Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 274 of 290
Found at i:94571785 original size:39 final size:39
Alignment explanation
Indices: 94571755--94571906 Score: 286
Period size: 39 Copynumber: 3.9 Consensus size: 39
94571745 GACATATTTT
* *
94571755 CAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
94571794 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
94571833 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
94571872 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
94571907 CATCACTGAA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (39 bp):
CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
Found at i:94578336 original size:28 final size:27
Alignment explanation
Indices: 94578300--94578353 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
94578290 TTTTTTATAA
*
94578300 TTAT-TTTTTCATTTTTATAAAGTTTTTT
1 TTATATTTTGCATTTTTA-AAA-TTTTTT
*
94578328 TTATATTTTGGATTTTTAAAATTTTT
1 TTATATTTTGCATTTTTAAAATTTTT
94578354 AAATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 7 0.30
29 11 0.48
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (27 bp):
TTATATTTTGCATTTTTAAAATTTTTT
Found at i:94579037 original size:13 final size:14
Alignment explanation
Indices: 94579008--94579037 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94578998 TTGAGCTAAA
*
94579008 TTTTAGCATTAATT
1 TTTTAACATTAATT
94579022 TTTTAACATTAATT
1 TTTTAACATTAATT
94579036 TT
1 TT
94579038 CCAAGTTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTAACATTAATT
Found at i:94579203 original size:15 final size:15
Alignment explanation
Indices: 94579183--94579232 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
94579173 TATTTTAAGA
94579183 TATATTTTAATCATT
1 TATATTTTAATCATT
*
94579198 TATA-TTTAA-AATAT
1 TATATTTTAATCAT-T
* *
94579212 TATGTTTTAGTCATT
1 TATATTTTAATCATT
94579227 TATATT
1 TATATT
94579233 ATTATGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 14 0.52
16 2 0.07
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (15 bp):
TATATTTTAATCATT
Found at i:94580383 original size:18 final size:19
Alignment explanation
Indices: 94580350--94580385 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
94580340 CTTTCATTTT
94580350 TTTTAAAAACATAAAAAAA
1 TTTTAAAAACATAAAAAAA
*
94580369 TTTTAACAA-ATAAAAAA
1 TTTTAAAAACATAAAAAA
94580386 CGTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
TTTTAAAAACATAAAAAAA
Found at i:94581762 original size:21 final size:18
Alignment explanation
Indices: 94581738--94581783 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
94581728 ATACCTATCC
94581738 TGATCCCTGCTCCTACGATCA
1 TGATCCCT-C-CCT-CGATCA
94581759 TGATCCCTCCCTCGATCA
1 TGATCCCTCCCTCGATCA
*
94581777 CGATCCC
1 TGATCCC
94581784 GACTGGGCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 3 0.12
20 1 0.04
21 8 0.33
ACGTcount: A:0.17, C:0.43, G:0.13, T:0.26
Consensus pattern (18 bp):
TGATCCCTCCCTCGATCA
Found at i:94585505 original size:13 final size:13
Alignment explanation
Indices: 94585487--94585550 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
94585477 AGTTTGGCAA
94585487 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
94585500 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
94585513 TAC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
94585526 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
94585539 TACTTTTGAAAA
1 TGCTTTTGAAAA
94585551 ATTTGATTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:94585530 original size:26 final size:27
Alignment explanation
Indices: 94585495--94585551 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
94585485 AATGCTTTTG
94585495 AAAAGTGCTTTTGAAAAGTAC-TGTGA
1 AAAAGTGCTTTTGAAAAGTACTTGTGA
* *
94585521 AAAAGTGCTTTTGAGAAGTACTTTTGA
1 AAAAGTGCTTTTGAAAAGTACTTGTGA
94585548 AAAA
1 AAAA
94585552 TTTGATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAAGTGCTTTTGAAAAGTACTTGTGA
Found at i:94585826 original size:20 final size:21
Alignment explanation
Indices: 94585798--94585848 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
94585788 GTAAAATTTA
94585798 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATATAAA-TATAATT
*
94585820 -TTAAATATTTAAATATAATT
1 ATTAAATATATAAATATAATT
94585840 ATTAAATAT
1 ATTAAATAT
94585849 TTGTAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATATAAATATAATT
Found at i:94585846 original size:21 final size:21
Alignment explanation
Indices: 94585798--94585850 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
94585788 GTAAAATTTA
*
94585798 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
94585820 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
94585840 ATTAAATATTT
1 ATTAAATATTT
94585851 GTAATTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:94588919 original size:28 final size:28
Alignment explanation
Indices: 94588888--94588943 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
94588878 TCATACTAAT
94588888 TTTTTGATT-TTTTATGAACTTTTTATAA
1 TTTTT-ATTATTTTATGAACTTTTTATAA
* * *
94588916 TTTTTTTTATTTTTTGAATTTTTTATAA
1 TTTTTATTATTTTATGAACTTTTTATAA
94588944 ATATTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (28 bp):
TTTTTATTATTTTATGAACTTTTTATAA
Found at i:94589908 original size:21 final size:21
Alignment explanation
Indices: 94589884--94589955 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
94589874 TATAATGAAA
94589884 TATTAACTTATTTGATAGGAG
1 TATTAACTTATTTGATAGGAG
* * *
94589905 TATTAAC--ATTGTAATCTATGAAA
1 TATTAACTTATT-TGA--TA-GGAG
94589928 TATTAACTTATTTGATAGGAG
1 TATTAACTTATTTGATAGGAG
94589949 TATTAAC
1 TATTAAC
94589956 ATTGTAATCT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 3 0.08
20 2 0.05
21 16 0.41
22 4 0.10
23 9 0.23
24 2 0.05
25 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TATTAACTTATTTGATAGGAG
Found at i:94589941 original size:44 final size:44
Alignment explanation
Indices: 94589878--94589967 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
94589868 ACTTGTTATA
94589878 ATGAAATATTAACTTATTTGATAGGAGTATTAACATTGTAATCT
1 ATGAAATATTAACTTATTTGATAGGAGTATTAACATTGTAATCT
94589922 ATGAAATATTAACTTATTTGATAGGAGTATTAACATTGTAATCT
1 ATGAAATATTAACTTATTTGATAGGAGTATTAACATTGTAATCT
94589966 AT
1 AT
94589968 CTTATAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (44 bp):
ATGAAATATTAACTTATTTGATAGGAGTATTAACATTGTAATCT
Found at i:94605825 original size:19 final size:19
Alignment explanation
Indices: 94605803--94605858 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
94605793 GACACAGGCG
94605803 TGTCAAGAGCACACGGGCT
1 TGTCAAGAGCACACGGGCT
94605822 TGTCAAGAGCACACGGGCT
1 TGTCAAGAGCACACGGGCT
94605841 TGTCAAGAGCACACGGGC
1 TGTCAAGAGCACACGGGC
94605859 GTGTGGCTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (19 bp):
TGTCAAGAGCACACGGGCT
Found at i:94607578 original size:30 final size:30
Alignment explanation
Indices: 94607543--94607618 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
94607533 ATTGTGAATC
94607543 ATATATCAATTTA-TAACATACTTATTTCTATT
1 ATAT-TCAATTTAGT-ACA-ACTTATTTCTATT
*
94607575 ATATTCAATTTAGTCCAACTTATTTCTATT
1 ATATTCAATTTAGTACAACTTATTTCTATT
94607605 ATATTCAATTTAGT
1 ATATTCAATTTAGT
94607619 CTAATTTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 27 0.64
31 10 0.24
32 5 0.12
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (30 bp):
ATATTCAATTTAGTACAACTTATTTCTATT
Found at i:94607619 original size:30 final size:30
Alignment explanation
Indices: 94607562--94607619 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
94607552 TTTATAACAT
94607562 ACTTATTTCTATTATATTCAATTTAGTCCA
1 ACTTATTTCTATTATATTCAATTTAGTCCA
94607592 ACTTATTTCTATTATATTCAATTTAGTC
1 ACTTATTTCTATTATATTCAATTTAGTC
94607620 TAATTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.52
Consensus pattern (30 bp):
ACTTATTTCTATTATATTCAATTTAGTCCA
Found at i:94613243 original size:15 final size:15
Alignment explanation
Indices: 94613223--94613257 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
94613213 CTAGATTACT
94613223 TCCTAAGGTCATCAA
1 TCCTAAGGTCATCAA
94613238 TCCTAAGGTCATCAA
1 TCCTAAGGTCATCAA
94613253 TCCTA
1 TCCTA
94613258 GGGTTTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (15 bp):
TCCTAAGGTCATCAA
Found at i:94620716 original size:28 final size:28
Alignment explanation
Indices: 94620680--94620754 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
94620670 TGTCCCCTTT
*
94620680 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
94620708 -GGCCCCAATCACATTCATATGGCCCATC
1 AGG-CCCAATCACATTCATATGGCCCATC
*
94620736 AGGCCTAATCACATTCATA
1 AGGCCCAATCACATTCATA
94620755 GTCATGCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.05
28 39 0.91
29 2 0.05
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:94628299 original size:28 final size:28
Alignment explanation
Indices: 94628258--94628326 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
94628248 TTTTAGGCCG
*
94628258 AATCTCATTCATATGGCCCATCAGCCCC
1 AATCACATTCATATGGCCCATCAGCCCC
* *
94628286 AATCACATTTATATGGCCCATCAGGCCC
1 AATCACATTCATATGGCCCATCAGCCCC
*
94628314 AATGACATTCATA
1 AATCACATTCATA
94628327 GTCATGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (28 bp):
AATCACATTCATATGGCCCATCAGCCCC
Found at i:94628566 original size:16 final size:16
Alignment explanation
Indices: 94628545--94628577 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
94628535 CAAACTTTTG
*
94628545 GCTTTTTGGTATTTCA
1 GCTTTTCGGTATTTCA
94628561 GCTTTTCGGTATTTCA
1 GCTTTTCGGTATTTCA
94628577 G
1 G
94628578 GATTTCGACA
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:0.12, C:0.15, G:0.21, T:0.52
Consensus pattern (16 bp):
GCTTTTCGGTATTTCA
Found at i:94634353 original size:80 final size:81
Alignment explanation
Indices: 94634218--94634398 Score: 260
Period size: 80 Copynumber: 2.3 Consensus size: 81
94634208 TGATGTCCGA
*
94634218 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGC
*
94634282 GAGTTACTA-AATCCGG
66 GAGTTACTATAA-CCGC
* * * *
94634298 GTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGC
*
94634362 GAGTTACTATGACCGC
66 GAGTTACTATAACCGC
*
94634378 GCTATGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
94634399 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 82 0.91
81 8 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGC
GAGTTACTATAACCGC
Found at i:94634371 original size:40 final size:40
