Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 52 of 240
Found at i:17588532 original size:63 final size:60
Alignment explanation
Indices: 17588433--17588587 Score: 213
Period size: 63 Copynumber: 2.5 Consensus size: 60
17588423 TATATAATTT
* *
17588433 ACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTAT-GCATCTC
1 ACATAACTTACATAACTTAATAACTTACATAATACATAAA-T-ATATATAA--TATCACAACTC
* * *
17588496 ACATAACTTACATAACTTAATAGCTTACATAATACATAAATATATATCATATCACAACTT
1 ACATAACTTACATAACTTAATAACTTACATAATACATAAATATATATAATATCACAACTC
*
17588556 ACATAACTTACATAATTTAATAACTTACATAA
1 ACATAACTTACATAACTTAATAACTTACATAA
17588588 CTTAATAACT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
59 3 0.04
60 34 0.40
61 7 0.08
62 1 0.01
63 39 0.46
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (60 bp):
ACATAACTTACATAACTTAATAACTTACATAATACATAAATATATATAATATCACAACTC
Found at i:17591154 original size:49 final size:49
Alignment explanation
Indices: 17591082--17591179 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
17591072 TATCAATGGA
17591082 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
1 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
17591131 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
1 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
17591180 ACCTCTATGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
Found at i:17601283 original size:15 final size:15
Alignment explanation
Indices: 17601263--17601292 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17601253 GCAATGTATG
17601263 GAAAGAAAAAATATT
1 GAAAGAAAAAATATT
*
17601278 GAAAGAAAATATATT
1 GAAAGAAAAAATATT
17601293 TTTCTTTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
GAAAGAAAAAATATT
Found at i:17602602 original size:24 final size:24
Alignment explanation
Indices: 17602563--17602634 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
17602553 GTCACCATTT
17602563 ATAAA-AATTAATATTTTAATAAAA
1 ATAAATAA-TAATATTTTAATAAAA
* * *
17602587 ATAATTAAT-ATAATTTAAAAATAA
1 ATAAATAATAATATTTTAATAA-AA
17602611 ATAAATAATAATATTTTAACTAAA
1 ATAAATAATAATATTTTAA-TAAA
17602635 GGGGTATGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
23 10 0.26
24 15 0.39
25 11 0.29
26 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAATAATAATATTTTAATAAAA
Found at i:17602607 original size:20 final size:19
Alignment explanation
Indices: 17602582--17602619 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17602572 AATATTTTAA
*
17602582 TAAAAATAATTAATATAATT
1 TAAAAATAAATAA-ATAATT
17602602 TAAAAATAAATAAATAAT
1 TAAAAATAAATAAATAAT
17602620 AATATTTTAA
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:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAATAAATAAATAATT
Found at i:17612362 original size:15 final size:15
Alignment explanation
Indices: 17612342--17612398 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
17612332 TTATGGAAAG
*
17612342 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
17612357 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
17612371 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
17612387 TCAAATAT-TGGA
1 TCAAATATATGGA
17612399 AAATCAAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 8 0.24
15 20 0.61
16 5 0.15
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:17612370 original size:30 final size:30
Alignment explanation
Indices: 17612334--17612418 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
17612324 ATCCGTATTT
* *
17612334 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
17612364 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* * *
17612394 TTGGAAAATCAAAGAAATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
17612419 GAGATATTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:17617023 original size:15 final size:15
Alignment explanation
Indices: 17617003--17617079 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
17616993 TTATGGAAAG
*
17617003 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
17617018 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
17617032 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
17617048 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
17617063 TCAAAGATATGGGTA
1 TCAAATATATGGATA
17617078 TC
1 TC
17617080 GAGATATTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:17617031 original size:30 final size:30
Alignment explanation
Indices: 17616995--17617079 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
17616985 ATCTGTATTT
* *
17616995 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
17617025 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
17617055 TTGGAAAATCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
