 final size:20
Alignment explanation
Indices: 32632492--32632531 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32632482 TTATTCCTCA
*
32632492 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
32632512 AAAC-TTTTATTTCTCACCCT
1 AAACTTTTTATTT-TCACCCT
32632532 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:32638968 original size:54 final size:54
Alignment explanation
Indices: 32638841--32638968 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
32638831 AATATATTTT
32638841 ATTAAAAATAATAATAA-ATAATTTAATCATATTTTAACATAATTATTAAATACA
1 ATTAAAAA-AATAATAATATAATTTAATCATATTTTAACATAATTATTAAATACA
* * * *
32638895 ATTTAATAAAATAAT-ATATAATTTAA-CAATATTCTTAATATAATTATTATAT-GA
1 A-TTAAAAAAATAATAATATAATTTAATC-ATATT-TTAACATAATTATTAAATACA
*
32638949 ATTAAAAAAATCATAATATA
1 ATTAAAAAAATAATAATATA
32638969 TAATATTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
53 13 0.21
54 28 0.44
55 22 0.35
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (54 bp):
ATTAAAAAAATAATAATATAATTTAATCATATTTTAACATAATTATTAAATACA
Found at i:32639613 original size:245 final size:245
Alignment explanation
Indices: 32639183--32639672 Score: 953
Period size: 245 Copynumber: 2.0 Consensus size: 245
32639173 TTAGCTTATA
*
32639183 TATCATAATCCATATGTTAAATTTTACAACATCAAAAACTTGCAACATTTTAATGACATTCTATC
1 TATCATAATCCATATGTTAAATTTTACAACATCAAAAACTTACAACATTTTAATGACATTCTATC
32639248 ATGTCATTATACCATCCAAATATTACAAACACAAAAAGTTACCGAAATACCATCAACACAACCAT
66 ATGTCATTATACCATCCAAATATTACAAACACAAAAAGTTACCGAAATACCATCAACACAACCAT
*
32639313 GATTTTTAATGGTCAGCAAGAAATCTTTTGACCCATTCCAATCACACAGAAGAAGGTAAACTAAA
131 GATTCTTAATGGTCAGCAAGAAATCTTTTGACCCATTCCAATCACACAGAAGAAGGTAAACTAAA
32639378 GAAAATGAACATTTGCGTTGGATGGTCTGGAATTTTGCTCAACTTGCGAT
196 GAAAATGAACATTTGCGTTGGATGGTCTGGAATTTTGCTCAACTTGCGAT
*
32639428 TATCATAATCCATATGTTAAATTTTACAACATCAAAAAGTTACAACATTTTAATGACATTCTATC
1 TATCATAATCCATATGTTAAATTTTACAACATCAAAAACTTACAACATTTTAATGACATTCTATC
32639493 ATGTCATTATACCATCCAAATATTACAAACACAAAAAGTTACCGAAATACCATCAACACAACCAT
66 ATGTCATTATACCATCCAAATATTACAAACACAAAAAGTTACCGAAATACCATCAACACAACCAT
32639558 GATTCTTAATGGTCAGCAAGAAATCTTTTGACCCATTCCAATCACACAGAAGAAGGTAAACTAAA
131 GATTCTTAATGGTCAGCAAGAAATCTTTTGACCCATTCCAATCACACAGAAGAAGGTAAACTAAA
32639623 GAAAATGAACATTTGCGTTGGATGGTCTGGAATTTTGCTCAACTTGCGAT
196 GAAAATGAACATTTGCGTTGGATGGTCTGGAATTTTGCTCAACTTGCGAT
32639673 AGCGCTCATC
Statistics
Matches: 242, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
245 242 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (245 bp):
TATCATAATCCATATGTTAAATTTTACAACATCAAAAACTTACAACATTTTAATGACATTCTATC
ATGTCATTATACCATCCAAATATTACAAACACAAAAAGTTACCGAAATACCATCAACACAACCAT
GATTCTTAATGGTCAGCAAGAAATCTTTTGACCCATTCCAATCACACAGAAGAAGGTAAACTAAA
GAAAATGAACATTTGCGTTGGATGGTCTGGAATTTTGCTCAACTTGCGAT
Found at i:32648902 original size:6 final size:6
Alignment explanation
Indices: 32648891--32648916 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32648881 AGGCCCTAAT
32648891 TGAAAC TGAAAC TGAAAC TGAAAC TG
1 TGAAAC TGAAAC TGAAAC TGAAAC TG
32648917 TTACCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAC
Found at i:32649134 original size:16 final size:17
Alignment explanation
Indices: 32649103--32649135 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
32649093 CTGTTTCGTA
*
32649103 TTTAATAAGGTTTATTT
1 TTTAATAAGCTTTATTT
32649120 TTTAA-AAGCTTTATTT
1 TTTAATAAGCTTTATTT
32649136 AATGTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTAATAAGCTTTATTT
Found at i:32651280 original size:40 final size:39
Alignment explanation
Indices: 32651196--32651439 Score: 264
Period size: 40 Copynumber: 6.1 Consensus size: 39
32651186 TTGAATGATG
* * *
32651196 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
* *