Alignment explanation
Indices: 94634219--94634398 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
94634209 GATGTCCGAG
* * * *
94634219 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGA
*
94634259 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGA
*
94634299 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGA
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGA
*
94634339 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATGACCGCG-
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAACCG-GA
*
94634379 CTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
94634399 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
39 3 0.02
40 107 0.88
41 12 0.10
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGA
Found at i:94639526 original size:21 final size:20
Alignment explanation
Indices: 94639500--94639539 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
94639490 GTTATAATGA
*
94639500 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
94639521 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
94639540 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:94640729 original size:40 final size:43
Alignment explanation
Indices: 94640685--94640779 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 43
94640675 TACAAAACTT
* *
94640685 AGTGTGCGA-ATTGAAATAGCTTTT-GTTTTATGTG-G-CACTA
1 AGTGTGCGATACTGAAATAG-TTTTGGTTTAATGTGTGACACTA
*
94640725 AGTGTGCGATACTGAGATAGTTTTGGTTTAATGTGTTGACACTA
1 AGTGTGCGATACTGAAATAGTTTTGGTTTAATGTG-TGACACTA
94640769 AGTGTGCGATA
1 AGTGTGCGATA
94640780 TCATTATAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 13 0.28
41 17 0.36
43 1 0.02
44 16 0.34
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.38
Consensus pattern (43 bp):
AGTGTGCGATACTGAAATAGTTTTGGTTTAATGTGTGACACTA
Found at i:94641412 original size:23 final size:23
Alignment explanation
Indices: 94641386--94641429 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
94641376 AATGATTTGG
*
94641386 TTTGAGATGATGATAT-GATGAGT
1 TTTGAGAT-ATGAAATAGATGAGT
*
94641409 TTTGTGATATGAAATAGATGA
1 TTTGAGATATGAAATAGATGA
94641430 TATTATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (23 bp):
TTTGAGATATGAAATAGATGAGT
Found at i:94648494 original size:37 final size:37
Alignment explanation
Indices: 94648444--94648522 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
94648434 TTATTACGAA
* * *
94648444 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
94648481 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
94648518 GTCTT
1 GTCTT
94648523 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:94648768 original size:49 final size:49
Alignment explanation
Indices: 94648641--94649173 Score: 917
Period size: 49 Copynumber: 11.1 Consensus size: 49
94648631 CCCTTCGGGA
* * * * *
94648641 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
94648687 CTCTGTCAC--ATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94648735 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94648784 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94648833 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94648882 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94648931 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94648980 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94649029 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94649076 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94649123 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94649170 CTTA
1 CTTA
94649174 CTATCATTTC
Statistics
Matches: 474, Mismatches: 7, Indels: 11
0.96 0.01 0.02
Matches are distributed among these distances:
46 3 0.01
47 178 0.38
48 2 0.00
49 291 0.61
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94657126 original size:19 final size:19
Alignment explanation
Indices: 94657063--94657117 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
94657053 GTATGAGATC
*
94657063 GCACTTCGGTGCCTTTGTTT
1 GCACTT-GGTGCCTCTGTTT
*
94657083 GCACTTTGATGCCTCTGTTT
1 GCAC-TTGGTGCCTCTGTTT
94657103 GCACTTGGTGCCTCT
1 GCACTTGGTGCCTCT
94657118 ATTTCCACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.32
20 19 0.61
21 2 0.06
ACGTcount: A:0.07, C:0.27, G:0.24, T:0.42
Consensus pattern (19 bp):
GCACTTGGTGCCTCTGTTT
Found at i:94657138 original size:39 final size:40
Alignment explanation
Indices: 94657063--94657158 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 40
94657053 GTATGAGATC
* * * **
94657063 GCACTTCGGTGCCTTTGTTTGCACTTTGATGCCTCTGTTT
1 GCACTTCGGTGCCTCTATTTCCACTACGATGCCTCTGTTT
* *
94657103 GCACTT-GGTGCCTCTATTTCCACTACGATGTCTCTGTTA
1 GCACTTCGGTGCCTCTATTTCCACTACGATGCCTCTGTTT
* *
94657142 GCATTTCGATGCTCTCT
1 GCACTTCGGTGC-CTCT
94657159 GATGTGTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
39 31 0.69
40 10 0.22
41 4 0.09
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.42
Consensus pattern (40 bp):
GCACTTCGGTGCCTCTATTTCCACTACGATGCCTCTGTTT
Found at i:94660682 original size:40 final size:40
Alignment explanation
Indices: 94660628--94660745 Score: 182
Period size: 40 Copynumber: 3.0 Consensus size: 40
94660618 CGGATGTAAC
* * *
94660628 AACCAGCACAAATGCCTTCGGGACTGAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
94660668 AACCCGCACGAATGCCTTCAGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
94660708 AACCCGCACGAATGCCTTCGGGACTTAACCCGCTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
94660746 TTTTTTTTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:94662744 original size:157 final size:157
Alignment explanation
Indices: 94662453--94662767 Score: 612
Period size: 157 Copynumber: 2.0 Consensus size: 157
94662443 TCCTATTTAC
94662453 AATTTCATATTCAATTGTCAAAATTAAAGCATAAAACCTTCATATATGCATGTGCACACACAATA
1 AATTTCATATTCAATTGTCAAAATTAAAGCATAAAACCTTCATATATGCATGTGCACACACAATA
94662518 AACATGGAATATGACATTTAATTATTTTTCTGTGTCTCGGTTTTGTGGTCCCGAAACCACTTCCC
66 AACATGGAATATGACATTTAATTATTTTTCTGTGTCTCGGTTTTGTGGTCCCGAAACCACTTCCC
*
94662583 GACTAGGGTCAAAATAGGGCTGTCACA
131 GACTAGGGTCAAAATAGGGCTATCACA
94662610 AATTTCATATTCAATTGTCAAAATTAAAGCATAAAACCTTCATATATGCATGTGCACACACAATA
1 AATTTCATATTCAATTGTCAAAATTAAAGCATAAAACCTTCATATATGCATGTGCACACACAATA
*
94662675 AACATGGAATATGACATTTAATTATTTTTCTGTGTCTCGGTTTTGTGGTCCCGAAACCACTTCCT
66 AACATGGAATATGACATTTAATTATTTTTCTGTGTCTCGGTTTTGTGGTCCCGAAACCACTTCCC
94662740 GACTAGGGTCAAAATAGGGCTATCACA
131 GACTAGGGTCAAAATAGGGCTATCACA
94662767 A
1 A
94662768 CTCTCCCCCA
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (157 bp):
AATTTCATATTCAATTGTCAAAATTAAAGCATAAAACCTTCATATATGCATGTGCACACACAATA
AACATGGAATATGACATTTAATTATTTTTCTGTGTCTCGGTTTTGTGGTCCCGAAACCACTTCCC
GACTAGGGTCAAAATAGGGCTATCACA
Found at i:94670499 original size:24 final size:24
Alignment explanation
Indices: 94670464--94670515 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
94670454 TTTATAGATT
*
94670464 TAGGGCAGTTATCGTCCTCAAACC
1 TAGGGCAATTATCGTCCTCAAACC
*
94670488 TAGGGCAATTATCGTCCTCAGACC
1 TAGGGCAATTATCGTCCTCAAACC
94670512 TAGG
1 TAGG
94670516 TCAGTTGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (24 bp):
TAGGGCAATTATCGTCCTCAAACC
Found at i:94672993 original size:20 final size:20
Alignment explanation
Indices: 94672970--94673008 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
94672960 TAGTATTGTT
94672970 TTTAAGACAT-TTTTATTTAC
1 TTTAAGA-ATATTTTATTTAC
*
94672990 TTTAGGAATATTTTATTTA
1 TTTAAGAATATTTTATTTA
94673009 TGCACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTAAGAATATTTTATTTAC
Found at i:94678089 original size:7 final size:7
Alignment explanation
Indices: 94678079--94678103 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94678069 CAATTAATCC
94678079 CTCATCA
1 CTCATCA
94678086 CTCATCA
1 CTCATCA
94678093 CTCATCA
1 CTCATCA
94678100 CTCA
1 CTCA
94678104 ACAATCAATC
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:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (7 bp):
CTCATCA
Found at i:94687802 original size:79 final size:82
Alignment explanation
Indices: 94687691--94687874 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
94687681 GCTACTCGTT
* * *
94687691 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
94687754 GGAT-TTAGTAAC-TCGCA
65 GGATATT-GTAACTTAGCA
* **
94687771 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
94687834 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
94687851 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94687875 CATCATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 12 0.13
79 57 0.63
80 22 0.24
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:94687808 original size:39 final size:40
Alignment explanation
Indices: 94687691--94687874 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
94687681 GCTACTCGTT
* *
94687691 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
94687731 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
94687771 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
94687810 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
94687851 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94687875 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 49 0.39
40 65 0.52
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:94690939 original size:28 final size:28
Alignment explanation
Indices: 94690907--94690976 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
94690897 TATGGTACTC
*
94690907 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
94690935 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
94690963 AGTGTGCGAAATAT
1 AGTGTGCGAAATAT
94690977 CGAATGATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:94697398 original size:28 final size:28
Alignment explanation
Indices: 94697360--94697439 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
94697350 AATCAAATAT
* *
94697360 GGCACTCAGTGTACGAAATATTGAGAAC
1 GGCACTTAGTGTGCGAAATATTGAGAAC
* *
94697388 GGCACTTAGTGTGCGAGATATTGAGAAT
1 GGCACTTAGTGTGCGAAATATTGAGAAC
* *
94697416 GACACTTAGTGTGTGAAATATTGA
1 GGCACTTAGTGTGCGAAATATTGA
94697440 ATGATTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAAATATTGAGAAC
Found at i:94702454 original size:18 final size:16
Alignment explanation
Indices: 94702431--94702492 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