17617080 GAGATATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:17617241 original size:2 final size:2
Alignment explanation
Indices: 17617234--17617290 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
17617224 AAGGCATTGT
17617234 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
17617276 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
17617291 TTGTAAATTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:17634979 original size:14 final size:15
Alignment explanation
Indices: 17634962--17634990 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17634952 ATGGTTCAGT
17634962 TAATA-TTTTTATAA
1 TAATATTTTTTATAA
17634976 TAATATTTTTTATAA
1 TAATATTTTTTATAA
17634991 AAAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATATTTTTTATAA
Found at i:17644010 original size:15 final size:17
Alignment explanation
Indices: 17643985--17644018 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17643975 TGGTTTCTCT
17643985 TTTGTCTTGA-GTATTC
1 TTTGTCTTGAGGTATTC
17644001 TTTG-CTTGAGGTATTC
1 TTTGTCTTGAGGTATTC
17644017 TT
1 TT
17644019 CACATGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (17 bp):
TTTGTCTTGAGGTATTC
Found at i:17652245 original size:19 final size:19
Alignment explanation
Indices: 17652221--17652258 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17652211 GAAAATAGAG
17652221 CGAAAGCAACTCAAAAGCA
1 CGAAAGCAACTCAAAAGCA
17652240 CGAAAGCAACTCAAAAGCA
1 CGAAAGCAACTCAAAAGCA
17652259 AAGGAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.16, T:0.05
Consensus pattern (19 bp):
CGAAAGCAACTCAAAAGCA
Found at i:17652904 original size:131 final size:131
Alignment explanation
Indices: 17652670--17652932 Score: 508
Period size: 131 Copynumber: 2.0 Consensus size: 131
17652660 GGTCATGAAC
17652670 TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
1 TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
*
17652735 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTATTCTTAA
66 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
17652800 A
131 A
*
17652801 TTTGATCCACAACTTGTGATAATACAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
1 TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
17652866 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
66 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
17652931 A
131 A
17652932 T
1 T
17652933 AAATTATAAT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (131 bp):
TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
A
Found at i:17660580 original size:21 final size:22
Alignment explanation
Indices: 17660555--17660604 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
17660545 AATATTTTAA
* *
17660555 AACAATAGA-AAAGATTAAAGG
1 AACAACAGATAAAAATTAAAGG
17660576 AACAACAGATTCAAAAATTAAAGG
1 AACAACAGA-T-AAAAATTAAAGG
17660600 AACAA
1 AACAA
17660605 AAAATCAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
24 16 0.67
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (22 bp):
AACAACAGATAAAAATTAAAGG
Found at i:17660616 original size:24 final size:24
Alignment explanation
Indices: 17660563--17660616 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
17660553 AAAACAATAG
* *
17660563 AAAAGATTAAAGGAACAACAGATTC
1 AAAA-ATTAAAGGAACAACAAAATC
17660588 AAAAATTAAAGGAACAA-AAAATC
1 AAAAATTAAAGGAACAACAAAATC
17660611 AGAAAA
1 A-AAAA
17660617 AAAAAATCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 17 0.65
25 4 0.15
ACGTcount: A:0.65, C:0.09, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAATTAAAGGAACAACAAAATC
Found at i:17662367 original size:58 final size:58
Alignment explanation
Indices: 17662277--17662396 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
17662267 TTCGTTCCTA
17662277 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
1 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
17662335 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
1 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
17662393 AGAA
1 AGAA
17662397 GGGGGGTTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (58 bp):
AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
Found at i:17663733 original size:18 final size:18
Alignment explanation
Indices: 17663712--17663747 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17663702 GATAATGTGG
17663712 CAAAATTCAATAAAAAAT
1 CAAAATTCAATAAAAAAT
* *
17663730 CAAATTTCAATAGAAAAT
1 CAAAATTCAATAAAAAAT
17663748 TCACTCAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (18 bp):
CAAAATTCAATAAAAAAT
Found at i:17667441 original size:56 final size:56
Alignment explanation
Indices: 17667334--17667442 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 56
17667324 GCATCCATTG
* * *
17667334 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTAAATAATGCTCATAAATAATTAAATTTGTAA
