Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 29 of 328
Found at i:8474904 original size:43 final size:43
Alignment explanation
Indices: 8474844--8474934 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
8474834 CTTTGAGTTC
* *
8474844 ATTA-CAAGATTTCCTTGATTAAGTAAATG-TATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCT-TTATATCTTTT
* *
8474886 ATTACCAAGATTTACTTGATTAAGAAAATGCTTTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCTTTATATCTTTT
8474929 ATTACC
1 ATTACC
8474935 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCTTTATATCTTTT
Found at i:8478787 original size:2 final size:2
Alignment explanation
Indices: 8478780--8478811 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8478770 TATTTAGTAC
8478780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8478812 GTGTGTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8480936 original size:16 final size:16
Alignment explanation
Indices: 8480917--8480971 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
8480907 GTTTGGTTTA
*
8480917 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
**
8480933 CTGTAATTAAATAGAG
1 CTGTAATGGAATAGAG
*
8480949 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
8480965 CTGTAAT
1 CTGTAAT
8480972 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:8481045 original size:44 final size:46
Alignment explanation
Indices: 8480957--8481045 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
8480947 AGCTGTAATG
8480957 GAATAGAACTGTAATAAGTAATTCAACTATTTGGTTGAATGGAATA
1 GAATAGAACTGTAATAAGTAATTCAACTATTTGGTTGAATGGAATA
*** *
8481003 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATAAGTAATTCAACTATTTGGTTGAATGGAAT
8481046 GATGTTGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 21 0.54
45 3 0.08
46 15 0.38
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTATTTGGTTGAATGGAATA
Found at i:8486584 original size:19 final size:18
Alignment explanation
Indices: 8486560--8486596 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8486550 CCCAAAATCT
8486560 TGAATATGATTAAATAAAA
1 TGAATAT-ATTAAATAAAA
*
8486579 TGAATATTTTAAATAAAA
1 TGAATATATTAAATAAAA
8486597 ACAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (18 bp):
TGAATATATTAAATAAAA
Found at i:8491539 original size:23 final size:23
Alignment explanation
Indices: 8491509--8491554 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8491499 CTGAGTACGG
8491509 AAATTACCTAAGAATTAGTTTAA
1 AAATTACCTAAGAATTAGTTTAA
8491532 AAATTACCTAAGAATTAGTTTAA
1 AAATTACCTAAGAATTAGTTTAA
8491555 GTTTTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
AAATTACCTAAGAATTAGTTTAA
Found at i:8492075 original size:20 final size:19
Alignment explanation
Indices: 8492036--8492075 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
8492026 AAATAGTGAG
*
8492036 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
8492055 AATTCTATTTTCTAGGAATA
1 AATT-TATTTTCTAAGAATA
8492075 A
1 A
8492076 CAATTCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:8492687 original size:24 final size:24
Alignment explanation
Indices: 8492654--8492703 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
8492644 TTGATGGAAG
8492654 CTGTAAGTCTTTTTTAGAGACCTT
1 CTGTAAGTCTTTTTTAGAGACCTT
*
8492678 CTGTAGGTCTTTTTTAGAGACCTT
1 CTGTAAGTCTTTTTTAGAGACCTT
8492702 CT
1 CT
8492704 CCCACACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (24 bp):
CTGTAAGTCTTTTTTAGAGACCTT
Found at i:8494156 original size:22 final size:23
Alignment explanation
Indices: 8494123--8494169 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8494113 AGATGATTAC
*
8494123 ATAAAAAAA-ATAAAAATTATAAA
1 ATAAAAAAATATAAATATT-TAAA
*
8494146 ATAAAATAATATAAATATTTAAA
1 ATAAAAAAATATAAATATTTAAA
8494169 A
1 A
8494170 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
ATAAAAAAATATAAATATTTAAA
Found at i:8498084 original size:19 final size:19
Alignment explanation
Indices: 8498054--8498111 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
8498044 TAAAATATAA
*
8498054 ATTTTGGAAATTTTATAAGT
1 ATTTT-GAAATTTTAAAAGT
* *
8498074 ATTTTGAAATTTAAAAATT
1 ATTTTGAAATTTTAAAAGT
8498093 ATTTTGAAAATTTTGAAAA
1 ATTTTG-AAATTTT-AAAA
8498112 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 17 0.53
20 11 0.34
21 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAAGT
Found at i:8505235 original size:25 final size:25
Alignment explanation
Indices: 8505201--8505251 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8505191 TTAACATAAG
8505201 TATGAGTATCTAAAGAGTACTTACC
1 TATGAGTATCTAAAGAGTACTTACC
8505226 TATGAGTATCTAAAGAGTACTTACC
1 TATGAGTATCTAAAGAGTACTTACC
8505251 T
1 T
8505252 CTTGGATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (25 bp):
TATGAGTATCTAAAGAGTACTTACC
Found at i:8508052 original size:37 final size:38
Alignment explanation
Indices: 8508002--8508079 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 38
8507992 ATCCAGCGAA
8508002 ATCAGAATCAGAATACCCTATGACCTCT-AAAGATTTG
1 ATCAGAATCAGAATACCCTATGACCTCTAAAAGATTTG
*
8508039 ATCAGAATCAGAATACCCTATGACCTTTAAAAGATTTG
1 ATCAGAATCAGAATACCCTATGACCTCTAAAAGATTTG
8508077 ATC
1 ATC
8508080 TCTTATAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 27 0.69
38 12 0.31
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (38 bp):
ATCAGAATCAGAATACCCTATGACCTCTAAAAGATTTG
Found at i:8509046 original size:13 final size:13
Alignment explanation
Indices: 8509028--8509054 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8509018 CCAATTGGTT
8509028 TTGCACTTTCAGG
1 TTGCACTTTCAGG
8509041 TTGCACTTTCAGG
1 TTGCACTTTCAGG
8509054 T
1 T
8509055 AATGGGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGCACTTTCAGG
Found at i:8517431 original size:3 final size:3
Alignment explanation
Indices: 8517423--8517453 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8517413 TGAAATTACA
8517423 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8517454 TTTATTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8524180 original size:22 final size:19
Alignment explanation
Indices: 8524152--8524195 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
8524142 CTAATAGAAT
8524152 TATCTCGAGACTATTTAAACAA
1 TATCTCGAGAC-A-TTAAA-AA
8524174 TATCTCGAGACATTAAAAA
1 TATCTCGAGACATTAAAAA
8524193 TAT
1 TAT
8524196 AACTAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 5 0.23
21 1 0.05
22 11 0.50
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (19 bp):
TATCTCGAGACATTAAAAA
Found at i:8525468 original size:15 final size:15
Alignment explanation
Indices: 8525450--8525479 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8525440 TATATAAAAC
8525450 AAATTTAAAAAATAT
1 AAATTTAAAAAATAT
8525465 AAATTTAAAAAATAT
1 AAATTTAAAAAATAT
8525480 TATACATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTTAAAAAATAT
Found at i:8525716 original size:21 final size:22
Alignment explanation
Indices: 8525677--8525724 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
8525667 AATATAATAG
*
8525677 CAAAATGACAACAAAACAACAT
1 CAAAATGACAACAAAACAACAA
*
8525699 CAAAATGGCAAC-AAACAACAA
1 CAAAATGACAACAAAACAACAA
8525720 CAAAA
1 CAAAA
8525725 CAACAGTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.65, C:0.23, G:0.06, T:0.06
Consensus pattern (22 bp):
CAAAATGACAACAAAACAACAA
Found at i:8526626 original size:40 final size:40
Alignment explanation
Indices: 8526582--8526736 Score: 132
Period size: 40 Copynumber: 3.9 Consensus size: 40
8526572 TGTTTGGATA
*
8526582 AAAAACGCTGCAATAGATCGAGCACTAGC-GCTGCTTTTTG
1 AAAAACGCTGCTATAGATCGAGCACTAGCGGC-GCTTTTTG
* * * *
8526622 AAAAACGTTGCTATAGGTCGACCATTAGCGGCGCTTTTTG
1 AAAAACGCTGCTATAGATCGAGCACTAGCGGCGCTTTTTG
* * * * ** *
8526662 AAAAATGCCGCTATAGATTGAGCATTAGTAGCGCTTTTTA
1 AAAAACGCTGCTATAGATCGAGCACTAGCGGCGCTTTTTG
* * * * **
8526702 AAAAATGCCGCTATAGGTCGACCTTTAGCGGCGCT
1 AAAAACGCTGCTATAGATCGAGCACTAGCGGCGCT
8526737 GTAATACCCC
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 92 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
AAAAACGCTGCTATAGATCGAGCACTAGCGGCGCTTTTTG
Found at i:8530155 original size:14 final size:14
Alignment explanation
Indices: 8530133--8530184 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
8530123 TTAATTATCA
*
8530133 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
8530147 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
8530161 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
*
8530175 TTAAGGTTTA
1 TTATGGTTTA
8530185 AGAGTTACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:8530262 original size:21 final size:22
Alignment explanation
Indices: 8530238--8530322 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
8530228 ATGATTTATG
*
8530238 GTTTATGGTTTAAGGGTT-GGA
1 GTTTAAGGTTTAAGGGTTAGGA
* *
8530259 GTTTAAGGTTTATGGGTTAGGG
1 GTTTAAGGTTTAAGGGTTAGGA
* * *
8530281 GTTTAGGGTTTAAGGGATAAG-
1 GTTTAAGGTTTAAGGGTTAGGA
* *
8530302 GTTTAGGGGTTTAAGGTTTAG
1 GTTTA-AGGTTTAAGGGTTAG
8530323 ATTAATTAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 21 0.40
22 31 0.60
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (22 bp):
GTTTAAGGTTTAAGGGTTAGGA
Found at i:8530286 original size:8 final size:7
Alignment explanation
Indices: 8530215--8530322 Score: 53
Period size: 7 Copynumber: 15.1 Consensus size: 7
8530205 CATGGATTAT
8530215 GGGTTTA
1 GGGTTTA
*
8530222 GGGATTA
1 GGGTTTA
* *
8530229 TGATTTA
1 GGGTTTA
*
8530236 TGGTTTA
1 GGGTTTA
*