94702421 TCAGTAGCAT
94702431 TCAGTTACTCTATAACAG
1 TCAGTTA-TC-ATAACAG
94702449 TCAGTTATACAATAACAG
1 TCAGTTAT-C-ATAACAG
*
94702467 TCATTTATTCAGTAACAG
1 TCAGTTA-TCA-TAACAG
*
94702485 TCAATTAT
1 TCAGTTAT
94702493 TCCGTAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 34 0.89
19 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (16 bp):
TCAGTTATCATAACAG
Found at i:94702493 original size:18 final size:18
Alignment explanation
Indices: 94702442--94702494 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
94702432 CAGTTACTCT
* *
94702442 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
94702460 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
94702478 GTAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
94702495 CGTAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:94703748 original size:15 final size:16
Alignment explanation
Indices: 94703727--94703768 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
94703717 TAACCGTGGC
*
94703727 CTTCTTTCTTTCCTTT
1 CTTCTTTCTTTCATTT
*
94703743 -TTCTTTATTTCATTT
1 CTTCTTTCTTTCATTT
*
94703758 CTTATTTCTTT
1 CTTCTTTCTTT
94703769 TGTTTCTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTCTTTCTTTCATTT
Found at i:94703846 original size:19 final size:19
Alignment explanation
Indices: 94703822--94703860 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94703812 AATACTTATT
*
94703822 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
94703841 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
94703860 T
1 T
94703861 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:94703910 original size:15 final size:14
Alignment explanation
Indices: 94703884--94703914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
94703874 TAAACTTGTC
94703884 TTTTATTTATTATA
1 TTTTATTTATTATA
94703898 TTTTATATTATTATA
1 TTTTAT-TTATTATA
94703913 TT
1 TT
94703915 AATATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTATTATA
Found at i:94703947 original size:12 final size:13
Alignment explanation
Indices: 94703884--94703952 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
94703874 TAAACTTGTC
*
94703884 TTTTATTTATTATA
1 TTTTAATTA-TATA
94703898 TTTTATATTAT-TA
1 TTTTA-ATTATATA
*
94703911 TATTAATATAATATA
1 TTTTAAT-T-ATATA
*
94703926 CTTTAATTAT-TA
1 TTTTAATTATATA
*
94703938 TTTTACTTATATA
1 TTTTAATTATATA
94703951 TT
1 TT
94703953 AAGTAAATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
12 12 0.27
13 13 0.30
14 9 0.20
15 10 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTATATA
Found at i:94709780 original size:6 final size:6
Alignment explanation
Indices: 94709769--94709841 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
94709759 TATCAAAACT
* * *
94709769 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AAAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
94709818 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
94709842 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.06
6 42 0.79
7 6 0.11
8 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:94709805 original size:31 final size:31
Alignment explanation
Indices: 94709769--94709841 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
94709759 TATCAAAACT
*
94709769 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
94709800 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
94709831 AAAATCAGAAT
1 AGAATCAGAAT
94709842 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:94710030 original size:27 final size:27
Alignment explanation
Indices: 94709953--94710032 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 27
94709943 CATTGGTACG
* * *
94709953 AGAAT-AGATATTGTGACAGAGTCACC
1 AGAATCAGATATTGTGGCAAAGCCACC
*
94709979 AG-ATACAGATATTTGTGGCATAGCCACC
1 AGAAT-CAGATA-TTGTGGCAAAGCCACC
*
94710007 AGAATCAGATAATGTGGCAAAGCCAC
1 AGAATCAGATATTGTGGCAAAGCCAC
94710033 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 18 0.40
28 21 0.47
29 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
AGAATCAGATATTGTGGCAAAGCCACC
Found at i:94710951 original size:27 final size:26
Alignment explanation
Indices: 94710624--94710952 Score: 390
Period size: 27 Copynumber: 12.2 Consensus size: 26
94710614 GGTATCTTGA
*
94710624 TAATTCTA-CTCTACAGGGGTATTTTAG
1 TAATTCTACCT-TACAGGGGTA-TTTCG
* * *
94710651 TATTTCTACCCTACAAGGGTATTTCG
1 TAATTCTACCTTACAGGGGTATTTCG
*
94710677 ATAATTCTACCCTACAGGGGTATTTCAG
1 -TAATTCTACCTTACAGGGGTATTTC-G
* *
94710705 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTC-G
94710732 TAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCTTACAGGGGTATTTC-G
* *
94710759 TAATTCTACCTTACAAGGGTATTTTGG
1 TAATTCTACCTTACAGGGGTA-TTTCG
94710786 TAATTCTACCTTACAGGGGTATTTCG
1 TAATTCTACCTTACAGGGGTATTTCG
*
94710812 ATAATTCTACCTTATAGGGGTATTTCAG
1 -TAATTCTACCTTACAGGGGTATTTC-G
* * *
94710840 TAATTGTACCTTATAGGGGTGTTTCAG
1 TAATTCTACCTTACAGGGGTATTTC-G
*
94710867 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTC-G
* *
94710894 TAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCTTACAGGGGTA-TTTCG
94710921 TAATTCTACCTTACAGGGGTATTTCG
1 TAATTCTACCTTACAGGGGTATTTCG
94710947 TTAATT
1 -TAATT
94710953 TTGTAAATCG
Statistics
Matches: 268, Mismatches: 26, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
26 12 0.04
27 247 0.92
28 9 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (26 bp):
TAATTCTACCTTACAGGGGTATTTCG
Found at i:94710952 original size:81 final size:81
Alignment explanation
Indices: 94710624--94710945 Score: 457
Period size: 81 Copynumber: 4.0 Consensus size: 81
94710614 GGTATCTTGA
* ** * *
94710624 TAATTCTACTCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACC
*
94710688 CTACAGGGGTATTTCAG
65 TTACAGGGGTATTTCAG
* *
94710705 TAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
* **
94710770 TACAAGGGTATTTTGG
66 TACAGGGGTATTTCAG
* * * * *
94710786 TAATTCTACCTTACAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCAGTAATTGTACCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
* *
94710851 TATAGGGGTGTTTCAG
66 TACAGGGGTATTTCAG
*
94710867 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
94710932 TACAGGGGTATTTC
66 TACAGGGGTATTTC
94710946 GTTAATTTTG
Statistics
Matches: 211, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 210 1.00
82 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
TACAGGGGTATTTCAG
Found at i:94711304 original size:27 final size:27
Alignment explanation
Indices: 94710991--94711296 Score: 369
Period size: 27 Copynumber: 11.3 Consensus size: 27
94710981 TGTAAATCGG
* * ** *
94710991 GGGTACTTTGATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
94711018 GGGTATTTTAATAATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * *
94711045 GGGTATTTCAGTAATTTTGCAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
94711072 GGGTATTTCGGTAATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
94711099 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
94711126 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
94711153 GGGTATTTTGGTAATTTTACAAAATAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
94711180 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
94711207 GGGTATTTGGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
94711234 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
94711261 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
94711288 GGGTATTTT
1 GGGTATTTT
94711297 AGTGATTTGG
Statistics
Matches: 244, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 244 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:94714648 original size:27 final size:27
Alignment explanation
Indices: 94714618--94714795 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
94714608 ATATTGAGCC
* *
94714618 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
94714645 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
94714672 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAATCAA-CT
** ** *
94714700 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
94714727 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
94714754 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
94714781 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
94714796 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:94714757 original size:82 final size:81
Alignment explanation
Indices: 94714639--94714794 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
94714629 TGCTATATAA
* * *
94714639 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
94714704 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
94714721 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
94714785 CCCTTAGTGC
65 CACTTAGTGC
94714795 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:94714778 original size:54 final size:54
Alignment explanation
Indices: 94714618--94714794 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
94714608 ATATTGAGCC
* * * *
94714618 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
94714672 CGCACACTTAGTGC-TACATAGTCAACCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAA-CTCGCACACTTAGTGCAACATAGTCAAAT
* **
94714727 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
94714781 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
94714795 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 44 0.43
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:94715363 original size:13 final size:13
Alignment explanation
Indices: 94715345--94715369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94715335 TACTAAATTT
94715345 TCATGGATTCAAG
1 TCATGGATTCAAG
94715358 TCATGGATTCAA
1 TCATGGATTCAA
94715370 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:94727696 original size:17 final size:19
Alignment explanation
Indices: 94727656--94727697 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
94727646 GCATATGCAT
94727656 ATGT-AAAGAGTTGTGACTA
1 ATGTCAAAGAGTTGTGAC-A
94727675 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
94727692 ATGTCA
1 ATGTCA
94727698 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:94732406 original size:78 final size:77
Alignment explanation
Indices: 94732262--94732416 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 77
94732252 AGTTTGGGGG
** *
94732262 TGTGGAAACACAAAAATTTATATACTTTTTCATACCCAATTCTACTTAAATTCATGCAAATTCGG
1 TGTGGAAACACAAAAATTTATATACTTTTTCATACCCAATTCTACTTAAAACCAGGCAAATTCGG