*
17667390 GATGATAAATCATCACTTTTTAATTTAAATAATGCTCATGAATAATT-AATTTG
1 GATGATAAATCATCAC-TTTTAATTTAAATAATGCTCATAAATAATTAAATTTG
17667443 CAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 22 0.46
57 26 0.54
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (56 bp):
GATGATAAATCATCACTTTTAATTTAAATAATGCTCATAAATAATTAAATTTGTAA
Found at i:17673377 original size:39 final size:39
Alignment explanation
Indices: 17673323--17673400 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
17673313 TTGTTAGTGT
*
17673323 TCCATTTAATTCACAAACATCCGAATGAATTAAGTCTAA
1 TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
17673362 TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
1 TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
17673401 CACTTGTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (39 bp):
TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
Found at i:17677366 original size:22 final size:22
Alignment explanation
Indices: 17677340--17677387 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
17677330 CTCTCTAATC
17677340 CTCTCAATTTCATTCCAAAATT
1 CTCTCAATTTCATTCCAAAATT
*
17677362 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCATTCCAAAATT
17677384 CTCT
1 CTCT
17677388 GAAACCCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAATT
Found at i:17677508 original size:32 final size:29
Alignment explanation
Indices: 17677446--17677511 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
17677436 TCTCAAATCC
17677446 ATTTTTTAAAATAATTATAAATTTTTTAT
1 ATTTTTTAAAATAATTATAAATTTTTTAT
* * *
17677475 ATTTATTTAAAATAATTTTAATTTTTTTTT
1 ATTT-TTTAAAATAATTATAAATTTTTTAT
*
17677505 ATATTTT
1 ATTTTTT
17677512 CATAAATGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTTAAAATAATTATAAATTTTTTAT
Found at i:17678603 original size:7 final size:7
Alignment explanation
Indices: 17678591--17678615 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17678581 AGTCGATTGA
17678591 TATTTAG
1 TATTTAG
17678598 TATTTAG
1 TATTTAG
17678605 TATTTAG
1 TATTTAG
17678612 TATT
1 TATT
17678616 ATGTATATAA
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:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:17679293 original size:18 final size:18
Alignment explanation
Indices: 17679267--17679301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17679257 AGGTGTGTTT
* *
17679267 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
17679285 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
17679302 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:17679856 original size:29 final size:29
Alignment explanation
Indices: 17679801--17679997 Score: 232
Period size: 29 Copynumber: 6.4 Consensus size: 29
17679791 AAATAAAAAC
*
17679801 CCTAATTTAATTAAAAACCCTAACCTAACCGTAA
1 CCTAACTTAATTAAAAACCCTAA-C---CC-TAA
*
17679835 CTTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
17679864 CCTAACTTAATTAAAAACCCTAACCTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
17679893 CCTAAATTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
17679922 CCCTAATTTAATTGAAAACCCTAACCTAACCGTAA
1 -CCTAACTTAATTAAAAACCCTAA-C---CC-TAA
*
17679957 CCTAACTTAATTAAAAACGCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
17679986 CCTAACTTAATT
1 CCTAACTTAATT
17679998 TGATAAATTT
Statistics
Matches: 146, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
29 72 0.49
30 25 0.17
31 1 0.01
33 2 0.01
34 43 0.29
35 3 0.02
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:17680111 original size:56 final size:55
Alignment explanation
Indices: 17679995--17680214 Score: 368
Period size: 56 Copynumber: 3.9 Consensus size: 55
17679985 ACCTAACTTA
17679995 ATTTGATAAATTTTACTAACCATTAACACATTTTTTGGCTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACATTTTTTGGCTTAATAATTTTAGTTT
*
17680050 ATTTGATAAATTTTACTAACCATTAACACACTTTTTGGACTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACATTTTTTGG-CTTAATAATTTTAGTTT
* *
17680106 ATTTGATAAATTTTACTAACCATTAACACAATTTTTGAACTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACATTTTTTG-GCTTAATAATTTTAGTTT
*
17680162 ATTTGATAAATTTTAGTAACCATTAACACAATTTTTTTGGCTTAATAATTTTA
1 ATTTGATAAATTTTACTAACCATTAACAC-A-TTTTTTGGCTTAATAATTTTA
17680215 CATAATTTTA
Statistics
Matches: 155, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
55 37 0.24
56 98 0.63
57 14 0.09
58 6 0.04
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (55 bp):
ATTTGATAAATTTTACTAACCATTAACACATTTTTTGGCTTAATAATTTTAGTTT
Found at i:17680221 original size:10 final size:10
Alignment explanation
Indices: 17680206--17680230 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17680196 TTTTGGCTTA
17680206 ATAATTTTAC
1 ATAATTTTAC
17680216 ATAATTTTAC
1 ATAATTTTAC
17680226 ATAAT