8530243 TGGTTTAA
1 GGGTTT-A
8530251 GGG-TT-
1 GGGTTTA
8530256 GGAGTTTA
1 GG-GTTTA
*
8530264 AGGTTTA
1 GGGTTTA
8530271 TGGG-TTA
1 -GGGTTTA
8530278 GGGGTTTA
1 -GGGTTTA
8530286 GGGTTTAA
1 GGGTTT-A
*
8530294 GGG-ATA
1 GGGTTTA
*
8530300 AGGTTTA
1 GGGTTTA
8530307 GGGGTTTA
1 -GGGTTTA
*
8530315 AGGTTTA
1 GGGTTTA
8530322 G
1 G
8530323 ATTAATTAGT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 2 0.03
6 4 0.05
7 52 0.68
8 19 0.25
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:8530292 original size:29 final size:29
Alignment explanation
Indices: 8530232--8530321 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
8530222 GGGATTATGA
* *
8530232 TTTATGGTTTATGGTTTAAGGG-TT-GGAG
1 TTTAAGGTTTATGGTTTAGGGGTTTAGG-G
*
8530260 TTTAAGGTTTATGGGTTAGGGGTTTAGGG
1 TTTAAGGTTTATGGTTTAGGGGTTTAGGG
** * *
8530289 TTTAAGGGATAAGGTTTAGGGGTTTAAGG
1 TTTAAGGTTTATGGTTTAGGGGTTTAGGG
8530318 TTTA
1 TTTA
8530322 GATTAATTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
28 19 0.37
29 31 0.60
30 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (29 bp):
TTTAAGGTTTATGGTTTAGGGGTTTAGGG
Found at i:8530318 original size:15 final size:15
Alignment explanation
Indices: 8530265--8530322 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
8530255 TGGAGTTTAA
* *
8530265 GGTTTATGGGTTAGG
1 GGTTTAAGGTTTAGG
* *
8530280 GGTTTAGGGTTTAAG
1 GGTTTAAGGTTTAGG
*
8530295 GG-ATAAGGTTTAGG
1 GGTTTAAGGTTTAGG
8530309 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
8530323 ATTAATTAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
GGTTTAAGGTTTAGG
Found at i:8531511 original size:52 final size:52
Alignment explanation
Indices: 8531398--8531538 Score: 155
Period size: 52 Copynumber: 2.7 Consensus size: 52
8531388 TATCATACCA
* *
8531398 ATGCCATATCCCAGA-TATGGTCTTATACGGAA-TCACAT-TATCACATTACACCG
1 ATGCCATA-GCCAGACTATGGTCTTATACGGAAGT---ATGAATCACATTACACCG
* **
8531451 ATGCCATAGCCTAG-CTATGGTCTTATACGGGAGTATGAATCACATTGTACCG
1 ATGCCATAGCC-AGACTATGGTCTTATACGGAAGTATGAATCACATTACACCG
*
8531503 ATGCCATAGCCCGACTATGGTCTTATACGGAAGTAT
1 ATGCCATAGCCAGACTATGGTCTTATACGGAAGTAT
8531539 ATATATCACA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
51 3 0.04
52 46 0.61
53 26 0.34
54 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (52 bp):
ATGCCATAGCCAGACTATGGTCTTATACGGAAGTATGAATCACATTACACCG
Found at i:8533284 original size:131 final size:130
Alignment explanation
Indices: 8533110--8533354 Score: 409
Period size: 131 Copynumber: 1.9 Consensus size: 130
8533100 AATTTAGAGA
* * *
8533110 ACATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAT
1 ACATGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
* *
8533175 GATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
66 AATAGAGCACGATT-CCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
8533240 G
130 G
* *
8533241 ACATGAGTGAAATTCCAAAGGAATATTTGATTGTTTTGAACAAACGGGAAATCGCAACCAAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
*
8533306 AATAGAGCACGATTCCCGAATTGCCAAACATCGAGTATTGCCTTCGTTT
66 AATAGAGCACGATTCCCGAATTGCCAAACATCGAGTATTACCTTCGTTT
8533355 AGTAAATTTT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
130 34 0.32
131 72 0.68
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (130 bp):
ACATGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
AATAGAGCACGATTCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAAG
Found at i:8533617 original size:28 final size:27
Alignment explanation
Indices: 8533582--8533637 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
8533572 ACGATCATGC
* *
8533582 ATGAG-AAATAATTGATATAATAATACA
1 ATGAGAAAATAA-TAATATAACAATACA
8533609 ATGACGAAAATAATAATATAACAATACA
1 ATGA-GAAAATAATAATATAACAATACA
8533637 A
1 A
8533638 CACCACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 15 0.60
29 6 0.24
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (27 bp):
ATGAGAAAATAATAATATAACAATACA
Found at i:8543508 original size:23 final size:23
Alignment explanation
Indices: 8543426--8543512 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
8543416 CCTAATCAGT
*
8543426 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
8543448 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
8543468 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
8543491 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
8543513 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:8543752 original size:15 final size:15
Alignment explanation
Indices: 8543727--8543784 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
8543717 TCATATATAT
8543727 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
8543743 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
8543758 AATAATTTCAATCAA
1 TATAAATTCAATCAA
8543773 TATAAATTCAAT
1 TATAAATTCAAT
8543785 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:8548889 original size:42 final size:43
Alignment explanation
Indices: 8548842--8548950 Score: 148
Period size: 42 Copynumber: 2.5 Consensus size: 43
8548832 CCTGATCAGT
*
8548842 ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCT-G
1 ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCTAA
** * *
8548884 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTAAA
1 ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCT-AA
*
8548928 ATACGACATATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
8548951 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 37 0.66
44 19 0.34
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCTAA
Found at i:8548935 original size:23 final size:21
Alignment explanation
Indices: 8548842--8548924 Score: 130
Period size: 21 Copynumber: 4.0 Consensus size: 21
8548832 CCTGATCAGT
** *
8548842 ATACGACACATAAAGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
8548863 ATACGACACACAAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8548884 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8548905 ATACGACACACGAGGTGCCT
1 ATACGACACACGAGGTGCCT
8548925 AAAATACGAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.16
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:8549189 original size:15 final size:15
Alignment explanation
Indices: 8549164--8549221 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
8549154 TCATATATAT
8549164 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
8549180 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
8549195 AATAATTTCAATCAA
1 TATAAATTCAATCAA
8549210 TATAAATTCAAT
1 TATAAATTCAAT
8549222 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:8554741 original size:15 final size:15
Alignment explanation
Indices: 8554719--8554798 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
8554709 GTATCTTGGG
*
8554719 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
8554734 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
8554749 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
8554764 TTT-TTCTA-TCTTGAA
1 TTTCTT-TATTC-TGGA
*
8554779 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
8554793 TTTCTT
1 TTTCTT
8554799 GTTATCTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 13 0.25
15 34 0.64
16 6 0.11
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:8554755 original size:30 final size:30
Alignment explanation
Indices: 8554710--8554787 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
8554700 CATAGTATCG
**
8554710 TATCTTGGGTTTCTTTATCCTGGATCTTTT-
1 TATCTTGAATTTCTTTATCCTGGAT-TTTTC
* * *
8554740 TAT-TCTGGATTTCTTTATTCTGGGTTTTTC
1 TATCT-TGAATTTCTTTATCCTGGATTTTTC
8554770 TATCTTGAATTTCTTTAT
1 TATCTTGAATTTCTTTAT
8554788 TCGGTTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.12
30 35 0.85
31 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.14, T:0.59
Consensus pattern (30 bp):
TATCTTGAATTTCTTTATCCTGGATTTTTC
Found at i:8556775 original size:16 final size:16
Alignment explanation
Indices: 8556750--8556780 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8556740 AGTTTAGGGG
*
8556750 CAAAACTATAATTTTT
1 CAAAAATATAATTTTT
8556766 CAAAAATATAATTTT
1 CAAAAATATAATTTT
8556781 GGGTCAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (16 bp):
CAAAAATATAATTTTT
Found at i:8563629 original size:18 final size:18
Alignment explanation
Indices: 8563606--8563666 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
8563596 GAACAATTAT
*
8563606 TTATTCAATAATAGTCAG
1 TTATTCAATAATAATCAG
** * *
8563624 TTATTCGGTAACAATCAA
1 TTATTCAATAATAATCAG
* *
8563642 ATATTCAATAATAACCAG
1 TTATTCAATAATAATCAG
8563660 TTATTCA
1 TTATTCA
8563667 GTATCGATCA
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATTCAATAATAATCAG
Found at i:8563712 original size:18 final size:18
Alignment explanation
Indices: 8563686--8563780 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
8563676 AATTGATCCG
* *
8563686 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
8563704 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
8563722 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
* *
8563739 GTTATTTAGTAACAGTC-A
1 -TTATTCAGTAACAATCAA
* *
8563757 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
8563776 TTATT
1 TTATT
8563781 TTATACCTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
17 17 0.28
18 30 0.49
19 14 0.23
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:8563955 original size:6 final size:6
Alignment explanation
Indices: 8563944--8563968 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8563934 ACAAATCTGG