94732327 TTAAATTCTTGT
66 TTAAATTCTTGT
* * *
94732339 NTGTGGAAACACAAAAATTTATATACTTTTTCATACCC-TTTTTAACTTAAAACCAGGC-TATTC
1 -TGTGGAAACACAAAAATTTATATACTTTTTCATACCCAATTCT-ACTTAAAACCAGGCAAATT-
94732402 CGGTTAAATTCTTGT
63 CGGTTAAATTCTTGT
94732417 CGAAAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 6 0.09
78 63 0.91
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (77 bp):
TGTGGAAACACAAAAATTTATATACTTTTTCATACCCAATTCTACTTAAAACCAGGCAAATTCGG
TTAAATTCTTGT
Found at i:94733797 original size:12 final size:13
Alignment explanation
Indices: 94733777--94733808 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
94733767 CTCAAAGTTT
94733777 CCTCTCCATTTTC
1 CCTCTCCATTTTC
94733790 CCTC-CCATTTTC
1 CCTCTCCATTTTC
94733802 CCT-TCCA
1 CCTCTCCA
94733809 CTTGTGTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.09, C:0.50, G:0.00, T:0.41
Consensus pattern (13 bp):
CCTCTCCATTTTC
Found at i:94733978 original size:653 final size:650
Alignment explanation
Indices: 94732620--94733887 Score: 2135
Period size: 653 Copynumber: 1.9 Consensus size: 650
94732610 TAATTTCCAG
* * *
94732620 CCCAAGACGGTCCAGAAATGTGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTA
1 CCCAAGAC-ATCCAAAAATGTGGATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTA
*
94732685 ATTTAGGTTAAATGAATTAATTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTG
65 ATTTAGGTTAAATGAATTAATTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTC
* **
94732750 AACCGAATGGAGTGAGCCGAACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTGGCTGACCC
130 AACCGAATGAAGTGAGCCGAACCAGCCACTAATTGGGCTGACCAGAACCGTCCATCAGCTGACCC
*
94732815 AAATCAGAAAATTAGCTGATAAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGT
195 AAATCAGAAAATTAGCTGATAAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACAT
94732880 TCAAACCCCACCTTTATTTTAGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAG
260 TCAAACCCCACCTTTATTTTAGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAG
*
94732945 CTTCAACCTTGCCATGTGTGTGGCCGGCCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTT
325 CTTCAACCTTGCCATGTGTGTGGCCGGCCATGGGAGGGCTCTATTGGCTGCTGAATTTGCTATTT
* * * * * ***
94733010 TTAGCAGCCCTCTTCAGCTATAAAATCCACCCTATGCTGTTCATTTCAAAGCATCCCTCAACATC
390 TTAGAAGACCTATTCAGCTATAAAAGCCACCATATGCTACCCATTTCAAAGCATCCCTCAACATC
*
94733075 TCTCATTCCACAACATTCTCTCATCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCA
455 CCTCATTCCACAACATTCTCTCATCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCA
* *
94733140 TCCCATTTTCCCTTCCTCTTGTGCTGATTTCCTCTCTTGAGAAAGAGGTGTTCTTCAGCCATCTT
520 TCCCATTTTCCCTTCCACTTGTGCTGATTTCCTCTCTTGAGAAAGAGGTCTTCTTCAGCCATCTT
* * ** * ***
94733205 GGGCAGTAATCAAGGATTCATAGAAGCCTTGAAATCCAGAAATATGTATTGAGACCAATTAATTT
585 GGGCAGCAATCAAGGATTCATAGAAGCCTTG-AATCCAGAAACA--TACGGAGACCAATGAAGGA
*
94733270 CCAG
647 CCAA
*
94733274 CCCAAGACATCCAAAAATGTGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAA
1 CCCAAGACATCCAAAAATGTGGATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAA
94733339 TTTAGGTTAAATGAATTAATTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTCA
66 TTTAGGTTAAATGAATTAATTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTCA
94733404 ACCGAATGAAGTGAGCCGAACCAGCCACTAATTGGGCTGACCAGAACCGTCCATCAGCTGACCCA
131 ACCGAATGAAGTGAGCCGAACCAGCCACTAATTGGGCTGACCAGAACCGTCCATCAGCTGACCCA
* *
94733469 AATCAGCAAATTAGCTGATAAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTGCATT
196 AATCAGAAAATTAGCTGATAAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACATT
* *
94733534 CAAACCCCACCTTTATTTTAGGCTTTGTAGATTTGCCCCGGCCTATTTTTAGCAAGGTTTAAAGC
261 CAAACCCCACCTTTATTTTAGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGC
94733599 TTCAACCTTGCCATGTGTGTGGCCGGCCATGGGAGGGCTCTATTGGCTGCTGAATTTGCTATTTT
326 TTCAACCTTGCCATGTGTGTGGCCGGCCATGGGAGGGCTCTATTGGCTGCTGAATTTGCTATTTT
* *
94733664 TAGAAGACCTATTCAGCTATAAAAGCCACCATATGCTACCCATTTCAAAGCATCCTTCAATATCC
391 TAGAAGACCTATTCAGCTATAAAAGCCACCATATGCTACCCATTTCAAAGCATCCCTCAACATCC
* *
94733729 CTCATTCCACAACATTCTCTCATCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCCA-TTTTCCCT
456 CTCATTCCACAACATTCTCTCATCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCAT
94733793 CCCATTTTCCCTTCCACTTGTG-TCGATTTCCTCTCTTGAGAAAGAGGTCTTCTTCAGCCATCTT
521 CCCATTTTCCCTTCCACTTGTGCT-GATTTCCTCTCTTGAGAAAGAGGTCTTCTTCAGCCATCTT
94733857 GGGCAGCAATCAAGGATTCATAGAAGCCTTG
585 GGGCAGCAATCAAGGATTCATAGAAGCCTTG
94733888 CTCGGCGAAG
Statistics
Matches: 585, Mismatches: 28, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
651 1 0.00
652 97 0.17
653 479 0.82
654 8 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (650 bp):
CCCAAGACATCCAAAAATGTGGATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAA
TTTAGGTTAAATGAATTAATTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTCA
ACCGAATGAAGTGAGCCGAACCAGCCACTAATTGGGCTGACCAGAACCGTCCATCAGCTGACCCA
AATCAGAAAATTAGCTGATAAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACATT
CAAACCCCACCTTTATTTTAGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGC
TTCAACCTTGCCATGTGTGTGGCCGGCCATGGGAGGGCTCTATTGGCTGCTGAATTTGCTATTTT
TAGAAGACCTATTCAGCTATAAAAGCCACCATATGCTACCCATTTCAAAGCATCCCTCAACATCC
CTCATTCCACAACATTCTCTCATCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCAT
CCCATTTTCCCTTCCACTTGTGCTGATTTCCTCTCTTGAGAAAGAGGTCTTCTTCAGCCATCTTG
GGCAGCAATCAAGGATTCATAGAAGCCTTGAATCCAGAAACATACGGAGACCAATGAAGGACCAA
Found at i:94741177 original size:18 final size:20
Alignment explanation
Indices: 94741131--94741170 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
94741121 TTAACTGTAA
94741131 ATCAATATTCATAAGGTTAT
1 ATCAATATTCATAAGGTTAT
94741151 ATCAATATTCATAAGGTTAT
1 ATCAATATTCATAAGGTTAT
94741171 CGATATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCAATATTCATAAGGTTAT
Found at i:94747393 original size:30 final size:30
Alignment explanation
Indices: 94747338--94747394 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
94747328 TCAGAGAGTT
*
94747338 ACACGGCCTGGCCACACGAGTGTGTGGAGC
1 ACACGGCCTGGCCACACGAGCGTGTGGAGC
*
94747368 ACACGGCCTGGCCATACTGA-CGTGTGG
1 ACACGGCCTGGCCACAC-GAGCGTGTGG
94747395 GATCTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.30, G:0.35, T:0.16
Consensus pattern (30 bp):
ACACGGCCTGGCCACACGAGCGTGTGGAGC
Found at i:94747559 original size:22 final size:21
Alignment explanation
Indices: 94747522--94747588 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
94747512 ATCGCCCCAA
*
94747522 TTTT-ATTTTATTTTATTTAT
1 TTTTAATTTTATATTATTTAT
94747542 TTTTAATTGTTATATTATTTAT
1 TTTTAATT-TTATATTATTTAT
94747564 TTTT-ATTTTACTAATTAATTTAT
1 TTTTAATTTTA-T-ATT-ATTTAT
94747587 TT
1 TT
94747589 ATTTATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 7 0.17
21 7 0.17
22 19 0.46
23 8 0.20
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (21 bp):
TTTTAATTTTATATTATTTAT
Found at i:94747616 original size:27 final size:27
Alignment explanation
Indices: 94747551--94747616 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
94747541 TTTTTAATTG
94747551 TTATATTATTTATTTTTATTTTACTAA
1 TTATATTATTTATTTTTATTTTACTAA
*
94747578 TTA-ATTTATTTATTTATTATTCTTA-TAC
1 TTATA-TTATTTATTT-TTATT-TTACTAA
94747606 TTATATT-TTTA
1 TTATATTATTTA
94747617 AATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 17 0.50
28 12 0.35
29 4 0.12
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATATTATTTATTTTTATTTTACTAA
Found at i:94747636 original size:23 final size:23
Alignment explanation
Indices: 94747600--94747646 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
94747590 TTTATTATTC
*
94747600 TTATACTTATATTTTTAAATTTT
1 TTATACTTATATTTATAAATTTT
*
94747623 TTATACTT-TAATTTATATATTTT
1 TTATACTTAT-ATTTATAAATTTT
94747646 T
1 T
94747647 GTTATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATACTTATATTTATAAATTTT
Found at i:94755481 original size:42 final size:42
Alignment explanation
Indices: 94755450--94755571 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
94755440 TTATGGGGTT
* *
94755450 GATATGAGATTTCGTGTAAGACCACGTCTGGGACATGGCATC
1 GATATGAGATTTCATGTAAGACCACGTCTGGGATATGGCATC
* * ** *
94755492 GAAATGAGATTTCATATAAGACCATATCTGGGATATGGTATC
1 GATATGAGATTTCATGTAAGACCACGTCTGGGATATGGCATC
* ** *
94755534 GATGTGAGATCCCATGTAAGACCACGTCTGGGACATGG
1 GATATGAGATTTCATGTAAGACCACGTCTGGGATATGG
94755572 AATTGGAATA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (42 bp):
GATATGAGATTTCATGTAAGACCACGTCTGGGATATGGCATC
Found at i:94757261 original size:27 final size:28
Alignment explanation
Indices: 94757231--94757330 Score: 86
Period size: 27 Copynumber: 3.7 Consensus size: 28
94757221 CAAAATAGTT
*
94757231 ATTTTACCCTC-CATGGGTAAATCGGTA
1 ATTTTACCCTCACAAGGGTAAATCGGTA
**
94757258 ATTTTACCC-CACAAGGGTATCTCGGTA
1 ATTTTACCCTCACAAGGGTAAATCGGTA
* **
94757285 ATTCTACCCT-AC-AGAGGTATTTCGGT-
1 ATTTTACCCTCACAAG-GGTAAATCGGTA
94757311 ATTTCTACCCT-ACAAGGGTA
1 ATTT-TACCCTCACAAGGGTA
94757331 TTTCGATAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 6 0.10
27 54 0.87
28 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (28 bp):
ATTTTACCCTCACAAGGGTAAATCGGTA
Found at i:94757331 original size:27 final size:27
Alignment explanation
Indices: 94757252--94757399 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
94757242 CATGGGTAAA
* * *
94757252 TCGGTAATTTTACCCCACAAGGGTATC
1 TCGGTAATTCTACCCTACAAGGGTATT
94757279 TCGGTAATTCTACCCTAC-AGAGGTATT
1 TCGGTAATTCTACCCTACAAG-GGTATT
*
94757306 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
* * *
94757333 TCGATAATTCTATCCTACAAAGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
* *
94757360 TTGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
94757387 TCGGTAATTCTAC
1 TCGGTAATTCTAC
94757400 AACTTATCCA
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 101 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAAGGGTATT
Found at i:94769342 original size:40 final size:39
Alignment explanation
Indices: 94769298--94769402 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
94769288 AGTGACCATA
*
94769298 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
94769338 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
94769376 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
94769403 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:94769359 original size:39 final size:40
Alignment explanation