1 ATAAT
17680231 ATTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:17683038 original size:126 final size:126
Alignment explanation
Indices: 17682813--17683165 Score: 593
Period size: 126 Copynumber: 2.8 Consensus size: 126
17682803 TCCAAACTTG
17682813 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
17682878 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCA-ACAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAGA-AAAAAAATTATTTCTTACATGAC
* *
17682939 CTACTGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTTG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * *
17683004 TAGAAACAATTTTATACTATTTGCTCTGCAACGTCAGAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAGAAAAAAAATTATTTCTTACATGAC
* * *
17683065 CTACTATAGCAAAAACGCGTCCACGAGAGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
17683130 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCA
17683166 ACTCGATATA
Statistics
Matches: 210, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
126 208 0.99
127 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAGAAAAAAAATTATTTCTTACATGAC
Found at i:17683205 original size:126 final size:121
Alignment explanation
Indices: 17682823--17683205 Score: 385
Period size: 126 Copynumber: 3.0 Consensus size: 121
17682813 CTACTGTAGC
*
17682823 AAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
1 AAAAACGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
* * * * ** **
17682888 TTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTACTGT
66 TTTATACTATTTGCTCAGAAACGTCAACAAATAATTTATTTC-GACCT-AAATACCCT
* * *
17682946 AGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTTGTAGAAAC
1 A--AAAA-CGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
* * * * * * * *
17683011 AATTTTATACTATTTGCTCTGCAACGTCAGAAAAAAAATTATTTCTTACATGACCTACTATA-GC
63 GATTTTATACTATTTGCTCAGAAACGTCA-ACAAATAATT-TAT-TT-C--GACCTA-AATACCC
17683075 -
121 T
*
17683075 AAAAACGCGTCCACGAGAGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
1 AAAAACGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
*
17683140 TTTATACTATTTGAC-CAGAAACGTCAACTCGATATAATTTATTTCGGAACCTAAATACCCT
66 TTTATACTATTTG-CTCAGAAACGTCAA--C-AAATAATTTATTTC-G-ACCTAAATACCCT
17683201 AAAAA
1 AAAAA
17683206 GCTTGAACCC
Statistics
Matches: 214, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
123 1 0.00
124 4 0.02
125 11 0.05
126 164 0.77
127 15 0.07
128 8 0.04
129 3 0.01
130 2 0.01
131 6 0.03
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (121 bp):
AAAAACGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
TTTATACTATTTGCTCAGAAACGTCAACAAATAATTTATTTCGACCTAAATACCCT
Found at i:17684789 original size:17 final size:17
Alignment explanation
Indices: 17684767--17684800 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17684757 TAAATAATAG
*
17684767 ATAAATCAATTTTTTTA
1 ATAAATCAATTATTTTA
*
17684784 ATAAATTAATTATTTTA
1 ATAAATCAATTATTTTA
17684801 TTTTATCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAATCAATTATTTTA
Found at i:17686325 original size:104 final size:104
Alignment explanation
Indices: 17686208--17686416 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
17686198 TTTTTATAGT
17686208 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
1 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
17686273 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
66 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
17686312 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
1 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
17686377 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
66 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
17686416 T
1 T
17686417 GCAATAGAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.46
Consensus pattern (104 bp):
TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
Found at i:17694869 original size:86 final size:86
Alignment explanation
Indices: 17694763--17695169 Score: 444
Period size: 86 Copynumber: 4.7 Consensus size: 86
17694753 AATCTGTAAC
* * * *
17694763 CTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTTGCTGTTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGACGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
17694828 GCAGGAAGGCAAGATCTGCTT
66 GCAGGAAGGCAAGATCTGCTT
* * *
17694849 CTTTAACTAGCTCCACTGCAATCGATGGACGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGACGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
**
17694914 GCAGGAAGGCAAGATCTTTTGT
66 GCAGGAAGGCAAGATCTGCT-T
* * * ** * *
17694936 CTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTC
1 CTTTAACCAGCTCCACT-GCAACCGATGGACGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTT
*
17694999 AATGCAGAAAGGCAAGATCTGCTT
63 AATGCAGGAAGGCAAGATCTGCTT