32651236 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAA
32651276 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
*
32651315 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-AA
*
32651356 T-CGGGCTAAGTCCCGAAGGCATTTGTTCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-AA
* ** *
32651396 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAA
32651435 TCCGG
1 TCCGG
32651440 TTAAATTCCG
Statistics
Matches: 178, Mismatches: 16, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
39 38 0.21
40 128 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:32651442 original size:119 final size:119
Alignment explanation
Indices: 32651196--32651453 Score: 287
Period size: 119 Copynumber: 2.2 Consensus size: 119
32651186 TTGAATGATG
* *
32651196 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTAACCATATCCGGACTAAGATCCGAAGGCATTT
* **
32651261 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * *
32651315 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTAACTATAAT-CGGGCTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTAACCAT-ATCCGGACTAAGAT-CCGAAGGCA
* * *
32651377 TTTGTTCGAG-TCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
63 TTTGTGCGAGAT-ACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
32651435 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32651454 TACGTGATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
118 4 0.03
119 81 0.68
120 34 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTAACCATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:32655625 original size:15 final size:17
Alignment explanation
Indices: 32655593--32655625 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
32655583 TAGGGTGCTT
32655593 ATTGGATAAAAGACCAA
1 ATTGGATAAAAGACCAA
32655610 ATTGG-TAAAA-ACCAA
1 ATTGGATAAAAGACCAA
32655625 A
1 A
32655626 GTTGAGGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
ATTGGATAAAAGACCAA
Found at i:32663753 original size:49 final size:49
Alignment explanation
Indices: 32663583--32663768 Score: 160
Period size: 50 Copynumber: 3.8 Consensus size: 49
32663573 GGGGATGAGA
* * * ** * * **
32663583 TCCCATGTAAGACCATTTCTGGGACATGGCGTTGGTGCTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCAC-GACAGGAGAAC
** * * *
32663633 TCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CGACAGGAGAAC
* * *
32663683 TCCCTTGTAAGACCATATCTGGGATATGACATTGGCA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACG-ACAGGAGAAC
*
32663731 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
32663769 TGTTATTATC
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 4 0.04
49 37 0.33
50 69 0.62
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGACAGGAGAAC
Found at i:32667547 original size:21 final size:20
Alignment explanation
Indices: 32667509--32667547 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
32667499 ATAAATATAA
* *
32667509 CACTTGTTATTCTCTCAATC
1 CACTTGTAATTCTATCAATC
32667529 CACTTGTGAATTCTATCAA
1 CACTTGT-AATTCTATCAA
32667548 ATAATTACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.41
Consensus pattern (20 bp):
CACTTGTAATTCTATCAATC
Found at i:32669619 original size:11 final size:11
Alignment explanation
Indices: 32669603--32669628 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32669593 AATATCATTT
32669603 ATCAATTACAA
1 ATCAATTACAA
32669614 ATCAATTACAA
1 ATCAATTACAA
32669625 ATCA
1 ATCA
32669629 TTTATCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCAATTACAA
Found at i:32670073 original size:14 final size:15
Alignment explanation
Indices: 32670027--32670073 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
32670017 TATACAACAT
32670027 ATATCAACTCAATTTC
1 ATATCAACT-AATTTC
**
32670043 ATATCAACT-ATCAC
1 ATATCAACTAATTTC
32670057 ATATCAA-TAATTTC