8563944 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
8563969 TAGTAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:8564023 original size:45 final size:45
Alignment explanation
Indices: 8563960--8564063 Score: 174
Period size: 45 Copynumber: 2.3 Consensus size: 45
8563950 AACAGTAACA
*
8563960 GTAACAGT-ATAGTAACAATATCCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATCCGACACACAAAGTGCCGAATCG
*
8564004 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATCCGACACACAAAGTGCCGAATCG
*
8564049 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
8564064 GCGGTAACAG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 8 0.14
45 48 0.86
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATCCGACACACAAAGTGCCGAATCG
Found at i:8565608 original size:20 final size:21
Alignment explanation
Indices: 8565573--8565612 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8565563 CTGCTCTCTG
*
8565573 TTTCGTTTCATTTTGTTTCTA
1 TTTCCTTTCATTTTGTTTCTA
8565594 TTTCCTTTC-TTTTGTTTCT
1 TTTCCTTTCATTTTGTTTCT
8565613 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTCCTTTCATTTTGTTTCTA
Found at i:8565677 original size:8 final size:8
Alignment explanation
Indices: 8565664--8565692 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8565654 TATCTTTATT
8565664 ATATAATA
1 ATATAATA
8565672 ATATAATA
1 ATATAATA
8565680 ATATAATA
1 ATATAATA
8565688 ATATA
1 ATATA
8565693 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:8568892 original size:131 final size:131
Alignment explanation
Indices: 8568635--8568880 Score: 413
Period size: 131 Copynumber: 1.9 Consensus size: 131
8568625 AATTTAGAGA
* *
8568635 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACAGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
* *
8568700 GATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
66 GATAGAGCACGATTCCCCGAATGGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
8568765 G
131 G
* * *
8568766 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCTAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
*
8568831 GATAGAGCACGATT-CCCGAATGGCCAAACATCGAGTATTGCCTTCGTTTT
66 GATAGAGCACGATTCCCCGAATGGCCAAACATCGAGTATTACCTTCGTTTT
8568881 AGTGAATTTT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
130 34 0.32
131 73 0.68
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (131 bp):
ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
GATAGAGCACGATTCCCCGAATGGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
G
Found at i:8576173 original size:52 final size:52
Alignment explanation
Indices: 8576105--8576206 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
8576095 GAATCACATT
* * *
8576105 ATCACATTACACCGATGCCATAGCCTAGCTATGGTCTTATACAGG-AGTATGA
1 ATCACATTACACCGATGCCATAACCCAGCTATAGTCTTATAC-GGAAGTATGA
** *
8576157 ATCACATTGTACCGATGCCATAACCCGGCTATAGTCTTATACGGAAGTAT
1 ATCACATTACACCGATGCCATAACCCAGCTATAGTCTTATACGGAAGTAT
8576207 ATATATCACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (52 bp):
ATCACATTACACCGATGCCATAACCCAGCTATAGTCTTATACGGAAGTATGA
Found at i:8581157 original size:13 final size:14
Alignment explanation
Indices: 8581139--8581173 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
8581129 ATTGCTCATT
8581139 TATTTAAA-CATAA
1 TATTTAAATCATAA
8581152 TATTTAAATCATAA
1 TATTTAAATCATAA
8581166 -ATTTAAAT
1 TATTTAAAT
8581174 TCATTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTTAAATCATAA
Found at i:8581177 original size:14 final size:13
Alignment explanation
Indices: 8581140--8581183 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
8581130 TTGCTCATTT
8581140 ATTTAAA-CATAA
1 ATTTAAATCATAA
8581152 TATTTAAATCATAA
1 -ATTTAAATCATAA
*
8581166 ATTTAAATTCATTA
1 ATTTAAA-TCATAA
8581180 ATTT
1 ATTT
8581184 TTATATTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 14 0.50
14 14 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAAATCATAA
Found at i:8581456 original size:42 final size:43
Alignment explanation
Indices: 8581340--8581697 Score: 322
Period size: 42 Copynumber: 8.5 Consensus size: 43
8581330 AAATATTTTT
* * * *
8581340 TAAAGGTCATGTTCTTTAGTGGCGTTTGTAGGAAAAACGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * ** * *
8581383 TAAAGG-CCTGTTTTATA-CTGGTTTTTTTGGGAAAAGCGTCGC
1 TAAAGGTCATGTTCTATAGC-GGCGTTTGTGGGAAAAGCGCCGC
* *
8581425 TAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * * **
8581467 TGAAGGTCATATTCTATAGCTGTGTTTGTGGG-AGAGCACCAT
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
8581509 TAAAGGTCATGTTCTAT---GGCGTTTGTGGGAAAAGCG-TGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
8581548 TAAAAGTCTTGTTCTATTGCAGCTTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
8581591 TAAAAGTCTTGTTCTATAGCGGCCTTTGT-GGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * **
8581633 TAAAGGTCTTGTTCTATAGTGGCATTTGTGAAAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
8581676 TAAAAGTCAT-TTCTATAGCGGC
1 TAAAGGTCATGTTCTATAGCGGC
8581698 ATTTTTCTAT
Statistics
Matches: 255, Mismatches: 50, Indels: 21
0.78 0.15 0.06
Matches are distributed among these distances:
39 25 0.10
40 4 0.02
42 152 0.60
43 74 0.29
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:8581637 original size:124 final size:124
Alignment explanation
Indices: 8581410--8581682 Score: 305
Period size: 124 Copynumber: 2.2 Consensus size: 124
8581400 CTGGTTTTTT
* * * *
8581410 TGGGAAAAGCGTCGCTAAAGGTTTGTTCTATAGCGGCGTTTGTGGGAAAAGCACCGCTGAAGGTC
1 TGGGAAAAGCGTCGCTAAAAGTTTGTTCTATAGCAGCGTTTGTGGGAAAAGCACCGCTAAAAGTC
* ** * * *
8581475 ATATTCTATAGCTGTGTTTGTGGGAGAGCACCATTAAAGGTCATGTTCTATGGCGTTTG
66 ATATTCTATAGCGGCCTTTGTGGAAAAGCACCACTAAAGGTCATGTTCTATGGCGTTTG
* * *
8581534 TGGGAAAAGCGT-GCTAAAAGTCTTGTTCTATTGCAGCTTTTGTGGGAAAAGCGCCGCTAAAAGT
1 TGGGAAAAGCGTCGCTAAAAGT-TTGTTCTATAGCAGCGTTTGTGGGAAAAGCACCGCTAAAAGT
* * * * * *
8581598 CTTGTTCTATAGCGGCCTTTGTGGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGTGGCATTTG
65 CATATTCTATAGCGGCCTTTGTGGAAAAGCACCACTAAAGGTCATGTTC--TA-TGGCGTTTG
** *
8581661 TGAAAAAAGCGCCGCTAAAAGT
1 TGGGAAAAGCGTCGCTAAAAGT
8581683 CATTTCTATA
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
123 8 0.07
124 86 0.70
126 2 0.02
127 17 0.14
128 9 0.07
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (124 bp):
TGGGAAAAGCGTCGCTAAAAGTTTGTTCTATAGCAGCGTTTGTGGGAAAAGCACCGCTAAAAGTC
ATATTCTATAGCGGCCTTTGTGGAAAAGCACCACTAAAGGTCATGTTCTATGGCGTTTG
Found at i:8582117 original size:22 final size:23
Alignment explanation
Indices: 8582092--8582140 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8582082 AAAAGCAGAT
*
8582092 AAGTATTAAA-TCAGGAGCACCA
1 AAGTACTAAATTCAGGAGCACCA
* *
8582114 AAGTGCTAAATTCAGGAGCACCG
1 AAGTACTAAATTCAGGAGCACCA
8582137 AAGT
1 AAGT
8582141 GCAAGTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (23 bp):
AAGTACTAAATTCAGGAGCACCA
Found at i:8582132 original size:23 final size:23
Alignment explanation
Indices: 8582098--8582173 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
8582088 AGATAAGTAT
8582098 TAAA-TCAGGAGCACCAAAGTGC
1 TAAATTCAGGAGCACCAAAGTGC
*
8582120 TAAATTCAGGAGCACCGAAGTGC
1 TAAATTCAGGAGCACCAAAGTGC
* * *
8582143 -AAGTTTCAAGAGCACTAGAA-TGC
1 TAA-ATTCAGGAGCACCA-AAGTGC
8582166 TAAATTCA
1 TAAATTCA
8582174 TGAACGCGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 6 0.14
23 34 0.77
24 4 0.09
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (23 bp):
TAAATTCAGGAGCACCAAAGTGC
Found at i:8585317 original size:20 final size:20
Alignment explanation
Indices: 8585292--8585366 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
8585282 GAATTTTATA
8585292 GAATCAAAGTTACATAAATT
1 GAATCAAAGTTACATAAATT
* * *
8585312 GAATCAAATTATTACTTTTTAATTATA
1 GAATCAAA--GTTAC---ATAA--ATT
8585339 GAATCAAAGTTACATAAATT
1 GAATCAAAGTTACATAAATT
8585359 GAATCAAA
1 GAATCAAA
8585367 TTTTTACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 18 0.43
22 7 0.17
25 7 0.17
27 10 0.24
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (20 bp):
GAATCAAAGTTACATAAATT
Found at i:8592283 original size:2 final size:2
Alignment explanation
Indices: 8592276--8592309 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8592266 TTTTAGTTCA
8592276 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8592310 CTTTAAGGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8594274 original size:26 final size:26
Alignment explanation
Indices: 8594245--8594352 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
8594235 ATACAAATTA
8594245 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
8594271 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
8594297 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
8594323 ATAATGGTTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
8594349 ATAA
1 ATAA
8594353 GAATTTCATG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:8596531 original size:136 final size:137
Alignment explanation
Indices: 8596131--8596553 Score: 785
Period size: 137 Copynumber: 3.1 Consensus size: 137
8596121 GAGTAGTCTC
8596131 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
8596196 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
8596261 ACTGTTA
131 ACTGTTA
*
8596268 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
8596333 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
8596398 ACTGTTA
131 ACTGTTA
*
8596405 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