Indices: 94769258--94769421 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
94769248 TTGAATGATG
* *
94769258 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
94769298 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
94769337 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
94769377 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
94769417 TCCGG
1 TCCGG
94769422 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:94769421 original size:79 final size:80
Alignment explanation
Indices: 94769258--94769408 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
94769248 TTGAATGATG
*
94769258 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
94769323 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
94769338 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
94769400 TTGAACGAG
64 TTGAACGAG
94769409 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:94786656 original size:25 final size:25
Alignment explanation
Indices: 94786628--94786698 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 25
94786618 ATGAGCTATG
* *
94786628 AATCGGGAAGTTGATACAAGCTACA
1 AATCGGGAAGCTCATACAAGCTACA
* * **
94786653 AATCAGGAAGCTCAT-CGAGCTGTA
1 AATCGGGAAGCTCATACAAGCTACA
94786677 AATCGGGAAGCTCATACAAGCT
1 AATCGGGAAGCTCATACAAGCT
94786699 GTCGTGTGTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
AATCGGGAAGCTCATACAAGCTACA
Found at i:94788201 original size:21 final size:21
Alignment explanation
Indices: 94788177--94788229 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
94788167 AATAATCTAT
94788177 TAATTTAATAAGATTTAATAG
1 TAATTTAATAAGATTTAATAG
* *
94788198 TAATTTAATAATATTTAATAT
1 TAATTTAATAAGATTTAATAG
94788219 TAAATTTAATA
1 T-AATTTAATA
94788230 TTAAAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
TAATTTAATAAGATTTAATAG
Found at i:94788227 original size:12 final size:12
Alignment explanation
Indices: 94788189--94788234 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
94788179 ATTTAATAAG
*
94788189 ATTTAATAGT-A
1 ATTTAATATTAA
*
94788200 ATTTAATA--AT
1 ATTTAATATTAA
94788210 ATTTAATATTAA
1 ATTTAATATTAA
94788222 ATTTAATATTAA
1 ATTTAATATTAA
94788234 A
1 A
94788235 GTAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.27
11 8 0.27
12 14 0.47
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:94791445 original size:93 final size:93
Alignment explanation
Indices: 94791333--94791504 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94791323 CGCCCATAAG
* *
94791333 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
94791398 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
94791426 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
94791491 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
94791505 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:94791501 original size:46 final size:46
Alignment explanation
Indices: 94791326--94791501 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
94791316 TGTAACCCGC
* * *
94791326 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
94791372 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
94791422 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
94791465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
94791502 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:94794450 original size:141 final size:139
Alignment explanation
Indices: 94794125--94794550 Score: 748
Period size: 139 Copynumber: 3.1 Consensus size: 139
94794115 TAAAAAAAGG
*
94794125 AATTATA-TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
1 AATTATATTTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
94794189 AAATAATTGTTTATATTAATAACTTCAGTAACATATATCCAATTAATATTTTGTATGAATCAAAT
66 AAATAATTGTTTATATTAATAACTTCAGTAACATATATCCAATTAATATTTTGTATGAATCAAAT
94794254 TCATATATT
131 TCATATATT
94794263 AATTATATTTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
1 AATTATATTTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
* * *
94794328 AAATAATTGTTTATATTAATAAATTCTA-TAAAATATATATACAATTAATATTTTGTATGAATCA
66 AAATAATTGTTTATATTAATAACTTC-AGT--AACATATATCCAATTAATATTTTGTATGAATCA
94794392 AATTCATATATT
128 AATTCATATATT
* *
94794404 AATTATATTTTTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
*
94794469 ATATAATTGTTTATATTAATAACTTCAGTAACATATATCCAATTAATATTTTGTATGAATCAAAT
66 AAATAATTGTTTATATTAATAACTTCAGTAACATATATCCAATTAATATTTTGTATGAATCAAAT
94794534 TCATATATT
131 TCATATATT
94794543 AATTATAT
1 AATTATAT
94794551 CTATGTTCTC
Statistics
Matches: 273, Mismatches: 10, Indels: 9
0.93 0.03 0.03
Matches are distributed among these distances:
138 7 0.03
139 133 0.49
140 2 0.01
141 131 0.48
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (139 bp):
AATTATATTTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
AAATAATTGTTTATATTAATAACTTCAGTAACATATATCCAATTAATATTTTGTATGAATCAAAT
TCATATATT
Found at i:94797805 original size:26 final size:26
Alignment explanation
Indices: 94797776--94797828 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
94797766 TTTTAAGAAG
94797776 ATAGTTCTGAAAAAATAGTGTCAAAA
1 ATAGTTCTGAAAAAATAGTGTCAAAA
*
94797802 ATAGTTCTGAAAAAATATTGTCAAAA
1 ATAGTTCTGAAAAAATAGTGTCAAAA
94797828 A
1 A
94797829 CGCTTCAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (26 bp):
ATAGTTCTGAAAAAATAGTGTCAAAA
Found at i:94798144 original size:124 final size:125
Alignment explanation
Indices: 94797804--94798153 Score: 485
Period size: 125 Copynumber: 2.8 Consensus size: 125
94797794 TGTCAAAAAT
* * *
94797804 AGTTCTGAAAAAATATTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAA
1 AGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTAAAAA
*
94797869 AAGCTCCCACATGGACGCTCTTTTTCTATAGTAGTTTCTAAAAAAATAATTTTGAGAAGAC
66 AAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAATAA-TTTGAGAAGAC
* * *
94797930 AGTTCAG-AAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTATTGAAAA
1 AGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTAAAAA
* * *
94797994 AAGCTCCCACTTGGACACACTTTTTCTACAGTAGTCTT-TGAAAAAAA-AA-TTGAGAAGAC
66 AAGCTCCCACATGGACGCTCTTTTTCTACAGTAGT-TTCT-AAAAAAATAATTTGAGAAGAC
* *
94798053 GGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTATCAGCAAAAAGTACT-AAA
1 AGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGC-AAAAGTACTAAAA
* * * *
94798117 AAAGCTCTCACATGGATGTTCTGTTTCTACAGTAGTT
65 AAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTT
94798154 CCTGCTTAGC
Statistics
Matches: 199, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
123 16 0.08
124 74 0.37
125 94 0.47
126 15 0.08
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (125 bp):
AGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTAAAAA
AAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAATAATTTGAGAAGAC
Found at i:94800523 original size:19 final size:19
Alignment explanation
Indices: 94800488--94800525 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
94800478 TAACCTTGGT
*
94800488 TGTTTGGGAGACATATTTC
1 TGTTTGGCAGACATATTTC
94800507 TGTTTGGCA-ACACTATTTC
1 TGTTTGGCAGACA-TATTTC
94800526 CAAAGCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
TGTTTGGCAGACATATTTC
Found at i:94801673 original size:18 final size:18
Alignment explanation
Indices: 94801650--94801687 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
94801640 GGAAAAAGAA
*
94801650 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
94801668 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
94801686 AC
1 AC
94801688 TCACATGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:94803479 original size:30 final size:31
Alignment explanation
Indices: 94803445--94803505 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
94803435 GTTATTTAAA
*
94803445 GAGAGC-TTAAAAAAATTTAGGGAGAAATTT
1 GAGAGCTTTAAAAAAATTTAGGAAGAAATTT
** *
94803475 GAGAGCTTTTTAAAAATTTTGGAAGAAATTT
1 GAGAGCTTTAAAAAAATTTAGGAAGAAATTT
94803506 TAAAGGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (31 bp):
GAGAGCTTTAAAAAAATTTAGGAAGAAATTT
Found at i:94814393 original size:21 final size:21
Alignment explanation
Indices: 94814360--94814402 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
94814350 CTCAACTTAT
94814360 AGTAAATAGAAATTACA-AATA
1 AGTAAATAGAAATT-CATAATA
94814381 AGTAAAT-GAAAATTCATAATA
1 AGTAAATAG-AAATTCATAATA
94814402 A
1 A
94814403 CCAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (21 bp):
AGTAAATAGAAATTCATAATA
Found at i:94816839 original size:196 final size:197
Alignment explanation
Indices: 94816533--94816910 Score: 512
Period size: 196 Copynumber: 1.9 Consensus size: 197
94816523 TGTTGAGGTA
* * *
94816533 TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAGCATAACATAGGGACCAAAATTG
1 TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAACATAACATAAGGACAAAAATTG
* *
94816598 AAATTTAACCATTGTTATATAATCCGAAAGAAAAGATAAAAGGTTGTGTATTTGGA-ATGTGTAC
66 AAATTTAACCATTATTATATAATCCGAAAGAAAAGATAAAAGGTTGTGTATTTGGACATGTGCAC
* *
94816662 GTCAACATTTTAATTACAATAATGTATTTATACTAACAATGACATTATAAAAGTTAAGGTACCGA
131 GTCAACATTTTAACTACAATAATGTATTTAGACTAACAATGACATTATAAAAGTTAAGGTACCGA
94816727 AT
196 AT
* * ** * * *
94816729 TATGTCAAAAATTAAAGTATAGAGATTGAATTTCAAATTTGAACATAATATAAGGACAAAAATTG
1 TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAACATAACATAAGGACAAAAATTG
* * *
94816794 GAATTTGACCATTATTGTATAATCTC-AAA-AATTAAG-TAAAAGGTTGTGTATTTGGACATGTG
66 AAATTTAACCATTATTATATAATC-CGAAAGAA--AAGATAAAAGGTTGTGTATTTGGACATGTG
* * * *
94816856 CACGTCAACATTTTAGCTAGAATGATGTATTTAGATTAACAATGACATTATAAAA
128 CACGTCAACATTTTAACTACAATAATGTATTTAGACTAACAATGACATTATAAAA
94816911 ATTGAGGTGC
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
195 2 0.01
196 98 0.62
197 57 0.36
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (197 bp):
TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAACATAACATAAGGACAAAAATTG
AAATTTAACCATTATTATATAATCCGAAAGAAAAGATAAAAGGTTGTGTATTTGGACATGTGCAC
GTCAACATTTTAACTACAATAATGTATTTAGACTAACAATGACATTATAAAAGTTAAGGTACCGA
AT
Found at i:94818609 original size:43 final size:42
Alignment explanation
Indices: 94818562--94818717 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 42
94818552 TATCGAGATG
*
94818562 TGATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATT-GCATCGTATTA
** *
94818605 TGATTATGTGTAAGACCATGTCTGGGATATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATT-GCATCGTATTA