1 ATATCAACTAATTTC
32670071 ATA
1 ATA
32670074 CAATTTTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 1 0.04
14 16 0.62
16 9 0.35
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATCAACTAATTTC
Found at i:32673019 original size:23 final size:23
Alignment explanation
Indices: 32672978--32673021 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
32672968 GGAACTTTTA
* *
32672978 ATCGGGAAGCTCGCGAAGAGCTT
1 ATCGGGAAGCTCACAAAGAGCTT
*
32673001 ATCGGGAAGCTCATAAAGAGC
1 ATCGGGAAGCTCACAAAGAGC
32673022 CATGTAACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (23 bp):
ATCGGGAAGCTCACAAAGAGCTT
Found at i:32673107 original size:27 final size:25
Alignment explanation
Indices: 32673076--32673149 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
32673066 GCGAGCACTA
*
32673076 TCAGGAAGCTCACAAAGAGCCAATT
1 TCAGGAAGCTCACGAAGAGCCAATT
32673101 TAACAGGAAGCTCACGAAGAGCCTAATT
1 T--CAGGAAGCTCACGAAGAGCC-AATT
*
32673129 T-GGGAAGCTCACGAAGAGCCA
1 TCAGGAAGCTCACGAAGAGCCA
32673150 TATAACGGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 1 0.02
25 19 0.43
27 19 0.43
28 5 0.11
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (25 bp):
TCAGGAAGCTCACGAAGAGCCAATT
Found at i:32675083 original size:9 final size:9
Alignment explanation
Indices: 32675069--32675099 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32675059 GTTAAACGAA
32675069 TCGAGTTAT
1 TCGAGTTAT
*
32675078 TCGAGTTAA
1 TCGAGTTAT
32675087 TCGAGTTAT
1 TCGAGTTAT
32675096 TCGA
1 TCGA
32675100 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32675178 original size:9 final size:9
Alignment explanation
Indices: 32675151--32675187 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32675141 TGAGTTTTCG
32675151 AATTCGAAT
1 AATTCGAAT
* *
32675160 AACTCAAAT
1 AATTCGAAT
32675169 AATTCGAAT
1 AATTCGAAT
32675178 AATTCGAAT
1 AATTCGAAT
32675187 A
1 A
32675188 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32675326 original size:29 final size:29
Alignment explanation
Indices: 32675247--32675318 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
32675237 CTTTTCCCTA
32675247 AAAACTTTTACTCCTTCCCACTTTCCCCC
1 AAAACTTTTACTCCTTCCCACTTTCCCCC
32675276 AAAACTTTTACTCCTTCCCACTTTCCCCC
1 AAAACTTTTACTCCTTCCCACTTTCCCCC
32675305 AAAACTTTTACTCC
1 AAAACTTTTACTCC
32675319 CCTCCACTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAACTTTTACTCCTTCCCACTTTCCCCC
Found at i:32675415 original size:31 final size:30
Alignment explanation
Indices: 32675363--32675439 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
32675353 CATTTCCCAC
* **
32675363 CAAAATTTTACTCTCCTATTTACTTTTTCT
1 CAAAATTTTACTCCCCTATTTACTTTCCCT
32675393 CAAAATTTTACTACCCCTATTTACTTTCCCT
1 CAAAATTTTACT-CCCCTATTTACTTTCCCT
* *
32675424 CAAACTTTTATTCCCC
1 CAAAATTTTACTCCCC
32675440 AAAACTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 16 0.39
31 25 0.61
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (30 bp):
CAAAATTTTACTCCCCTATTTACTTTCCCT
Found at i:32676102 original size:5 final size:5
Alignment explanation
Indices: 32676092--32676123 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
32676082 GAAATTTTTT
32676092 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
32676124 CGAATGCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:32692383 original size:40 final size:39
Alignment explanation
Indices: 32692299--32692454 Score: 179
Period size: 40 Copynumber: 3.9 Consensus size: 39
32692289 TTGAATGATG
* * * *
32692299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
32692339 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
32692379 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32692418 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