8596469 TGTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
8596534 ACTGTTA
131 ACTGTTA
**
8596541 CCTGAATGGGCTT
1 CCCAAATGGGCTT
8596554 AGGCCCAATG
Statistics
Matches: 278, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 123 0.44
137 155 0.56
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:8600337 original size:25 final size:25
Alignment explanation
Indices: 8600308--8600413 Score: 178
Period size: 25 Copynumber: 4.2 Consensus size: 25
8600298 TGATACAAAT
8600308 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
8600333 TGATAATGGTTAGGTAAAT-TTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
8600357 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
8600383 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
8600408 TGATAA
1 TGATAA
8600414 GAATTTCATG
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 12 0.15
25 55 0.71
26 11 0.14
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:8600788 original size:13 final size:13
Alignment explanation
Indices: 8600770--8600800 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
8600760 ATAGTGAAGT
8600770 TGAGCCAAACAAA
1 TGAGCCAAACAAA
8600783 TGAGCCAAACAAA
1 TGAGCCAAACAAA
8600796 TGAGC
1 TGAGC
8600801 ATGCATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (13 bp):
TGAGCCAAACAAA
Found at i:8601955 original size:25 final size:25
Alignment explanation
Indices: 8601907--8601955 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8601897 ACAGTTTTAC
8601907 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
8601932 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
8601956 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:8602447 original size:137 final size:136
Alignment explanation
Indices: 8602201--8602616 Score: 754
Period size: 137 Copynumber: 3.1 Consensus size: 136
8602191 GAGTAGTCTC
8602201 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
8602266 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA-C
8602331 ACTGTTA
130 ACTGTTA
8602338 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
8602403 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACA
8602468 CTGTTA
131 CTGTTA
*
8602474 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGG-CATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
8602537 TGTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG--CAGTAC-
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACA
8602598 CTGTTA
131 CTGTTA
**
8602604 CCTGAATGGGCTT
1 CCCAAATGGGCTT
8602617 AGGCCCAAGG
Statistics
Matches: 276, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
130 17 0.06
131 6 0.02
133 41 0.15
134 19 0.07
135 37 0.13
136 28 0.10
137 128 0.46
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACA
CTGTTA
Found at i:8603580 original size:38 final size:37
Alignment explanation
Indices: 8603536--8603646 Score: 106
Period size: 38 Copynumber: 3.0 Consensus size: 37
8603526 TAATTATGTA
8603536 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
8603573 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
8603610 AA-AT-TATAATTTATATTATTAAATTATTATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
8603647 ATTATTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.13
36 9 0.15
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:8603600 original size:3 final size:3
Alignment explanation
Indices: 8603587--8603653 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
8603577 ATATAGATAT
* * *
8603587 TTA TTA TTTA TTA TTA TT- CTA TTA -AA TTA TAA TT- TATA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
8603631 -AA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
8603654 AAAATAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
2 4 0.08
3 42 0.84
4 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8603615 original size:23 final size:21
Alignment explanation
Indices: 8603589--8603650 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
8603579 ATAGATATTT
8603589 ATTATTTATTATTATTCTATTAA
1 ATTA-TTATTATTATT-TATTAA
*
8603612 ATTA-TAAT-TTATATTATTAA
1 ATTATTATTATTAT-TTATTAA
8603632 ATTATTATTATTA-TTATTA
1 ATTATTATTATTATTTATTA
8603651 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 20 0.59
21 7 0.21
22 3 0.09
23 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTATTTATTAA
Found at i:8603651 original size:23 final size:23
Alignment explanation
Indices: 8603587--8603655 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
8603577 ATATAGATAT
8603587 TTATTATTTATTATTATTCTATTAAA
1 TTATTA-TTATTATTA-T-TATTAAA
*
8603613 TTA-TAAT-TTA-TATTATTAAA
1 TTATTATTATTATTATTATTAAA
8603633 TTATTATTATTATTATTATTAAA
1 TTATTATTATTATTATTATTAAA
8603656 AATAAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 10 0.26
21 4 0.11
22 5 0.13
23 13 0.34
24 1 0.03
25 2 0.05
26 3 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTATTATTATTATTATTAAA
Found at i:8603911 original size:3 final size:3
Alignment explanation
Indices: 8603898--8603946 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
8603888 AATAAGATAT
*
8603898 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8603946 T
1 T
8603947 AAAGTTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8605097 original size:45 final size:45
Alignment explanation
Indices: 8605046--8605158 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
8605036 CGACTACTGT
8605046 TACTGTTACCGTTACTGTTACTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACTGATTCAG-CACTTTGTGTGTCGAA
* *
8605091 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
* * * *
8605136 TATTGTTACTGTTATTGCTACTG
1 TACTGTTACCGTTACTGTTACTG
8605159 CTACCGTTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
Found at i:8611744 original size:43 final size:44
Alignment explanation
Indices: 8611653--8611764 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 44
8611643 ACAGGACAGA
* *
8611653 ACAGAAATGAGCCATGTAAGTCCATATTAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* *
8611697 ACAGGATTGAGCCATGTAAGTCCATA-TATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
8611740 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
8611765 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 36 0.60
44 24 0.40
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:8617833 original size:46 final size:44
Alignment explanation
Indices: 8617774--8617888 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
8617764 ACAGGACAGA
* *
8617774 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
8617820 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
8617864 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
8617889 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:8617869 original size:44 final size:45
Alignment explanation
Indices: 8617774--8617907 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
8617764 ACAGGACAGA
* *
8617774 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
8617820 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
8617864 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
8617908 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:8626071 original size:31 final size:32
Alignment explanation
Indices: 8626033--8626097 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
8626023 TTAAGTATTG
8626033 TTATCCCACATCTTTTATATATT-GAATTTTT
1 TTATCCCACATCTTTTATATATTAGAATTTTT
*
8626064 TTATCCCACATCTTTTATATATTAGATTTTTT
1 TTATCCCACATCTTTTATATATTAGAATTTTT
8626096 TT
1 TT
8626098 TTACTTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (32 bp):
TTATCCCACATCTTTTATATATTAGAATTTTT
Found at i:8638978 original size:5 final size:5
Alignment explanation
Indices: 8638968--8639014 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
8638958 AGGTAACCTG
* *
8638968 CTGTT CTGTT CTGTC CTGTT CT-TCT GCTGTT CTGTT CTGTC CTGTT C
1 CTGTT CTGTT CTGTT CTGTT CTGT-T -CTGTT CTGTT CTGTT CTGTT C
8639015 CTTTCATTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 1 0.03
5 30 0.86
6 3 0.09
7 1 0.03
ACGTcount: A:0.00, C:0.28, G:0.19, T:0.53
Consensus pattern (5 bp):
CTGTT
Found at i:8639001 original size:26 final size:26
Alignment explanation
Indices: 8638965--8639014 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
8638955 TTAAGGTAAC
8638965 CTGCTGTTCTGTTCTGTCCTGTTCTT
1 CTGCTGTTCTGTTCTGTCCTGTTCTT
8638991 CTGCTGTTCTGTTCTGTCCTGTTC
1 CTGCTGTTCTGTTCTGTCCTGTTC
8639015 CTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.00, C:0.28, G:0.20, T:0.52
Consensus pattern (26 bp):
CTGCTGTTCTGTTCTGTCCTGTTCTT
Found at i:8641443 original size:6 final size:6
Alignment explanation
Indices: 8641432--8641461 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8641422 TCACATCCTT
8641432 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
8641462 CTTCTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:8642016 original size:42 final size:42
Alignment explanation
Indices: 8641969--8642052 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
8641959 AATCCTAATT
**
8641969 GGGAAAATAATTCTCTTATTCTAAGAAACTACTAAAACATAA
1 GGGAAAATAATTCTCTTAAACTAAGAAACTACTAAAACATAA
* * *
8642011 GGGAAAATAGTTCTCTTAAACTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCTCTTAAACTAAGAAACTACTAAAACATAA
8642053 AATAAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCTCTTAAACTAAGAAACTACTAAAACATAA
Found at i:8642105 original size:19 final size:18