* * * * *
94818648 TGATTTCATGTAAGACCCTGTCTGAGACAGTGACATCG-ATGTG
1 TGATTACATGTAAGACCATGTCTGGGACATTG-CATCGTAT-TA
* *
94818691 TGATAACATGTAAGACCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
94818718 TATGGCATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.03
43 90 0.97
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGCATCGTATTA
Found at i:94820327 original size:17 final size:17
Alignment explanation
Indices: 94820292--94820343 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
94820282 AAAAGACAAT
94820292 AATAATAATATATTAATAAA
1 AATAATAATA-A-T-ATAAA
94820312 AATGAA-AATAATATAAA
1 AAT-AATAATAATATAAA
94820329 AATAATAATAATATA
1 AATAATAATAATATA
94820344 GGGAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 17 0.57
18 1 0.03
19 1 0.03
20 7 0.23
21 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AATAATAATAATATAAA
Found at i:94820504 original size:12 final size:11
Alignment explanation
Indices: 94820487--94820516 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
94820477 TAGTACCATG
94820487 ATAATAATAACA
1 ATAATAATAA-A
94820499 ATAATAATAAA
1 ATAATAATAAA
94820510 ATAATAA
1 ATAATAA
94820517 AAAGAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:94820527 original size:20 final size:20
Alignment explanation
Indices: 94820489--94820527 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94820479 GTACCATGAT
* * *
94820489 AATAATAACAATAATAATAA
1 AATAATAAAAAGAACAATAA
94820509 AATAATAAAAAGAACAATA
1 AATAATAAAAAGAACAATA
94820528 TGTTATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
AATAATAAAAAGAACAATAA
Found at i:94820555 original size:17 final size:17
Alignment explanation
Indices: 94820535--94820579 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
94820525 ATATGTTATT
94820535 AATAATAATAATAAATA
1 AATAATAATAATAAATA
**
94820552 AATAATGGTAATAAATA
1 AATAATAATAATAAATA
*
94820569 TATAA-AATAAT
1 AATAATAATAAT
94820580 CGTACCAGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
AATAATAATAATAAATA
Found at i:94820616 original size:14 final size:15
Alignment explanation
Indices: 94820597--94820627 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
94820587 GTCATAAAAC
94820597 AAATATAAT-ATAAT
1 AAATATAATAATAAT
94820611 AAATATAATAATAAT
1 AAATATAATAATAAT
94820626 AA
1 AA
94820628 CAATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATAATAATAAT
Found at i:94821020 original size:17 final size:17
Alignment explanation
Indices: 94820998--94821036 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
94820988 CATGGTGGCA
94820998 AGTGGGGTAATGGAGTT
1 AGTGGGGTAATGGAGTT
*
94821015 AGTGGGGTGATGGAGTT
1 AGTGGGGTAATGGAGTT
94821032 AGTGG
1 AGTGG
94821037 CAAGTAGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (17 bp):
AGTGGGGTAATGGAGTT
Found at i:94821640 original size:169 final size:168
Alignment explanation
Indices: 94821426--94821904 Score: 750
Period size: 169 Copynumber: 2.9 Consensus size: 168
94821416 TAGGGAGATA
** *
94821426 AGATCTGTAAT-TTTTAGGCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGCTGTCTTCGATAT
1 AGATCTGT-ATGTTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
*
94821489 GCTCCACTACTGTTTAGGGAAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAA
65 GCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAA
*
94821554 GGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGT
130 GGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGG
* * *
94821593 ATATCTGTAT-TTTTCAACCTGTTACCCTACTACTTAGGGGGGTTAAGGCTTGCTGTTTTCGATC
1 AGATCTGTATGTTTT-AACCTGTTACCCTACTGCTTA-GGGGGTTAAGGCTTGCTGTCTTCGATC
* *
94821657 TGCTCCACTACTGTTTAGGGGAGATCTGTATGTTT-TAGCTTGTTACCCTACTGCTTAGGGGGTT
64 TGCTCCACTACTGTTTAGGGGAGATCTGTAT-TTTCCAGCCTGTTACCCTACTGCTTAGGGGGTT
*
94821721 AAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGG
128 AAGGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGG
* *
94821762 AGATCTGTATGTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
1 AGATCTGTATGTTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
* *
94821827 CTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCTTACTGTTTAGGGGGTTAAG
66 CTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
*
94821892 GCTCGCTGTCTTC
131 GCTTGCTGTCTTC
94821905 AGCCTGCTCT
Statistics
Matches: 285, Mismatches: 21, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
166 6 0.02
167 28 0.10
168 97 0.34
169 147 0.52
170 7 0.02
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (168 bp):
AGATCTGTATGTTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
CTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
GCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGG
Found at i:94821709 original size:40 final size:40
Alignment explanation
Indices: 94821664--94821801 Score: 120
Period size: 40 Copynumber: 3.4 Consensus size: 40
94821654 ATCTGCTCCA
*
94821664 CTACTGTTTAGGGGAGATCTGTATGTTTTAGCTTGTTACC
1 CTACTGCTTAGGGGAGATCTGTATGTTTTAGCTTGTTACC
* * * * * *
94821704 CTACTGCTTAGGGG-GTTAAGGCT-TGCTGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGGAG---A-TCTGT-ATGTTTTAGCT-TGTTACC
*
94821747 ACTACTGTTTAGGGGAGATCTGTATGTTTTAGCTTGTTACC
1 -CTACTGCTTAGGGGAGATCTGTATGTTTTAGCTTGTTACC
94821788 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
94821802 GTTAAGGCTT
Statistics
Matches: 73, Mismatches: 15, Indels: 20
0.68 0.14 0.19
Matches are distributed among these distances:
39 1 0.01
40 29 0.40
41 11 0.15
42 4 0.05
43 11 0.15
44 16 0.22
45 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.38
Consensus pattern (40 bp):
CTACTGCTTAGGGGAGATCTGTATGTTTTAGCTTGTTACC
Found at i:94821768 original size:253 final size:253
Alignment explanation
Indices: 94821408--94821900 Score: 771
Period size: 253 Copynumber: 1.9 Consensus size: 253
94821398 TTAATTTGCT
94821408 CTACTGTTTAGGGAGATAAGATCTGTAATTTTTAGGCTGTTACCCTACTGCTTAGGGGTTAAGGC
1 CTACTGTTTAGGGAG--AAGATCTGTAATTTTTAGGCTGTTACCCTACTGCTTAGGGGTTAAGGC
94821473 TTGCTGTCTTCGATATGCTCCACTACTGTTTAGGGAAGATCTGTAT-TTTCCAGCCTGTTACCCT
64 TTGCTGTCTTCGATATGCTCCACTACTGTTTAGGGAAGATCTGTATGTTT-CAGCCTGTTACCCT
* *
94821537 ACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGTATATCTGTA
128 ACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTA
* *
94821602 TTTTTCAACCTGTTACCCTACTACTTAGGGGGGTTAAGGCTTGCTGTTTTCGATCTGCTCCA
193 TTTTCCAACCTGTTACCCTACTACTTA-GGGGGTTAAGGCTCGCTGTTTTCGATCTGCTCCA
94821664 CTACTGTTTAGGG-G-AGATCTGT-ATGTTTTA-GCTTGTTACCCTACTGCTTAGGGGGTTAAGG
1 CTACTGTTTAGGGAGAAGATCTGTAAT-TTTTAGGC-TGTTACCCTACTGCTTA-GGGGTTAAGG
* * * *
94821725 CTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATGTTTTAGCTTGTTACCCT
63 CTTGCTGTCTTCGATATGCTCCACTACTGTTTAGGGAAGATCTGTATGTTTCAGCCTGTTACCCT
*
94821790 ACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTA
128 ACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTA
* * **
94821855 TTTTCCAGCCTGTTACCTTACTGTTTAGGGGGTTAAGGCTCGCTGT
193 TTTTCCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCTGT
94821901 CTTCAGCCTG
Statistics
Matches: 220, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
251 4 0.02
252 48 0.22
253 151 0.69
254 3 0.01
255 1 0.00
256 13 0.06
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (253 bp):
CTACTGTTTAGGGAGAAGATCTGTAATTTTTAGGCTGTTACCCTACTGCTTAGGGGTTAAGGCTT
GCTGTCTTCGATATGCTCCACTACTGTTTAGGGAAGATCTGTATGTTTCAGCCTGTTACCCTACT
GCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTT
TCCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCTGTTTTCGATCTGCTCCA
Found at i:94821913 original size:84 final size:83
Alignment explanation
Indices: 94821408--94821904 Score: 735
Period size: 84 Copynumber: 5.9 Consensus size: 83
94821398 TTAATTTGCT
* *
94821408 CTACTGTTTAGGGAGATAAGATCTGTAATTTTTAGGCTGTTACCCTACTGCTTA-GGGGTTAAGG
1 CTACTGTTTAGGG-G---AGATCTGT-ATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
*
94821472 CTTGCTGTCTTCGATATGCTCCA
61 CTTGCTGTCTTCGATCTGCTCCA
*
94821495 CTACTGTTTAGGGAAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTATTTT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
94821560 CTGTCTTCGATCTGCTCCA
65 CTGTCTTCGATCTGCTCCA
* * * * *
94821579 CTACTATTTAGGGTATATCTGTATTTTTCAACCTGTTACCCTACTACTTAGGGGGGTTAAGGCTT
1 CTACTGTTTAGGGGAGATCTGTA-TTTTCAGCCTGTTACCCTACTGCTTA-GGGGGTTAAGGCTT
*
94821644 GCTGTTTTCGATCTGCTCCA
64 GCTGTCTTCGATCTGCTCCA
* *
94821664 CTACTGTTTAGGGGAGATCTGTATGTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTAT-TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
94821729 CTGTCTTCGATCTGCTCCA
65 CTGTCTTCGATCTGCTCCA
* *
94821748 CTACTGTTTAGGGGAGATCTGTATGTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTAT-TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
94821813 CTGTCTTCGATCTGCTCCA
65 CTGTCTTCGATCTGCTCCA
* * *
94821832 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCTTACTGTTTAGGGGGTTAAGGCTCG
1 CTACTGTTTAGGGGAGATCTGTATTTT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
94821897 CTGTCTTC
65 CTGTCTTC
94821905 AGCCTGCTCT
Statistics
Matches: 381, Mismatches: 23, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
82 5 0.01
83 31 0.08
84 254 0.67
85 78 0.20
87 13 0.03
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (83 bp):
CTACTGTTTAGGGGAGATCTGTATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGC
TGTCTTCGATCTGCTCCA
Found at i:94822412 original size:45 final size:45
Alignment explanation
Indices: 94822317--94822413 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 45
94822307 AGGGGCTAAA
* * ** * **
94822317 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTT
1 ATCTGCTCCACAGCCGATACATGGAGATAAGAATCGAAATCTTCG
94822362 ATCTGCTCCACAGCCGATACATGGAGATAAGAAAT-GAAATCTTCG
1 ATCTGCTCCACAGCCGATACATGGAGATAAG-AATCGAAATCTTCG
*
94822407 GTCTGCT
1 ATCTGCT
94822414 TCCTACAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCACAGCCGATACATGGAGATAAGAATCGAAATCTTCG
Found at i:94822475 original size:236 final size:236
Alignment explanation
Indices: 94822047--94822480 Score: 674
Period size: 236 Copynumber: 1.8 Consensus size: 236
94822037 AACCTGCTCT
*
94822047 CTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATAGCCAATACATGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGACTGGTGGCTAAAATCTACTCCATAGCCAATACATGGAGATAAG
* * * ** *
94822112 ACTCGCCATTTTTAATCTGCTCCATAGTCGATACATGGAGGTAAGATCTGAAATCTTTGGTCTGC