32692455 GTAGAAGTGG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.35
40 56 0.57
41 8 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32692435 original size:79 final size:80
Alignment explanation
Indices: 32692299--32692454 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 80
32692289 TTGAATGATG
* *
32692299 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
32692364 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
32692379 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
32692441 TTGTGCGAGTTACT
64 TTGTGCGAGATACT
32692455 GTAGAAGTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.02
79 47 0.71
80 18 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAAT
Found at i:32694604 original size:288 final size:288
Alignment explanation
Indices: 32694082--32694661 Score: 1070
Period size: 288 Copynumber: 2.0 Consensus size: 288
32694072 ACCAAAGGGC
* *
32694082 TACTGCAGTACCAATCAAAAAAACGGTTGTCGCTACTGGACGACGAAATGGATTTTGGAATTTAT
1 TACTGCAGTACCAATCAAAAAAACGATTGTCGCTACTGGACGACGAAATGGATTTTAGAATTTAT
*
32694147 TAACATTTTCCAAAAACGGTACTGTTAATAATCCCGCGGGTACTGAAACCATTAAAAGAACACCC
66 TAACATTTTCCAAAAACGGTACTGTTAATAATCCCGCGGGTACTAAAACCATTAAAAGAACACCC
*
32694212 AATAACTTGTTAGGTACTGTACGAAGTATTTGAAATACAGGAAAGAAATACCATTCAGGTAATAT
131 AATAACTTGTTAGGTACTGTACCAAGTATTTGAAATACAGGAAAGAAATACCATTCAGGTAATAT
*
32694277 TTCCAAAGGAGTTGCAAATGGATCCGCGGGTTCACCAATCATTGAAGGTTCTAGAACCGCTAAGC
196 TTCCAAAGGAGTTCCAAATGGATCCGCGGGTTCACCAATCATTGAAGGTTCTAGAACCGCTAAGC
32694342 CCACGTTACAAGCAATAGTACCGAGAAT
261 CCACGTTACAAGCAATAGTACCGAGAAT
* *
32694370 TACTGTAGTACCAATCAAAAAAACGATTGTCGCTACTGGACGACGAAATGGATTTTAGAGTTTAT
1 TACTGCAGTACCAATCAAAAAAACGATTGTCGCTACTGGACGACGAAATGGATTTTAGAATTTAT
*
32694435 TAACATTTTCCAAAAATGGTACTGTTAATAATCCCGCGGGTACTAAAACCATTAAAAGAACACCC
66 TAACATTTTCCAAAAACGGTACTGTTAATAATCCCGCGGGTACTAAAACCATTAAAAGAACACCC
*
32694500 AATAACTTGTTAGGTACTGTACCAAGTATTTGAAATATAGGAAAGAAATACCATTCAGGTAATAT
131 AATAACTTGTTAGGTACTGTACCAAGTATTTGAAATACAGGAAAGAAATACCATTCAGGTAATAT
*
32694565 TTCCAAAGGAGTTCCAAATGGATCCGTGGGTTCACCAATCATTGAAGGTTCTAGAACCGCTAAGC
196 TTCCAAAGGAGTTCCAAATGGATCCGCGGGTTCACCAATCATTGAAGGTTCTAGAACCGCTAAGC
32694630 CCACGTTACAAGCAATAGTACCGAGAAT
261 CCACGTTACAAGCAATAGTACCGAGAAT
32694658 TACT
1 TACT
32694662 ACTGGAAAAA
Statistics
Matches: 282, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
288 282 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (288 bp):
TACTGCAGTACCAATCAAAAAAACGATTGTCGCTACTGGACGACGAAATGGATTTTAGAATTTAT
TAACATTTTCCAAAAACGGTACTGTTAATAATCCCGCGGGTACTAAAACCATTAAAAGAACACCC
AATAACTTGTTAGGTACTGTACCAAGTATTTGAAATACAGGAAAGAAATACCATTCAGGTAATAT
TTCCAAAGGAGTTCCAAATGGATCCGCGGGTTCACCAATCATTGAAGGTTCTAGAACCGCTAAGC
CCACGTTACAAGCAATAGTACCGAGAAT
Found at i:32700997 original size:8 final size:8
Alignment explanation
Indices: 32700984--32701009 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32700974 AATCCACTTG
32700984 TTTAGTTC
1 TTTAGTTC
32700992 TTTAGTTC
1 TTTAGTTC
32701000 TTTAGTTC
1 TTTAGTTC
32701008 TT
1 TT
32701010 AAGGAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:32704014 original size:14 final size:14
Alignment explanation
Indices: 32703995--32704023 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32703985 TACAATATAT
32703995 ATAAGAATTATACG
1 ATAAGAATTATACG
32704009 ATAAGAATTATACG
1 ATAAGAATTATACG
32704023 A
1 A
32704024 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:32705194 original size:16 final size:16
Alignment explanation
Indices: 32705173--32705205 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32705163 TCTTATTCCT
*
32705173 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
32705189 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
32705205 T
1 T