Alignment explanation
Indices: 8642083--8642122 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
8642073 TGAATAAAAC
8642083 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
8642102 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
8642120 TTA
1 TTA
8642123 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:8645077 original size:33 final size:33
Alignment explanation
Indices: 8645035--8645158 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
8645025 TTTCTTCTTG
*
8645035 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
8645068 ACATTCCAGCTCCTGTCCAGCAATCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
8645101 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
8645134 ACATTCCAGCTCCTGTCTAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
8645159 TGAAACAGAG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.30, C:0.41, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:8656079 original size:20 final size:19
Alignment explanation
Indices: 8656045--8656082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8656035 TTTATTAACA
8656045 AAATTTAAAAAAAAAATTT
1 AAATTTAAAAAAAAAATTT
*
8656064 AAATTCTAAAATAAAAATT
1 AAATT-TAAAAAAAAAATT
8656083 ATTATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTTAAAAAAAAAATTT
Found at i:8657225 original size:33 final size:32
Alignment explanation
Indices: 8657180--8657249 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 32
8657170 ATGTCCAAAC
* * *
8657180 AATAACAATAAAATAGTAGTAACATAATAAGAA
1 AATAACAATAAAATAGTAGGAAAACAATAA-AA
*
8657213 AATAACATTAAAATAGTAGGAAAACAATAAAA
1 AATAACAATAAAATAGTAGGAAAACAATAAAA
8657245 AATAA
1 AATAA
8657250 TAGAAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.20
Consensus pattern (32 bp):
AATAACAATAAAATAGTAGGAAAACAATAAAA
Found at i:8657248 original size:21 final size:22
Alignment explanation
Indices: 8657222--8657271 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
8657212 AAATAACATT
* *
8657222 AAAATAGTAGGAAAACAATAA-
1 AAAATAGTAGAAAAACAACAAC
*
8657243 AAAATAATAGAAAAACAACAAC
1 AAAATAGTAGAAAAACAACAAC
8657265 AAAATAG
1 AAAATAG
8657272 GAAGTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.70, C:0.08, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATAGTAGAAAAACAACAAC
Found at i:8659765 original size:42 final size:43
Alignment explanation
Indices: 8659670--8659908 Score: 261
Period size: 42 Copynumber: 5.6 Consensus size: 43
8659660 GTTTATGAAA
* * *
8659670 AAACGCCGCTATAGAACATAACCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
8659713 AAACTCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * **
8659755 AAACGTCGCTAAAGAACATGACCTTTAGCAGTACTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * *
8659798 AAACGCCGCTATAGAACA-GACCTTTAGCGACGCTTTTGCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* ** * ** * *
8659840 AAATGCCATTATA-AA-ATAGACCTTTAGTTGCACTTTTCTCAC
1 AAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCCCAC
*
8659882 AAACGCCGCTAAATAACATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
8659909 AAAAATTATT
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 93 0.57
43 64 0.40
44 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:8659779 original size:85 final size:85
Alignment explanation
Indices: 8659670--8659908 Score: 279
Period size: 85 Copynumber: 2.8 Consensus size: 85
8659660 GTTTATGAAA
* * *
8659670 AAACGCCGCTATAGAACATAACCTTTAGAGGCGCTTTTCCCACAAACTCCGCTAAAGAACATGAC
1 AAACGCCGCTATAGAACATGACCTTTAGA-GCACTTTTCCCACAAACGCCGCTAAAGAACATGAC
*
8659735 CTTTAGCGGCGC-TTTCCCAC
65 CTTTAGCGACGCTTTTCCCAC
* * * *
8659755 AAACGTCGCTAAAGAACATGACCTTTAGCAGTACTTTTCCCACAAACGCCGCTATAGAACA-GAC
1 AAACGCCGCTATAGAACATGACCTTTAG-AGCACTTTTCCCACAAACGCCGCTAAAGAACATGAC
*
8659819 CTTTAGCGACGCTTTTGCCAC
65 CTTTAGCGACGCTTTTCCCAC
* ** * * *
8659840 AAATGCCATTATA-AA-ATAGACCTTTAGTTGCACTTTTCTCACAAACGCCGCTAAATAACATGA
1 AAACGCCGCTATAGAACAT-GACCTTTAG-AGCACTTTTCCCACAAACGCCGCTAAAGAACATGA
8659903 CCTTTA
64 CCTTTA
8659909 AAAAATTATT
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
83 2 0.02
84 52 0.40
85 75 0.58
86 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTATAGAACATGACCTTTAGAGCACTTTTCCCACAAACGCCGCTAAAGAACATGACC
TTTAGCGACGCTTTTCCCAC
Found at i:8663351 original size:18 final size:18
Alignment explanation
Indices: 8663295--8663353 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 18
8663285 CAAAAAAAAC
* *
8663295 AAAAAAATTCAAAATGTG
1 AAAAAATTTCAAAATATG
** *
8663313 AAAAAAATAACAAAA-A-C
1 -AAAAAATTTCAAAATATG
8663330 AAAAAATTTCAAAATATG
1 AAAAAATTTCAAAATATG
8663348 AAAAAA
1 AAAAAA
8663354 AAATTGTTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
16 12 0.40
17 1 0.03
18 6 0.20
19 11 0.37
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAAATTTCAAAATATG
Found at i:8663781 original size:14 final size:14
Alignment explanation
Indices: 8663764--8663876 Score: 66
Period size: 14 Copynumber: 7.5 Consensus size: 14
8663754 ACCCTTGACA
8663764 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
8663778 CCT-AACTCTTAAAC
1 CCTAAAC-CTTAAAC
* * *
8663792 CATAAACCATAATC
1 CCTAAACCTTAAAC
*
8663806 CATAAACCTTAAAATAGGAAC
1 CCTAAACC-T----TA--AAC
8663827 TCCTAAACCTTAAAC
1 -CCTAAACCTTAAAC
* **
8663842 CCTAAACCATACTC
1 CCTAAACCTTAAAC
*
8663856 TCTAAACCTTAAAC
1 CCTAAACCTTAAAC
8663870 CCTAAAC
1 CCTAAAC
8663877 TAAAATGATA
Statistics
Matches: 75, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
13 3 0.04
14 52 0.69
15 6 0.08
17 2 0.03
19 2 0.03
21 3 0.04
22 7 0.09
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:8663790 original size:21 final size:21
Alignment explanation
Indices: 8663766--8663846 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
8663756 CCTTGACACC
*
8663766 TAAACCTTAAACCCTAACTCT
1 TAAACCTTAAACCCTAACTCA
* *
8663787 TAAACCATAAACCATAA-TCCA
1 TAAACCTTAAACCCTAACT-CA
**** *
8663808 TAAACCTTAAAATAGGAACTCC
1 TAAACCTT-AAACCCTAACTCA
8663830 TAAACCTTAAACCCTAA
1 TAAACCTTAAACCCTAA
8663847 ACCATACTCT
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.64
22 14 0.32
23 1 0.02
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACCCTAACTCA
Found at i:8664339 original size:40 final size:40
Alignment explanation
Indices: 8664314--8664406 Score: 111
Period size: 38 Copynumber: 2.4 Consensus size: 40
8664304 GATTTTTAGA
*
8664314 AAGCACCGCTAATGCTCGATCTATAGCGGAGTTTTTCAAG
1 AAGCACCGCTAATGCTCAATCTATAGCGGAGTTTTTCAAG
* *
8664354 AAGCGCCGCTAATGCTCAATC--TAGCGGCA-TTTTTCAAA
1 AAGCACCGCTAATGCTCAATCTATAGCGG-AGTTTTTCAAG
**
8664392 AAGCGTCGCTAATGC
1 AAGCACCGCTAATGC
8664407 CACTAAAGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 28 0.58
39 1 0.02
40 19 0.40
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
AAGCACCGCTAATGCTCAATCTATAGCGGAGTTTTTCAAG
Found at i:8664388 original size:38 final size:38
Alignment explanation
Indices: 8664262--8664406 Score: 141
Period size: 40 Copynumber: 3.7 Consensus size: 38
8664252 ATTTTTTGCT
* * * *
8664262 GCATTTTTCAAAAAGCGCCGCTAACGGTCAACTTATAGCT
1 GCATTTTTCAAAAAGCGCCGCTAATGCTCAA--TCTAGCG
* * *
8664302 GCGATTTTT-AGAAAGCACCGCTAATGCTCGATCTATAGCG
1 GC-ATTTTTCAAAAAGCGCCGCTAATGCTCAATC--TAGCG
*
8664342 G-AGTTTTTCAAGAAGCGCCGCTAATGCTCAATCTAGCG
1 GCA-TTTTTCAAAAAGCGCCGCTAATGCTCAATCTAGCG
*
8664380 GCATTTTTCAAAAAGCGTCGCTAATGC
1 GCATTTTTCAAAAAGCGCCGCTAATGC
8664407 CACTAAAGCT
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 30 0.35
39 6 0.07
40 44 0.51
41 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (38 bp):
GCATTTTTCAAAAAGCGCCGCTAATGCTCAATCTAGCG
Found at i:8664515 original size:40 final size:40
Alignment explanation
Indices: 8664455--8664835 Score: 240
Period size: 40 Copynumber: 9.7 Consensus size: 40
8664445 TTTTTTGTGA
*
8664455 CGTTTTTCAAAAAGCGCCTCTAATGCTCGATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* * * *
8664495 CGTTTTTCAAAAAGCACCTCTAATGCTCGATCTATAGTGA
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* * * * * *
8664535 CATTTTTCAAAAAGCACCGCTAATACTTGATCTATAACGG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* * * * * * *
8664575 CATTTTTCAAAAAGTGTCACTAATTCTCGATTTACAGCGA
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* * * * *
8664615 TGTTTTCCAAAAAGCGTCACTAATGC-C-A-CTAAAGC-T
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
**** * * * * * * * *
8664651 C-AACAT-AAAACGACGGC-GT--TGTCCCTAATTTTTATGTGG
1 CGTTTTTCAAAAAG-CGCCACTAATG-CTC-GATCTATA-GCGG
* * *
8664690 CGTTTTTCAAAAAGCGCCCCTAATGGTCGACCTATAGCGG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* * *
8664730 TGTTTTTCAGAAAGCGCCACTAATGCTCAATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* **
8664770 CGTTTTTCAAAAAGAGTTACTAATGCTCGATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
* * *
8664810 TGTTTTTCAAAAAGTGCCGCTAATGC
1 CGTTTTTCAAAAAGCGCCACTAATGC
8664836 CACTAATGCT
Statistics
Matches: 255, Mismatches: 73, Indels: 26
0.72 0.21 0.07
Matches are distributed among these distances:
32 2 0.01
33 1 0.00
34 7 0.03
35 3 0.01
36 1 0.00
37 7 0.03
38 2 0.01
39 2 0.01
40 217 0.85
41 10 0.04
42 1 0.00
43 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGG
Found at i:8664520 original size:192 final size:193
Alignment explanation
Indices: 8664185--8664598 Score: 534
Period size: 192 Copynumber: 2.1 Consensus size: 193
8664175 AATGTTTTTT
* *
8664185 ACGGCGTTTTTCAAAAAGCCTCGCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTCTTACT
1 ACGGCATTTTTCAAAAAGCGTCGCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTCTTACT
* * *
8664250 GAATTTTTTGCTGCATTTTTCAAAAAGCGCCGCTAACGGTCAACTTATAGCTGCGATTTTTAGAA
66 GAATTTTTTGCTGCATTTTTCAAAAAGCGCCGCTAACGCTCAACTTATAGCGGCGATTTTTAAAA
* * * *
8664315 AGCACCGCTAATGCTCGATCTATAGCGGA-GTTTTTCAAGAAGCGCCGCTAATGCTCAATC-TA
131 AGCACCGCTAATGCTCGATCTATAG-GGACATTTTTCAAAAAGCACCGCTAATACTCAATCATA
* *
8664377 GCGGCATTTTTCAAAAAGCGTCGCTAATGCCACTAAAGCTCAACATAAAACGACGGCGT-TGTGC
1 ACGGCATTTTTCAAAAAGCGTCGCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTCT-TAC
* * * * *
8664441 TTAATTTTTTG-TGACGTTTTTCAAAAAGCGCCTCTAATGCTCGA-TCTATAGCGGCG-TTTTTC
65 TGAATTTTTTGCTG-CATTTTTCAAAAAGCGCCGCTAACGCTCAACT-TATAGCGGCGATTTTT-
* * **
8664503 AAAAAGCACCTCTAATGCTCGATCTATAGTGACATTTTTCAAAAAGCACCGCTAATACTTGATCT
127 AAAAAGCACCGCTAATGCTCGATCTATAGGGACATTTTTCAAAAAGCACCGCTAATACTCAATC-
8664568 ATA
191 ATA
* *
8664571 ACGGCATTTTTCAAAAAGTGTCACTAAT
1 ACGGCATTTTTCAAAAAGCGTCGCTAAT
8664599 TCTCGATTTA
Statistics
Matches: 192, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
191 11 0.06
192 154 0.80
194 27 0.14
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (193 bp):
ACGGCATTTTTCAAAAAGCGTCGCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTCTTACT
GAATTTTTTGCTGCATTTTTCAAAAAGCGCCGCTAACGCTCAACTTATAGCGGCGATTTTTAAAA
AGCACCGCTAATGCTCGATCTATAGGGACATTTTTCAAAAAGCACCGCTAATACTCAATCATA
Found at i:8664778 original size:235 final size:232
Alignment explanation
Indices: 8664265--8664835 Score: 684
Period size: 235 Copynumber: 2.4 Consensus size: 232
8664255 TTTTGCTGCA
* * * * * *
8664265 TTTTTCAAAAAGCGCCGCTAACGGTCAA-CTTATAGCTGCGATTTTT-AGAAAGCACCGCTAATG
1 TTTTTCAAAAAGCGCCACTAATGCTCAATC-TATAGCGGCG-TTTTTCAAAAAGCACCGCTAATA
* * * *
8664328 CTCGATCTATAGCGGAGTTTTTCAAGAAGCGCCGCTAATGCTCAATCTAGCGGCATTTTTCAAAA
64 CTCGATCTATAACGGAGTTTTTCAAAAAGCGCCACTAATGCTCAATCTAGCAGCATTTTTCAAAA
* * *
8664393 AGCGTCGCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAATTTTTTGTGACGT
129 AGCGTCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTTGTGACGT
* *
8664458 TTTTCAAAAAGCGCCTCTAATGCTCGATCTATAGCGGCG
194 TTTTCAAAAAGCGCCCCTAATGCTCGACCTATAGCGGCG
* * * * * *
8664497 TTTTTCAAAAAGCACCTCTAATGCTCGATCTATAGTGACATTTTTCAAAAAGCACCGCTAATACT
1 TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATACT
* * * * * *
8664562 TGATCTATAACGGCA-TTTTTCAAAAAGTGTCACTAATTCTCGATTTA-CAGCGATGTTTTCCAA
66 CGATCTATAACGG-AGTTTTTCAAAAAGCGCCACTAATGCTCAATCTAGCAGC-AT-TTTT-CAA
*
8664625 AAAGCGTCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGTGG
127 AAAGCGTCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTT-TGTGA
* *
8664690 CGTTTTTCAAAAAGCGCCCCTAATGGTCGACCTATAGCGGTG
191 CGTTTTTCAAAAAGCGCCCCTAATGCTCGACCTATAGCGGCG
* *** *
8664732 TTTTTCAGAAAGCGCCACTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAG-AGTTACTAATGC
1 TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCA-CCGCTAATAC
* * * *
8664796 TCGATCTATAGCGGTGTTTTTCAAAAAGTGCCGCTAATGC
65 TCGATCTATAACGGAGTTTTTCAAAAAGCGCCACTAATGC
8664836 CACTAATGCT
Statistics
Matches: 284, Mismatches: 46, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
231 8 0.03
232 84 0.30
233 6 0.02
234 60 0.21
235 126 0.44
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (232 bp):
TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATACT
CGATCTATAACGGAGTTTTTCAAAAAGCGCCACTAATGCTCAATCTAGCAGCATTTTTCAAAAAG
CGTCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTTGTGACGTTT
TTCAAAAAGCGCCCCTAATGCTCGACCTATAGCGGCG
Found at i:8664779 original size:195 final size:195
Alignment explanation
Indices: 8664493--8664892 Score: 521
Period size: 195 Copynumber: 2.1 Consensus size: 195
8664483 GATCTATAGC
* * * *
8664493 GGCGTTTTTCAAAAAGCACCTCTAATGCTCGATCTATAGTGACATTTTTCAAAAAGCACCGCTAA
1 GGCGTTTTTCAAAAAGCACCCCTAATGCTCGACCTATAGCGACATTTTTCAAAAAGCACCACTAA
** * * *
8664558 TACTTGATCTATAACGGCATTTTTCAAAAAGTGTCACTAATTCTCGATTTACAGCGATGTTTTCC
66 TACTCAATCTATAACGGCATTTTTCAAAAAGAGTCACTAATGCTCGATCTACAGCGATGTTTTCC
*
8664623 AAAAAGCGTCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGT
131 AAAAAGCGCCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGT
* * *** * *
8664688 GGCGTTTTTCAAAAAGCGCCCCTAATGGTCGACCTATAGCGGTGTTTTTCAGAAAGCGCCACTAA
1 GGCGTTTTTCAAAAAGCACCCCTAATGCTCGACCTATAGCGACATTTTTCAAAAAGCACCACTAA
* * * * * * *
8664753 TGCTCAATCTATAGCGGCGTTTTTCAAAAAGAGTTACTAATGCTCGATCTATAGCGGTGTTTTTC
66 TACTCAATCTATAACGGCATTTTTCAAAAAGAGTCACTAATGCTCGATCTACAGCGATGTTTTCC
* * * * * *
8664818 AAAAAGTGCCGCTAATGCCACTAATGCTCAACATAAAACGACGGCGTTGTGCTTAATTTTTTTGT
131 AAAAAGCGCCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGT
*
8664883 GGCGCTTTTC
1 GGCGTTTTTC
8664893 CGCTAATGCT
Statistics
Matches: 174, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
195 174 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (195 bp):
GGCGTTTTTCAAAAAGCACCCCTAATGCTCGACCTATAGCGACATTTTTCAAAAAGCACCACTAA
TACTCAATCTATAACGGCATTTTTCAAAAAGAGTCACTAATGCTCGATCTACAGCGATGTTTTCC
AAAAAGCGCCACTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGT
Found at i:8664946 original size:195 final size:192
Alignment explanation
Indices: 8664514--8664947 Score: 451
Period size: 195 Copynumber: 2.3 Consensus size: 192
8664504 AAAAGCACCT
* *
8664514 CTAATGCTCGATCTATAGTGACATTTTTCAAAAAGCACCGCTAAT---ACT--TGATCTATAACG
1 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCT-ATGCCACTAATGATCTATAACG
* * * *
8664574 GCATTTTTCAAAAAGTGTCACTAATTCTCGATTTACAGCGATGTTTTCCAAAAAGCGTCACTAAT
65 GCATTTTTCAAAAAGAGTCACTAATGCTCGATCTACAGCGATGTTTTCCAAAAAGCGCCACTAAT
*
8664639 GCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGTGGCGTTTTTCAAAAAG
130 GCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGTGGCGCTTTTC----A-
8664704 CGCCC
190 CG--C
* * ** * * * * *
8664709 CTAATGGTCGACCTATAGCGGTGTTTTTCAGAAAGCGCCACTAATG---CTCA--ATCTATAGCG
1 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCT-ATGCCACTAATGATCTATAACG
* * * * * * *
8664769 GCGTTTTTCAAAAAGAGTTACTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGTGCCGCTAAT
65 GCATTTTTCAAAAAGAGTCACTAATGCTCGATCTACAGCGATGTTTTCCAAAAAGCGCCACTAAT
* * * *
8664834 GCCACTAATGCTCAACATAAAACGACGGCGTTGTGCTTAATTTTTTTGTGGCGCTTTTC-CG-
130 GCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGTGGCGCTTTTCACGC
8664895 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAGTGCCACTAA
1 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTA-TGCCACTAA
8664948 AACTCAACAT
Statistics
Matches: 198, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
185 1 0.01
186 37 0.19
189 5 0.03
195 155 0.78
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (192 bp):
CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTATGCCACTAATGATCTATAACGG
CATTTTTCAAAAAGAGTCACTAATGCTCGATCTACAGCGATGTTTTCCAAAAAGCGCCACTAATG
CCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGTGGCGCTTTTCACGC
Found at i:8664977 original size:106 final size:105
Alignment explanation
Indices: 8664789--8664997 Score: 319
Period size: 106 Copynumber: 2.0 Consensus size: 105
8664779 AAAAGAGTTA
** ** **
8664789 CTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGTGCCGCTAATGCCACTAATGCTCAACATAA
1 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAATGCCACTAAAACTCAACATAA
*
8664854 AACGACGGCGTTGTGCTTAATTTTTTTGTGGCGCTTTTCCG
66 AACGACGGCGTTCTGCTTAA-TTTTTTGTGGCGCTTTTCCG
*
8664895 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAGTGCCACTAAAACTCAACATAA
1 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAATGCCACTAAAACTCAACATAA
* *
8664960 AACGACGGTGTTCTGCTTAATTTTTTGTGGCGTTTTTC
66 AACGACGGCGTTCTGCTTAATTTTTTGTGGCGCTTTTC
8664998 AAAAAGCGCC
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
105 17 0.18
106 76 0.82
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (105 bp):
CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAATGCCACTAAAACTCAACATAA
AACGACGGCGTTCTGCTTAATTTTTTGTGGCGCTTTTCCG
Found at i:8665035 original size:39 final size:40
Alignment explanation
Indices: 8664988--8665505 Score: 190
Period size: 40 Copynumber: 13.2 Consensus size: 40
8664978 AATTTTTTGT
* * *
8664988 GGCGTTTTTCAAAAAGCGCCATTAATGCTTGACCTATAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
* * * * *
8665028 GGCTTTTTTCAGAAAGTGCCGCTAATGCTCGATCTATAAC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
* * ** *
8665068 GGC-ATTTTCAAAAAGTGCTGCTAATACTCGATCTATAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
* *
8665107 GGCGTTTTTCAAAAAGCGCCACCAATGC-C-A-CTAAAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
* **** * * * ** ** * * * *
8665144 -TC-AAAAT-AAAACAACGGC-GTTGTGCTTAATTTTTTTGT
1 GGCGTTTTTCAAAA-AGCGCCACTAATGCTCGA-TCTATAGC
* * *
8665182 GGCGTTTTTCAAAAAGCGCCCCTAATAG-TCGACCTATAAC
1 GGCGTTTTTCAAAAAGCGCCACTAAT-GCTCGATCTATAGC
* * *
8665222 GGCGTTTTTCAAAAAGCGCCGCTAGTGCTCGATCTTTAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
* * *
8665262 TGCGTTTTTCAAAAAGCGTCGCTAATGC-C-A-CTGA-AGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCT-ATAGC
* ** * * ** ** * * * *
8665299 -TC-AATAT--AAAA-CGACGACGTTGTGCTTAATTTTTTTGT
1 GGCGTTTTTCAAAAAGCG-CCAC-TAATGCTCGA-TCTATAGC
* * * * * *
8665337 GGCATTTTTCAAAAAGCACCGCTAATGGTCAACCTATAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
** * * * *
8665377 GGCGTTTTTCAAAAAATGCCGCTAGTACTCAATCTATAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