66 ACTCGCCATTTTTAATCTGCTCCACAGCCGATACATGGAGATAAGAAATGAAATCTTCGGTCTGC
* * *
94822177 TTCCTGCAACTTCAGAAAGATAAGACTTGTATCATCAACCTGCTCCCTACAACTTCAGAGAGATA
131 TTCCTACAACTTCAGAAAGATAAGACCTGTATCATCAACCTACTCCCTACAACTTCAGAGAGATA
94822242 AGGCTGGATGGAGATAAGATTTGTAAATTTCAGTCTGCTTC
196 AGGCTGGATGGAGATAAGATTTGTAAATTTCAGTCTGCTTC
* *
94822283 CTGCAACTTCAG-GAAGATAAGACTAGG-GGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
1 CTGCAACTTCAGAG-AGATAAGACT-GGTGGCTAAAATCTACTCCATAGCCAATACATGGAGATA
*
94822346 AGACTCGCCATTTTTTATCTGCTCCACAGCCGATACATGGAGATAAGAAATGAAATCTTCGGTCT
64 AGACTCGCCATTTTTAATCTGCTCCACAGCCGATACATGGAGATAAGAAATGAAATCTTCGGTCT
* * * * *
94822411 GCTTCCTACAACTTCAGAAAGATGAGACCTGTATCTTCAACCTACTCTCTGCAACTTTAGAGAGA
129 GCTTCCTACAACTTCAGAAAGATAAGACCTGTATCATCAACCTACTCCCTACAACTTCAGAGAGA
94822476 TAAGG
194 TAAGG
94822481 TTGATGGCTA
Statistics
Matches: 178, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
235 1 0.01
236 175 0.98
237 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (236 bp):
CTGCAACTTCAGAGAGATAAGACTGGTGGCTAAAATCTACTCCATAGCCAATACATGGAGATAAG
ACTCGCCATTTTTAATCTGCTCCACAGCCGATACATGGAGATAAGAAATGAAATCTTCGGTCTGC
TTCCTACAACTTCAGAAAGATAAGACCTGTATCATCAACCTACTCCCTACAACTTCAGAGAGATA
AGGCTGGATGGAGATAAGATTTGTAAATTTCAGTCTGCTTC
Found at i:94822578 original size:88 final size:88
Alignment explanation
Indices: 94822486--94823228 Score: 1468
Period size: 88 Copynumber: 8.4 Consensus size: 88
94822476 TAAGGTTGAT
*
94822486 GGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94822551 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94822574 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94822639 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94822662 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94822727 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94822750 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94822815 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94822838 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94822903 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94822926 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94822991 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94823014 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94823079 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
94823102 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
94823167 AACTTCAGGAAGATAAGACTAGG
66 AACTTCAGGAAGATAAGACTAGG
*
94823190 GGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
1 GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGA
94823229 CTCGCCATTT
Statistics
Matches: 653, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 653 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (88 bp):
GGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTAC
AACTTCAGGAAGATAAGACTAGG
Found at i:94823251 original size:45 final size:44
Alignment explanation
Indices: 94823197--94823539 Score: 182
Period size: 45 Copynumber: 7.7 Consensus size: 44
94823187 AGGGGCTAAA
*
94823197 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCG-CATCTTTG
* ** *
94823242 ATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAAATTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTC-GCATCTTTG
* * * * *** ***
94823286 AGTTTGCTTCC-TA--CAACTTCA-GGAAGATAAGACTAGGGGCTAAA
1 A-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTCGCATCTTTG
*
94823330 ATCTCCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCG-CATCTTTG
** * * * ** *
94823375 ATCTATTCCATAGCCGATACATGGAGATAAGATTTGTAAATTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCATCTTTG
* * * *** ***
94823419 AGTCTGCTTCC-T-G-CAACTTCA-GGAAGATAAGACTAGGGGCTAAA
1 A-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTCGCATCTTTG
*
94823463 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCG-CATCTTTG
* * *
94823508 ATTTACTCCATAGCCGATACATTGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
94823540 TCTGTAAATT
Statistics
Matches: 218, Mismatches: 60, Indels: 40
0.69 0.19 0.13
Matches are distributed among these distances:
42 6 0.03
43 19 0.09
44 71 0.33
45 116 0.53
46 6 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCATCTTTG
Found at i:94823282 original size:133 final size:133
Alignment explanation
Indices: 94823109--94823586 Score: 812
Period size: 133 Copynumber: 3.6 Consensus size: 133
94823099 AGGGGCTAAA
* *
94823109 ATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTACAACTTCA
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTACAACTTCA
*
94823174 GGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTT
66 GGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCT
94823239 TTG
131 TTG
* *
94823242 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTACAACTTCA
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTACAACTTCA
*
94823307 GGAAGATAAGACTAGGGGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGACTCGCCATCT
66 GGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCT
94823372 TTG
131 TTG
* * *
94823375 ATCTATTCCATAGCCGATACATGGAGATAAGATTTGTAAATTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTACAACTTCA
*
94823440 GGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCT
66 GGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCT
94823505 TTG
131 TTG
* * * *
94823508 ATTTACTCCATAGCCGATACATTGAGATAAGATCTGTAAATTTTTAGTCTGCTTCCTGCAACTTC
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAA-TTTCAGTCTGCTTCCTACAACTTC
*
94823573 AGAAAGATAAGACT
65 AGGAAGATAAGACT
94823587 TGTGAATTCA
Statistics
Matches: 328, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
133 292 0.89
134 36 0.11
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (133 bp):
ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTACAACTTCA
GGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCT
TTG
Found at i:94823469 original size:221 final size:222
Alignment explanation
Indices: 94822939--94823494 Score: 666
Period size: 221 Copynumber: 2.5 Consensus size: 222
94822929 TAAAATCTCC
* * *
94822939 TCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTTTGCTTCCTACAACTTCAGGAAGA
1 TCCATAGCCGATACATGGAGATAAGATTTGTAAATTTCAGTCTGCTTCCTGCAACTTCAGGAAGA
*
94823004 TAAGACTAGGGGCTAAAATCTCCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTT
66 TAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTT
94823069 TGCTTCCTACAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTCCTCCATAGCCGATACATGGA
131 TGCTTCCTACAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTCCTCCATAGCCGATACATGGA
* * *
94823134 GATAAGATCTGTAAATTTCAGTTTGCT
196 GATAAGATCTGCAAATTTCAGTCTGAT
* * * * **** ** * * *
94823161 TCC-TA--CAACTTCA-GGAAGATAAGACTAG-GGGCTAAAATCTGC-TCCATAGCCGA-TACAT
1 TCCATAGCCGA-TACATGG-AGATAAGATTTGTAAATTTCAGTCTGCTTCC-T-G-CAACTTCA-
* **** ***
94823219 GG-AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAAT
60 GGAAGATAAGACTAG-GGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAAT
94823283 TTCAGTTTGCTTCCTACAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTCCTCCATAGCCGAT
124 TTCAGTTTGCTTCCTACAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTCCTCCATAGCCGAT
** *
94823348 ACATGGAGATAAGA-CTCGCCATCTTTGA-TCT-AT
189 ACATGGAGATAAGATCT-G-CAAATTTCAGTCTGAT
94823381 TCCATAGCCGATACATGGAGATAAGATTTGTAAATTTCAGTCTGCTTCCTGCAACTTCAGGAAGA
1 TCCATAGCCGATACATGGAGATAAGATTTGTAAATTTCAGTCTGCTTCCTGCAACTTCAGGAAGA
*
94823446 TAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGA
66 TAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
94823495 CTCGCCATCT
Statistics
Matches: 264, Mismatches: 53, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
218 3 0.01
219 11 0.04
220 32 0.12
221 167 0.63
222 36 0.14
223 12 0.05
224 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (222 bp):
TCCATAGCCGATACATGGAGATAAGATTTGTAAATTTCAGTCTGCTTCCTGCAACTTCAGGAAGA
TAAGACTAGGGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTT
TGCTTCCTACAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTCCTCCATAGCCGATACATGGA
GATAAGATCTGCAAATTTCAGTCTGAT
Found at i:94827946 original size:46 final size:47
Alignment explanation
Indices: 94827894--94827986 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
94827884 TCCATCATAT
94827894 CCTGCTGAATCTTGGTCAGTTGCTCTTGCATCTG-TCTTGCAGCCGA
1 CCTGCTGAATCTTGGTCAGTTGCTCTTGCATCTGTTCTTGCAGCCGA
94827940 CCTGCTGAATCTTGGTCAGTTGCTCTTGCATCTGTTCTTGCAGCCGA
1 CCTGCTGAATCTTGGTCAGTTGCTCTTGCATCTGTTCTTGCAGCCGA
94827987 TCCTATATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 34 0.74
47 12 0.26
ACGTcount: A:0.13, C:0.28, G:0.24, T:0.35
Consensus pattern (47 bp):
CCTGCTGAATCTTGGTCAGTTGCTCTTGCATCTGTTCTTGCAGCCGA
Found at i:94830590 original size:14 final size:14
Alignment explanation
Indices: 94830537--94830588 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
94830527 ATAGAAGACA
94830537 ATAATAATAAAAAT
1 ATAATAATAAAAAT
*
94830551 ATATTAATAAAAAT
1 ATAATAATAAAAAT
*
94830565 GAAAATAATATAAAA-
1 -ATAATAATA-AAAAT
94830580 ATAATAATA
1 ATAATAATA
94830589 TAGGGAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 21 0.66
15 7 0.22
16 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
ATAATAATAAAAAT
Found at i:94830742 original size:3 final size:3
Alignment explanation
Indices: 94830734--94830879 Score: 67
Period size: 3 Copynumber: 50.0 Consensus size: 3
94830724 TAGTACCATG
* * * *
94830734 ATA ATA ATA ACA ATA ATA ATA A-A ATA ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
94830780 TTA TTA ATA ATA ATAA ATAA ATA ATG GTA ATAA ATA TATA A-A ATA ATA
1 ATA ATA ATA ATA AT-A AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA ATA
* ** *
94830828 GTA CCA GTA ATA A-A ATA A-A TATA AT- ATA A-A A-A AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
94830868 ATA ATA ACA ATA
1 ATA ATA ATA ATA
94830880 TTTAAAAATA
Statistics
Matches: 110, Mismatches: 21, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
2 17 0.15
3 79 0.72
4 14 0.13
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:94830764 original size:23 final size:23
Alignment explanation
Indices: 94830734--94830777 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
94830724 TAGTACCATG
* *
94830734 ATAATAATAACAATAATAATAAA
1 ATAATAATAAAAATAACAATAAA
94830757 ATAATAATAAAAATAACAATA
1 ATAATAATAAAAATAACAATA
94830778 TGTTATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (23 bp):