32705206 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:32711313 original size:36 final size:36
Alignment explanation
Indices: 32711261--32711330 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
32711251 ACAAAATAAG
* *
32711261 TTATTAGGATAAAATAGTAGAATTAGCAAAAAAAAA
1 TTATCAGGATAAAATAGTAGAATCAGCAAAAAAAAA
32711297 TTATCAGGATAAAATAGTAGAATCAGCAAAAAAA
1 TTATCAGGATAAAATAGTAGAATCAGCAAAAAAA
32711331 TTTTGGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (36 bp):
TTATCAGGATAAAATAGTAGAATCAGCAAAAAAAAA
Found at i:32711329 original size:19 final size:19
Alignment explanation
Indices: 32711271--32711329 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
32711261 TTATTAGGAT
*
32711271 AAAATAGTAGAATTAGCAA
1 AAAATAGTAGAATCAGCAA
* ** * *
32711290 AAAA-A-AATTATCAGGAT
1 AAAATAGTAGAATCAGCAA
32711307 AAAATAGTAGAATCAGCAA
1 AAAATAGTAGAATCAGCAA
32711326 AAAA
1 AAAA
32711330 ATTTTGGCAA
Statistics
Matches: 27, Mismatches: 11, Indels: 4
0.64 0.26 0.10
Matches are distributed among these distances:
17 10 0.37
18 2 0.07
19 15 0.56
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.19
Consensus pattern (19 bp):
AAAATAGTAGAATCAGCAA
Found at i:32714033 original size:20 final size:19
Alignment explanation
Indices: 32714003--32714172 Score: 75
Period size: 19 Copynumber: 9.2 Consensus size: 19
32713993 GATGTTAGAA
32714003 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
32714023 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
32714041 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
32714059 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
*
32714079 TATCTATT-TCTTATAATATAT
1 TAT-TATTCTATTAT-ATAT-T
*
32714100 T-TTATT-TATAATATATT
1 TATTATTCTATTATATATT
* * *
32714117 ATAATATTAT-TTTTATA-T
1 -TATTATTCTATTATATATT
32714135 TATT-TT-TA-TAT-TATT
1 TATTATTCTATTATATATT
32714150 TATCTATTTCTATT-T-TATT
1 TAT-TA-TTCTATTATATATT
32714169 TATT
1 TATT
32714173 TCATTTGCAT
Statistics
Matches: 120, Mismatches: 9, Indels: 44
0.69 0.05 0.25
Matches are distributed among these distances:
14 2 0.02
15 7 0.06
16 16 0.13
17 4 0.03
18 14 0.12
19 36 0.30
20 33 0.28
21 8 0.07
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:32714048 original size:16 final size:17
Alignment explanation
Indices: 32714008--32714057 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
32713998 TAGAATATTA
32714008 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
32714028 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
32714044 ATTCTAATATATAT
1 ATTCTATTATATAT
32714058 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:32714114 original size:60 final size:56
Alignment explanation
Indices: 32714014--32714139 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 56
32714004 ATTAATTCTA
* * *
32714014 TTATA-TATTTATCTATTCTATTATATATATATTCTAATATA-TATTAGTATTATTT
1 TTATATTATTTATCTATTCTATAATATATATATTATAATATATTA-TAATATTATTT
*
32714069 TTATATTATTTATCTATTTCTTATAATATATTTTATTTATAATATATTATAATATTATTT
1 TTATATTATTTATCTA-TTC-TATAATATA-TATA-TTATAATATATTATAATATTATTT
32714129 TTATATTATTT
1 TTATATTATTT
32714140 TTATATTATT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
55 5 0.08
56 10 0.16
57 3 0.05
58 8 0.13
59 3 0.05
60 30 0.49
61 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (56 bp):
TTATATTATTTATCTATTCTATAATATATATATTATAATATATTATAATATTATTT
Found at i:32714157 original size:11 final size:11
Alignment explanation
Indices: 32714061--32714150 Score: 67
Period size: 11 Copynumber: 7.7 Consensus size: 11
32714051 TATATATTAG
32714061 TATTATTTTTA
1 TATTATTTTTA
32714072 TATTATTTATCTA
1 TATTATTT-T-TA
* *
32714085 T-TTCTTATAATA
1 TATTATT-T-TTA
32714097 TATT-TTATTTA
1 TATTATT-TTTA
* *
32714108 TAATATATTATAA
1 T-AT-TATTTTTA
32714121 TATTATTTTTA
1 TATTATTTTTA