** * *
8665417 GGCGTTTTTCAAAAAGCGCCGTTAGTGCTCAATCTATAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
* * *
8665457 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCAATATATAGC
1 GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
*
8665497 TGCGTTTTT
1 GGCGTTTTT
8665506 TCCCCAAACG
Statistics
Matches: 343, Mismatches: 110, Indels: 50
0.68 0.22 0.10
Matches are distributed among these distances:
32 2 0.01
33 5 0.01
34 11 0.03
35 7 0.02
36 4 0.01
37 11 0.03
38 6 0.02
39 39 0.11
40 236 0.69
41 14 0.04
42 7 0.02
43 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGC
Found at i:8665163 original size:299 final size:301
Alignment explanation
Indices: 8664638--8665191 Score: 844
Period size: 299 Copynumber: 1.8 Consensus size: 301
8664628 GCGTCACTAA
* *
8664638 TGCCACTAAAGCTCAACATAAAACGACGGCGTTGTCCCTAATTTTTATGTGGCGTTTTTCAAAAA
1 TGCCACTAAAACTCAACATAAAACGACGGCGTTCTCCCTAATTTTTATGTGGCGTTTTTCAAAAA
* * *
8664703 GCGCCCCTAATGGTCGACCTATAGCGGTGTTTTTCAGAAAGCGCCACTAATGCTCAATCTATAGC
66 GCGCCACTAATGCTCGACCTATAGCGGTGTTTTTCAGAAAGCGCCACTAATGCTCAATCTATAAC
* * * * * * *
8664768 GGCGTTTTTCAAAAAGAGTTACTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGTGCCGCTAA
131 GGCGATTTTCAAAAAGAGCTACTAATACTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAA
* * *
8664833 TGCCACTAATGCTCAACATAAAACGACGGCGTTGTGCTTAATTTTTTTGTGGCGCTTTTCCGCTA
196 TGCCACTAAAGCTCAAAATAAAACAACGGCGTTGTGCTTAATTTTTTTGTGGCGCTTTTCCGCTA
8664898 ATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAG
261 ATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAG
* * *
8664939 TGCCACTAAAACTCAACATAAAACGACGGTGTTCTGCTTAATTTTT-TGTGGCGTTTTTCAAAAA
1 TGCCACTAAAACTCAACATAAAACGACGGCGTTCTCCCTAATTTTTATGTGGCGTTTTTCAAAAA
* * * * *
8665003 GCGCCATTAATGCTTGACCTATAGCGGCT-TTTTTCAGAAAGTGCCGCTAATGCTCGATCTATAA
66 GCGCCACTAATGCTCGACCTATAGCGG-TGTTTTTCAGAAAGCGCCACTAATGCTCAATCTATAA
* *
8665067 CGGC-ATTTTCAAAAAGTGCTGCTAATACTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCA
130 CGGCGATTTTCAAAAAGAGCTACTAATACTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCA
*
8665131 ATGCCACTAAAGCTCAAAATAAAACAACGGCGTTGTGCTTAATTTTTTTGTGGCGTTTTTC
195 ATGCCACTAAAGCTCAAAATAAAACAACGGCGTTGTGCTTAATTTTTTTGTGGCGCTTTTC
8665192 AAAAAGCGCC
Statistics
Matches: 226, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
299 108 0.48
300 76 0.34
301 42 0.19
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (301 bp):
TGCCACTAAAACTCAACATAAAACGACGGCGTTCTCCCTAATTTTTATGTGGCGTTTTTCAAAAA
GCGCCACTAATGCTCGACCTATAGCGGTGTTTTTCAGAAAGCGCCACTAATGCTCAATCTATAAC
GGCGATTTTCAAAAAGAGCTACTAATACTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAA
TGCCACTAAAGCTCAAAATAAAACAACGGCGTTGTGCTTAATTTTTTTGTGGCGCTTTTCCGCTA
ATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAG
Found at i:8665255 original size:194 final size:193
Alignment explanation
Indices: 8664894--8665256 Score: 530
Period size: 193 Copynumber: 1.9 Consensus size: 193
8664884 GCGCTTTTCC
* * * * *
8664894 GCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAGTGCCACTAAAACTCAACATA
1 GCTAATACTCGATCTATAGCGGCATTTTTCAAAAAGCACCACCAATGCCACTAAAACTCAAAATA
* * * *
8664959 AAACGACGGTGTTCTGCTTAATTTTTTGTGGCGTTTTTCAAAAAGCGCCATTAATGCTTGACCTA
66 AAACAACGGCGTTCTGCTTAATTTTTTGTGGCGTTTTTCAAAAAGCGCCACTAATGCTCGACCTA
* * * *
8665024 TAGCGGCTTTTTTCAGAAAGTGCCGCTAATGCTCGATCTATAACGGCATTTTCAAAAAGTGCT
131 TAACGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGGCATTTTCAAAAAGTGCT
* * *
8665087 GCTAATACTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAATGCCACTAAAGCTCAAAATA
1 GCTAATACTCGATCTATAGCGGCATTTTTCAAAAAGCACCACCAATGCCACTAAAACTCAAAATA
* *
8665152 AAACAACGGCGTTGTGCTTAATTTTTTTGTGGCGTTTTTCAAAAAGCGCCCCTAATAG-TCGACC
66 AAACAACGGCGTTCTGCTTAA-TTTTTTGTGGCGTTTTTCAAAAAGCGCCACTAAT-GCTCGACC
*
8665216 TATAACGGCGTTTTTCAAAAAGCGCCGCTAGTGCTCGATCT
129 TATAACGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCT
8665257 TTAGCTGCGT
Statistics
Matches: 149, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
193 75 0.50
194 73 0.49
195 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (193 bp):
GCTAATACTCGATCTATAGCGGCATTTTTCAAAAAGCACCACCAATGCCACTAAAACTCAAAATA
AAACAACGGCGTTCTGCTTAATTTTTTGTGGCGTTTTTCAAAAAGCGCCACTAATGCTCGACCTA
TAACGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGGCATTTTCAAAAAGTGCT
Found at i:8665320 original size:155 final size:154
Alignment explanation
Indices: 8665032--8665436 Score: 560
Period size: 155 Copynumber: 2.6 Consensus size: 154
8665022 TATAGCGGCT
* * * * * *
8665032 TTTTTCAGAAAGTGCCGCTAATGCTCGATCTATAACGGC-ATTTTCAAAAAGTGCTGCTAATACT
1 TTTTTCAAAAAGCGCCGCTAATG-TCGACCTATAACGGCGTTTTTCAAAAAGTGCCGCTAGTACT
*
8665096 CGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAATGCCACTAAAGCTCAAAATAAAACAACGG
65 CGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAATGCCACTAAAGCTCAAAATAAAACAACGA
*
8665161 CGTTGTGCTTAATTTTTTTGTGGCG
130 CGTTGTGCTTAATTTTTTTGTGGCA
* * *
8665186 TTTTTCAAAAAGCGCCCCTAATAGTCGACCTATAACGGCGTTTTTCAAAAAGCGCCGCTAGTGCT
1 TTTTTCAAAAAGCGCCGCTAAT-GTCGACCTATAACGGCGTTTTTCAAAAAGTGCCGCTAGTACT
* * * * * * * *
8665251 CGATCTTTAGCTGCGTTTTTCAAAAAGCGTCGCTAATGCCACTGAAGCTCAATATAAAACGACGA
65 CGATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAATGCCACTAAAGCTCAAAATAAAACAACGA
8665316 CGTTGTGCTTAATTTTTTTGTGGCA
130 CGTTGTGCTTAATTTTTTTGTGGCA
* * * *
8665341 TTTTTCAAAAAGCACCGCTAATGGTCAACCTATAGCGGCGTTTTTCAAAAAATGCCGCTAGTACT
1 TTTTTCAAAAAGCGCCGCTAAT-GTCGACCTATAACGGCGTTTTTCAAAAAGTGCCGCTAGTACT
*
8665406 CAATCTATAGCGGCGTTTTTCAAAAAGCGCC
65 CGATCTATAGCGGCGTTTTTCAAAAAGCGCC
8665437 GTTAGTGCTC
Statistics
Matches: 218, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
154 33 0.15
155 185 0.85
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (154 bp):
TTTTTCAAAAAGCGCCGCTAATGTCGACCTATAACGGCGTTTTTCAAAAAGTGCCGCTAGTACTC
GATCTATAGCGGCGTTTTTCAAAAAGCGCCACCAATGCCACTAAAGCTCAAAATAAAACAACGAC
GTTGTGCTTAATTTTTTTGTGGCA
Found at i:8665522 original size:41 final size:40
Alignment explanation
Indices: 8665341--8665505 Score: 231
Period size: 40 Copynumber: 4.1 Consensus size: 40
8665331 TTTTGTGGCA
* * *
8665341 TTTTTCAAAAAGCACCGCTAATGGTCAACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
** * *
8665381 TTTTTCAAAAAATGCCGCTAGTACTCAATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
* *
8665421 TTTTTCAAAAAGCGCCGTTAGTGCTCAATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
* *
8665461 TTTTTCAAAAAGCGCCGCTAATGCTCAATATATAGCTGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
8665501 TTTTT
1 TTTTT
8665506 TCCCCAAACG
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
Found at i:8671371 original size:29 final size:27
Alignment explanation
Indices: 8671295--8671372 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 27
8671285 TTTGAACCAT
8671295 AATTAAAATTTTATGTATATAATTATATCA
1 AATTAAAA--TTATGTATA-AATTATATCA
* * * *
8671325 ATTTAAAATTCATATATAACTATATATTA
1 AATTAAAATT-ATGTATAAAT-TATATCA
8671354 AATTAAAATATATGTATAA
1 AATTAAAAT-TATGTATAA
8671373 TTTTAATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 4 0.10
29 27 0.69
30 8 0.21
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (27 bp):
AATTAAAATTATGTATAAATTATATCA
Found at i:8674309 original size:14 final size:14
Alignment explanation
Indices: 8674290--8674320 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8674280 TGCTACCATT
8674290 TTACTATTATATTG
1 TTACTATTATATTG
*
8674304 TTACTATTTTATTG
1 TTACTATTATATTG
8674318 TTA
1 TTA
8674321 TCGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (14 bp):
TTACTATTATATTG
Found at i:8674385 original size:30 final size:31
Alignment explanation
Indices: 8674351--8674414 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
8674341 ACTTATTTTA
*
8674351 TTGTTAAA-TTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTTGTTATTATTTTAAAGACAT
* *
8674381 TTGTTAAATTTTTTTATTATTTTAGAGACAT
1 TTGTTAAATTTTGTTATTATTTTAAAGACAT
8674412 TTG
1 TTG
8674415 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (31 bp):
TTGTTAAATTTTGTTATTATTTTAAAGACAT
Found at i:8675558 original size:6 final size:7
Alignment explanation
Indices: 8675537--8675561 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8675527 TTTTTAAAAA
8675537 TTTATTT
1 TTTATTT
8675544 TTTATTT
1 TTTATTT
8675551 TTTATTT
1 TTTATTT
8675558 TTTA
1 TTTA
8675562 CTTTAAAAGA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:8675607 original size:27 final size:28
Alignment explanation
Indices: 8675576--8675632 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
8675566 AAAAGAGTTT
*
8675576 ATTATTATTATTAT-TTATTTGTTAAAA
1 ATTATAATTATTATGTTATTTGTTAAAA
* * *
8675603 ATTATAATTTTTATGTTTTTTGTTTAAA
1 ATTATAATTATTATGTTATTTGTTAAAA
8675631 AT
1 AT
8675633 AAGAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (28 bp):
ATTATAATTATTATGTTATTTGTTAAAA
Found at i:8675853 original size:17 final size:18
Alignment explanation
Indices: 8675825--8675858 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8675815 ATTGAACTTA
8675825 TTTTTATATTTTTTAATT
1 TTTTTATATTTTTTAATT
8675843 TTTTTAT-TTTTTTAAT
1 TTTTTATATTTTTTAAT
8675859 AATATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATATTTTTTAATT
Found at i:8675855 original size:8 final size:8
Alignment explanation
Indices: 8675822--8675856 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8675812 ACAATTGAAC
8675822 TTATTTTT
1 TTATTTTT
*
8675830 ATATTTTT
1 TTATTTTT
*
8675838 TAATTTTT