ATAATAATAAAAATAACAATAAA
Found at i:94830771 original size:20 final size:20
Alignment explanation
Indices: 94830736--94830879 Score: 58
Period size: 20 Copynumber: 6.8 Consensus size: 20
94830726 GTACCATGAT
* *
94830736 AATAATAACAATAATAATAA
1 AATAATAATAAAAATAATAA
*
94830756 AATAATAATAAAAATAACAA
1 AATAATAATAAAAATAATAA
* * *
94830776 TATGTTATTAATAATAATAA-ATA
1 -A--ATAATAATAAAAATAATA-A
**
94830799 AATAATGGTAATAAATATATAA
1 AATAATAATAA-AAATA-ATAA
* ** *
94830821 AATAATAGTACCAGTAATAA
1 AATAATAATAAAAATAATAA
*
94830841 AATAAATATAATATAAAA-AATAT
1 AAT--A-ATAATA-AAAATAATAA
*
94830864 AATAATAATAACAATA
1 AATAATAATAAAAATA
94830880 TTTAAAAATA
Statistics
Matches: 91, Mismatches: 21, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.03
20 37 0.41
21 9 0.10
22 14 0.15
23 27 0.30
24 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
AATAATAATAAAAATAATAA
Found at i:94830880 original size:17 final size:17
Alignment explanation
Indices: 94830734--94830880 Score: 76
Period size: 17 Copynumber: 8.6 Consensus size: 17
94830724 TAGTACCATG
*
94830734 ATAATAATAACAATAATA
1 ATAATAAT-ATAATAATA
*
94830752 ATAA-AATAATAATAAAA
1 ATAATAAT-ATAATAATA
* ** *
94830769 ATAACAATATGTTATTA
1 ATAATAATATAATAATA
94830786 ATAATAATA-AATAAATA
1 ATAATAATATAAT-AATA
**
94830803 ATGGTAATA-AATATATA
1 ATAATAATATAATA-ATA
94830820 A-AATAATAGTACCAGTAATA
1 ATAATAATA-TA--A-TAATA
94830840 A-AATAAATATAAT-ATA
1 ATAAT-AATATAATAATA
94830856 A-AA-AATATAATAATA
1 ATAATAATATAATAATA
*
94830871 ATAACAATAT
1 ATAATAATAT
94830881 TTAAAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 25
0.73 0.10 0.18
Matches are distributed among these distances:
14 8 0.08
15 4 0.04
16 15 0.15
17 51 0.50
18 9 0.09
20 10 0.10
21 6 0.06
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
ATAATAATATAATAATA
Found at i:94831276 original size:17 final size:17
Alignment explanation
Indices: 94831251--94831283 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94831241 GTGGCAAGTG
94831251 GGGTAATGGAGTTAGTA
1 GGGTAATGGAGTTAGTA
*
94831268 GGGTGATGGAGTTAGT
1 GGGTAATGGAGTTAGT
94831284 GGTCGGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.30
Consensus pattern (17 bp):
GGGTAATGGAGTTAGTA
Found at i:94835686 original size:43 final size:42
Alignment explanation
Indices: 94835579--94835741 Score: 177
Period size: 43 Copynumber: 3.9 Consensus size: 42
94835569 ACACTGCTAA
* * *
94835579 GCCGTTAAATAACGTGACTTTTAGCGGCGCTTTCTTGA-AAAC
1 GCCGCTAAATAACGTGACCTTTAGCGGCGCTTT-TTTACAAAC
* *
94835621 GCCGCTAAATAACAT-ATCTTTAGCGGCGCTTTTTCTACAAAC
1 GCCGCTAAATAACGTGACCTTTAGCGGCGCTTTTT-TACAAAC
* * *
94835663 GCCGCTAAAAAACGTGACCTTTAGTGGCTCTTTTTGTACAAAC
1 GCCGCTAAATAACGTGACCTTTAGCGGCGCTTTTT-TACAAAC
* * * *
94835706 GCCGCTAAAGAATGTGACTTTTAGCGGTGCTTTTTT
1 GCCGCTAAATAACGTGACCTTTAGCGGCGCTTTTTT
94835742 TGAAATGCCA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 16 0.16
42 31 0.31
43 52 0.51
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
GCCGCTAAATAACGTGACCTTTAGCGGCGCTTTTTTACAAAC
Found at i:94835898 original size:47 final size:47
Alignment explanation
Indices: 94835829--94835922 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
94835819 AATCCTTCTT
*
94835829 GCAACATCAAATCCAACCAATAACAACGAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
*
94835876 GCAACATCAAATCTAACCAATAACAACAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
94835923 AAATTCAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.20
Consensus pattern (47 bp):
GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
Found at i:94845647 original size:9 final size:9
Alignment explanation
Indices: 94845590--94845706 Score: 84
Period size: 9 Copynumber: 13.4 Consensus size: 9
94845580 GCCCCTGCAT
94845590 TTATGTAAG
1 TTATGTAAG
*
94845599 GTATGTAAG
1 TTATGTAAG
*
94845608 TTATG-AAA
1 TTATGTAAG
* * *
94845616 TGATATATAT
1 TTATGTA-AG
94845626 TTATGT-A-
1 TTATGTAAG
94845633 TTATGTAAG
1 TTATGTAAG
94845642 TTATGTAAG
1 TTATGTAAG
*
94845651 TTATGATATG
1 TTATG-TAAG
* * *
94845661 ATATAT-AT
1 TTATGTAAG
94845669 TTATGT-A-
1 TTATGTAAG
94845676 TTATGTAAG
1 TTATGTAAG
*
94845685 TTTTGTAAG
1 TTATGTAAG
94845694 TTATGTAAG
1 TTATGTAAG
94845703 TTAT
1 TTAT
94845707 TATATGATAT
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
7 12 0.14
8 13 0.15
9 48 0.57
10 11 0.13
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:94845651 original size:43 final size:43
Alignment explanation
Indices: 94845590--94845770 Score: 227
Period size: 43 Copynumber: 4.0 Consensus size: 43
94845580 GCCCCTGCAT
94845590 TTATGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTA
* *
94845633 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTA
* *
94845676 TTATGTAAGTTTTGTAAGTTATGTAAGTTATTATATGATATATATTTATGTA
1 TTATGTAA-----G---G-TATGTAAGTTATGAAATGATATATATTTATGTA
* *
94845728 TTATGTAAGGTATATAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTA
94845771 AGTTTTTATA
Statistics
Matches: 123, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
43 80 0.65
44 1 0.01
47 1 0.01
48 1 0.01
52 40 0.33
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTA
Found at i:94845692 original size:52 final size:49
Alignment explanation
Indices: 94845636--94845770 Score: 192
Period size: 52 Copynumber: 2.8 Consensus size: 49
94845626 TTATGTATTA
94845636 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
*
94845685 TTTTGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAG
1 ---TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
94845737 -GT-A--TA--TAAGTTATGATATGATATATATTTATGTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
94845771 AGTTTTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
43 28 0.35
45 2 0.02
47 1 0.01
48 2 0.02
52 48 0.59
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
Found at i:94845756 original size:95 final size:95
Alignment explanation
Indices: 94845593--94845770 Score: 311
Period size: 95 Copynumber: 1.9 Consensus size: 95
94845583 CCTGCATTTA
* *
94845593 TGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
1 TGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
94845658 ATGATATATATTTATGTATTATGTAAGTTT
66 ATGATATATATTTATGTATTATGTAAGTTT
* * *
94845688 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
1 TGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
94845753 ATGATATATATTTATGTA
66 ATGATATATATTTATGTA
94845771 AGTTTTTATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 78 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (95 bp):
TGTAAGGTATGTAAGTTATGAAATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
ATGATATATATTTATGTATTATGTAAGTTT
Found at i:94845801 original size:29 final size:27
Alignment explanation
Indices: 94845742--94845793 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
94845732 GTAAGGTATA
94845742 TAAGTTATGATATGATATATATTTATG
1 TAAGTTATGATATGATATATATTTATG
* *
94845769 TAAGTTTTTATATGATATATATTTA
1 TAAGTTATGATATGATATATATTTA
94845794 ACATTAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (27 bp):
TAAGTTATGATATGATATATATTTATG
Found at i:94856706 original size:16 final size:15
Alignment explanation
Indices: 94856678--94856725 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
94856668 TCAATCATAC
94856678 AATACTCAATTCATG
1 AATACTCAATTCATG
*
94856693 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
94856708 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
94856725 A
1 A
94856726 GTATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:94857616 original size:22 final size:20
Alignment explanation
Indices: 94857574--94857611 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94857564 CTAAATCGAT
* *
94857574 ATTAATTTTATTTTTTCACA
1 ATTAATCTTATATTTTCACA
94857594 ATTAATCTTATATTTTCA
1 ATTAATCTTATATTTTCA
94857612 TACAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAATCTTATATTTTCACA
Found at i:94857957 original size:4 final size:4
Alignment explanation
Indices: 94857948--94857993 Score: 62
Period size: 4 Copynumber: 12.0 Consensus size: 4
94857938 ACCCCGTGGA
94857948 TTTC TTTC -TTC TTTC TCTT- TTTC TTTC TTT- TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
94857994 CTGTTTAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 8 0.21
4 28 0.74
5 2 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:94857972 original size:19 final size:19
Alignment explanation
Indices: 94857948--94857993 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
94857938 ACCCCGTGGA
94857948 TTTCTTTCTTCTTTCTCTT-
1 TTTCTTTCTTCTTTCT-TTC
*
94857967 TTTCTTTCTTTTTTCTTTC
1 TTTCTTTCTTCTTTCTTTC
94857986 TTTCTTTC
1 TTTCTTTC
94857994 CTGTTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTTTCTTCTTTCTTTC
Found at i:94859594 original size:7 final size:7
Alignment explanation
Indices: 94859570--94859605 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
94859560 ACTTTAATTT
94859570 AATTTCA
1 AATTTCA
*
94859577 AATTTTGA
1 AA-TTTCA
94859585 AATTTCA
1 AATTTCA
94859592 AATTTCA
1 AATTTCA
94859599 AATTTCA
1 AATTTCA
94859606 CTTAAACGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (7 bp):
AATTTCA
Found at i:94869551 original size:54 final size:55
Alignment explanation
Indices: 94869446--94869568 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 55
94869436 AAGGGGCTCT
94869446 GTTTTTCGTGAACTTGGTTCGAAAATCTTTGTTGACTCTGTTTTTTATTTTTTGGGGTTTC
1 GTTTTT-GTGAACTTGGTTCGAAAATCTTTGTTGACTCTG-----TATTTTTTGGGGTTTC
**
94869507 GTTTTTGTGAACTTGGTTCGACTATCTTTGTTGACTCTGGT-TTTTTT-GGGTTTC
1 GTTTTTGTGAACTTGGTTCGAAAATCTTTGTTGACTCT-GTATTTTTTGGGGTTTC
*
94869561 GCTTTTGT
1 GTTTTTGT
94869569 TTATTTTTGG
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
54 14 0.24
55 6 0.10
56 1 0.02
60 30 0.52
61 7 0.12
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (55 bp):
GTTTTTGTGAACTTGGTTCGAAAATCTTTGTTGACTCTGTATTTTTTGGGGTTTC
Found at i:94874739 original size:14 final size:15
Alignment explanation
Indices: 94874710--94874744 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
94874700 CAATTCACAA
94874710 ATTTCAGAATGTATGT
1 ATTT-AGAATGTATGT
94874726 ATTTAGAA-GTATGT
1 ATTTAGAATGTATGT
94874740 ATTTA
1 ATTTA
94874745 TCTAAGCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 4 0.21
16 4 0.21
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (15 bp):
ATTTAGAATGTATGT
Done.