32714132 TATTATTTTTA
1 TATTATTTTTA
32714143 TATTATTT
1 TATTATTT
32714151 ATCTATTTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
11 36 0.55
12 16 0.25
13 11 0.17
14 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:32718092 original size:27 final size:27
Alignment explanation
Indices: 32718062--32718116 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
32718052 GTCTTAAGTG
*
32718062 AAATTTTTTTATTTGTAGTGAAATGGT
1 AAATTTTTTTATTTGTAGTGAAAAGGT
32718089 AAATTTTTTTATTTGTAGTGAAAAGGT
1 AAATTTTTTTATTTGTAGTGAAAAGGT
32718116 A
1 A
32718117 GTTAGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (27 bp):
AAATTTTTTTATTTGTAGTGAAAAGGT
Found at i:32718722 original size:17 final size:17
Alignment explanation
Indices: 32718700--32718733 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32718690 ATAGATTCGC
*
32718700 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
32718717 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
32718734 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:32728426 original size:20 final size:21
Alignment explanation
Indices: 32728360--32728428 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
32728350 TCACTTCGTT
32728360 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
32728381 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
32728402 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
32728423 -CTTTTT
1 TCTTTTT
32728429 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:32730863 original size:12 final size:12
Alignment explanation
Indices: 32730846--32730870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32730836 TAGAGGCTAT
32730846 TAACAATATTTA
1 TAACAATATTTA
32730858 TAACAATATTTA
1 TAACAATATTTA
32730870 T
1 T
32730871 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:32732528 original size:21 final size:20
Alignment explanation
Indices: 32732502--32732559 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
32732492 AATGGTCTAC
*
32732502 CCACACGGTCGTGTACCTCAG
1 CCACACGGCCGTGTACC-CAG
* * *
32732523 CCACACGGGCGTCT-TCCAG
1 CCACACGGCCGTGTACCCAG
32732542 CCACACGGCCGTGTACCC
1 CCACACGGCCGTGTACCC
32732560 CTGTCACAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 15 0.50
20 3 0.10
21 12 0.40
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (20 bp):
CCACACGGCCGTGTACCCAG
Found at i:32737858 original size:25 final size:24
Alignment explanation
Indices: 32737830--32737928 Score: 98
Period size: 24 Copynumber: 4.2 Consensus size: 24
32737820 ATAAGCAAAC
*
32737830 TCAATCTATTTAATACACATACTAT
1 TCAATCTATTTAA-AAACATACTAT
* * ** *
32737855 TCAATTTA-GTCCAAA-ATTC-AT
1 TCAATCTATTTAAAAACATACTAT
32737876 -CAATCTATTTAATAAACATACTAT
1 TCAATCTATTTAA-AAACATACTAT
32737900 TCAATCTATTTAAAAACATACTAT
1 TCAATCTATTTAAAAACATACTAT
32737924 TCAAT
1 TCAAT
32737929 TTAGTCCAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
20 6 0.10
21 3 0.05
22 6 0.10
23 5 0.09
24 19 0.33
25 19 0.33
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (24 bp):
TCAATCTATTTAAAAACATACTAT
Found at i:32737918 original size:24 final size:25
Alignment explanation
Indices: 32737830--32737928 Score: 102
Period size: 25 Copynumber: 4.2 Consensus size: 25
32737820 ATAAGCAAAC
*
32737830 TCAATCTATTTAATACACATACTAT
1 TCAATCTATTTAATAAACATACTAT
* * ** *
32737855 TCAATTTA-GT-CCAAA-ATTC-A-
1 TCAATCTATTTAATAAACATACTAT
32737875 TCAATCTATTTAATAAACATACTAT
1 TCAATCTATTTAATAAACATACTAT
32737900 TCAATCTATTTAA-AAACATACTAT
1 TCAATCTATTTAATAAACATACTAT
32737924 TCAAT
1 TCAAT
32737929 TTAGTCCAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
20 7 0.12
21 2 0.03
22 6 0.10
23 5 0.09
24 18 0.31
25 20 0.34
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (25 bp):
TCAATCTATTTAATAAACATACTAT
Done.