1 TTATTTTT
8675846 TTATTTTT
1 TTATTTTT
8675854 TTA
1 TTA
8675857 ATAATATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTATTTTT
Found at i:8685965 original size:25 final size:25
Alignment explanation
Indices: 8685907--8685954 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
8685897 TAAAACTAGA
*
8685907 AAAAC-TAGAATTAGACTTAAGTTT
1 AAAACTTAGGATTAGACTTAAGTTT
8685931 AAAACTTAGGATTAGACTTAAGTT
1 AAAACTTAGGATTAGACTTAAGTT
8685955 AAGAGCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (25 bp):
AAAACTTAGGATTAGACTTAAGTTT
Found at i:8690526 original size:20 final size:20
Alignment explanation
Indices: 8690503--8690552 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8690493 ATTGACTATT
* *
8690503 TATAAAATTTATTTTGAATA
1 TATAAAATATATTTTAAATA
*
8690523 TATAAACTATATTTTAAATA
1 TATAAAATATATTTTAAATA
*
8690543 T-TAAAGTATA
1 TATAAAATATA
8690553 ACCATTACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TATAAAATATATTTTAAATA
Found at i:8707778 original size:23 final size:22
Alignment explanation
Indices: 8707744--8707786 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8707734 ATTTTCTCTA
*
8707744 ATTTTTTAAATATTTCTATTTTT
1 ATTTTTTAAATAATT-TATTTTT
*
8707767 ATTTTTTTAATAATTTATTT
1 ATTTTTTAAATAATTTATTT
8707787 GATTGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTTTAAATAATTTATTTTT
Found at i:8708085 original size:26 final size:26
Alignment explanation
Indices: 8708056--8708146 Score: 119
Period size: 26 Copynumber: 3.5 Consensus size: 26
8708046 AGGAATATCT
*
8708056 GTGCTTTTGAAAAGTACTTTTGAAAA
1 GTGCTTTTGAAAAGTACTTTTGAGAA
8708082 GTGCTTTTGAAAAGTACTTTTGAGAA
1 GTGCTTTTGAAAAGTACTTTTGAGAA
** * * **
8708108 GTGCCGTGGAAAATTGTTTTTGAGAA
1 GTGCTTTTGAAAAGTACTTTTGAGAA
8708134 GTGCTTTTGAAAA
1 GTGCTTTTGAAAA
8708147 ATTTAAGTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (26 bp):
GTGCTTTTGAAAAGTACTTTTGAGAA
Found at i:8708143 original size:13 final size:13
Alignment explanation
Indices: 8708056--8708146 Score: 101
Period size: 13 Copynumber: 7.0 Consensus size: 13
8708046 AGGAATATCT
8708056 GTGCTTTTGAAAA
1 GTGCTTTTGAAAA
*
8708069 GTACTTTTGAAAA
1 GTGCTTTTGAAAA
8708082 GTGCTTTTGAAAA
1 GTGCTTTTGAAAA
* *
8708095 GTACTTTTGAGAA
1 GTGCTTTTGAAAA
** *
8708108 GTGCCGTGGAAAA
1 GTGCTTTTGAAAA
* * *
8708121 TTGTTTTTGAGAA
1 GTGCTTTTGAAAA
8708134 GTGCTTTTGAAAA
1 GTGCTTTTGAAAA
8708147 ATTTAAGTGT
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 60 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (13 bp):
GTGCTTTTGAAAA
Found at i:8711861 original size:9 final size:9
Alignment explanation
Indices: 8711847--8711871 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8711837 CTTTTATTCT
8711847 TTTATTTAC
1 TTTATTTAC
8711856 TTTATTTAC
1 TTTATTTAC
8711865 TTTATTT
1 TTTATTT
8711872 TTTAATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTTAC
Found at i:8714040 original size:46 final size:45
Alignment explanation
Indices: 8713943--8714072 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 45
8713933 TGGAGTAAGG
* * *
8713943 TGCCGATGCATGTCCCAGACATGTATTACACTGGCTTATATCTCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGC-TATATCTCAA
* * *
8713989 GGCCGATGCATGTTCCAGACATGTCTTACACTAGC-ACTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTA-T-ATCTCAA
8714035 TGCCGATGCCATGTCCCAGACATGATCTTACACTAGCT
1 TGCCGATG-CATGTCCCAGACATG-TCTTACACTAGCT
8714073 CACACAAATG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 43 0.61
47 14 0.20
48 12 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATATCTCAA
Found at i:8730137 original size:5 final size:5
Alignment explanation
Indices: 8730129--8730154 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8730119 TAATGAGATC
8730129 TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA T
8730155 TCTAGATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:8730353 original size:2 final size:2
Alignment explanation
Indices: 8730346--8730377 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8730336 ATTAATCATG
8730346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8730378 TTCTTTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8733188 original size:21 final size:21
Alignment explanation
Indices: 8733164--8733234 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
8733154 CTCTCTGAAA
8733164 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
** * *
8733185 TGAAA-GATACCAAGCAACATGAT
1 TGAAATG-T-GTAAG-ACCATGGT
8733208 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
8733230 TGAAA
1 TGAAA
8733235 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 9 0.24
23 9 0.24
24 6 0.16
25 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:8733265 original size:46 final size:46
Alignment explanation
Indices: 8733163--8733526 Score: 491
Period size: 46 Copynumber: 8.0 Consensus size: 46
8733153 GCTCTCTGAA
** * *
8733163 ATGAAATGTGTAAGACCATGGTTGAAAGATACCA-AGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
8733208 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
8733254 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
8733300 ATGAAA-AAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
8733345 AGGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
8733391 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
8733437 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
8733483 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
8733527 TCAAAGATAA
Statistics
Matches: 290, Mismatches: 26, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
45 75 0.26
46 215 0.74
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:8735595 original size:15 final size:15
Alignment explanation
Indices: 8735575--8735631 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
8735565 ATTCAATATT
8735575 AATATTTTAATAATA
1 AATATTTTAATAATA
*
8735590 AATATTTATTATATTTATA
1 AATA-TT-TTA-A-TAATA
*
8735609 AATATATTAATAATA
1 AATATTTTAATAATA
*
8735624 AATGTTTT
1 AATATTTT
8735632 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 14 0.42
16 3 0.09
17 6 0.18
18 2 0.06
19 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:8736012 original size:13 final size:14
Alignment explanation
Indices: 8735981--8736013 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8735971 TTATTTAATT
8735981 AAAAATAATTTTTA
1 AAAAATAATTTTTA
*
8735995 TAAAATAA-TTTTA
1 AAAAATAATTTTTA
8736008 AAAAAT
1 AAAAAT
8736014 CTACTAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:8739292 original size:17 final size:18
Alignment explanation
Indices: 8739272--8739307 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8739262 TTGAATAATT
*
8739272 TGGAT-ATTTTATTTAAA
1 TGGATCATTTTATTGAAA
8739289 TGGATCATTTTATTGAAA
1 TGGATCATTTTATTGAAA
8739307 T
1 T
8739308 TTTTTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (18 bp):
TGGATCATTTTATTGAAA
Found at i:8748074 original size:19 final size:19
Alignment explanation
Indices: 8748042--8748093 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
8748032 TTAAAAAATT
* *
8748042 AAAAATTATTAAAAC-AAA
1 AAAAAATATAAAAACTAAA
* *
8748060 TAAAATATGTAAAAACTAAA
1 -AAAAAATATAAAAACTAAA
8748080 AAAAAATATAAAAA
1 AAAAAATATAAAAA
8748094 AATTTATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAAATATAAAAACTAAA
Found at i:8748563 original size:2 final size:2
Alignment explanation
Indices: 8748556--8748586 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8748546 ACATGTATTT
8748556 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8748587 TAGAATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8750698 original size:16 final size:16
Alignment explanation
Indices: 8750651--8750700 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
8750641 ACCCATTTTT
*
8750651 TATATT-TATAATATAA
1 TATATTATATAAT-TTA
*
8750667 TATATTAT-TATTTTTA
1 TATATTATATA-ATTTA
8750683 TATATTATATAATTTA
1 TATATTATATAATTTA
8750699 TA
1 TA
8750701 ACACAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTATATAATTTA
Found at i:8750831 original size:27 final size:26
Alignment explanation
Indices: 8750770--8750834 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
8750760 AGATGCTTAC
*
8750770 ATATAAAATGTTAATTTACATAAAAAA
1 ATATAAAATGTTAA-TTAAATAAAAAA
8750797 ATGAATAAAATGTTAA-TAAATAAAAAAGA
1 AT--ATAAAATGTTAATTAAAT-AAAAA-A
8750826 ATATAAAAT
1 ATATAAAAT
8750835 TAGTAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 13 0.39
28 5 0.15
29 15 0.45
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (26 bp):
ATATAAAATGTTAATTAAATAAAAAA
Found at i:8761325 original size:32 final size:31
Alignment explanation
Indices: 8761254--8761315 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
8761244 AAAATAAATG
* * *
8761254 TAAATTTTAAAAAATCTTTGAATTACTGAGT
1 TAAATTTTAAAAAATCTTTGAATCAATGAGA
8761285 TAAATTTTAAAAAATCTTTGAATCAATGAGA
1 TAAATTTTAAAAAATCTTTGAATCAATGAGA
8761316 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (31 bp):
TAAATTTTAAAAAATCTTTGAATCAATGAGA
Found at i:8762665 original size:23 final size:23
Alignment explanation
Indices: 8762639--8762684 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8762629 ATAGAAAACT
8762639 GAAATAAAAACTACAATTGAAAG
1 GAAATAAAAACTACAATTGAAAG
** *
8762662 GAAATCTAAATTACAATTGAAAG
1 GAAATAAAAACTACAATTGAAAG
8762685 TAAAATTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.22
Consensus pattern (23 bp):
GAAATAAAAACTACAATTGAAAG
Done.