* * * *
17695023 CTTTAACTAGCTCCACTGCAATCGATGGACGCAAGACTTTGTTTTCAATCTGCTTCGCTGTTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGACGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* **
17695088 GTAGGAAGGCAAGATCTTTTGT
66 GCAGGAAGGCAAGATCTGCT-T
* * * ** *
17695110 CTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCT
1 CTTTAACCAGCTCCACT-GCAACCGATGGACGCAAGGCTTTGT-T-TTCGATCTGCTTCGCT
17695170 CATTCCCAAG
Statistics
Matches: 264, Mismatches: 47, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
86 124 0.47
87 82 0.31
88 58 0.22
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (86 bp):
CTTTAACCAGCTCCACTGCAACCGATGGACGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
GCAGGAAGGCAAGATCTGCTT
Found at i:17695015 original size:174 final size:174
Alignment explanation
Indices: 17694781--17695169 Score: 665
Period size: 174 Copynumber: 2.2 Consensus size: 174
17694771 AGCTCCAATG
** * * * *
17694781 CAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATGCAGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATC
* * *
17694844 TGCTTCTTTAACTAGCTCCACTGCAATCGATGGACGCAAGGCTTTGTTTTCGATCTGCTTCGTTG
65 TGCTTCTTTAACTAGCTCCACTGCAATCGATGGACGCAAGACTTTGTTTTCAATCTGCTTCGCTG
17694909 TTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
130 TTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
17694954 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
17695019 GCTTCTTTAACTAGCTCCACTGCAATCGATGGACGCAAGACTTTGTTTTCAATCTGCTTCGCTGT
66 GCTTCTTTAACTAGCTCCACTGCAATCGATGGACGCAAGACTTTGTTTTCAATCTGCTTCGCTGT
*
17695084 TAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
131 TAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
17695128 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCT
17695170 CATTCCCAAG
Statistics
Matches: 204, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
172 5 0.02
173 17 0.08
174 182 0.89
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (174 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
GCTTCTTTAACTAGCTCCACTGCAATCGATGGACGCAAGACTTTGTTTTCAATCTGCTTCGCTGT
TAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
Found at i:17696984 original size:16 final size:17
Alignment explanation
Indices: 17696959--17696992 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17696949 TTGATCTTGA
*
17696959 TTTTGATTTTTTCTTCT
1 TTTTGATTTTTTATTCT
17696976 TTTTG-TTTTTTATTCT
1 TTTTGATTTTTTATTCT
17696992 T
1 T
17696993 AAGCCTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTGATTTTTTATTCT
Found at i:17699503 original size:19 final size:20
Alignment explanation
Indices: 17699474--17699522 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
17699464 CACTTCGTGA
* *
17699474 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
17699493 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
17699513 AAATG-AATGC
1 AAATGTAATGC
17699523 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:17705696 original size:17 final size:16
Alignment explanation
Indices: 17705654--17705696 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
17705644 TTATTTTGAG
17705654 CTTTGAAAATTTTTAAA
1 CTTT-AAAATTTTTAAA
* *
17705671 ATTTCAAATTTCTTAAA
1 CTTTAAAATTT-TTAAA
17705688 CTTTAAAAT
1 CTTTAAAAT
17705697 GCATAAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (16 bp):
CTTTAAAATTTTTAAA
Found at i:17710143 original size:43 final size:43
Alignment explanation
Indices: 17710048--17710212 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
17710038 TTGGACAAGT
* ** * * * *
17710048 CGAAACAATTATACTGATACGCGTAGTGCATCATCAAATAAATC
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATA-C
* *
17710092 AGAA-CAATTATACTGGCACACATAGTGCATCATTGAATATAC
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATAC
* ** * * * *
17710134 CGAAGCAATTATGCTAACACATACAGTGCATTATCGGATATAC
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATAC
17710177 CGAAGCAATTATACTGGCACACATAGTGCATCATCG
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCG
17710213 GATAAATCAA
Statistics
Matches: 97, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
42 4 0.04
43 90 0.93
44 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (43 bp):
CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATAC
Found at i:17710144 original size:86 final size:85
Alignment explanation
Indices: 17710048--17710210 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
17710038 TTGGACAAGT
* *
17710048 CGAAACAATTATACTGATACGCGT-AGTGCATCATCAAATAAATCAGAA-CAATTATACTGGCAC
1 CGAAACAATTATACT-A-ACACATAAGTGCATCATCAAATAAA-CAGAAGCAATTATACTGGCAC
17710111 ACATAGTGCATCATTGAATATAC
63 ACATAGTGCATCATTGAATATAC
* * * ** * *
17710134 CGAAGCAATTATGCTAACACATACAGTGCATTATCGGATATACCGAAGCAATTATACTGGCACAC
1 CGAAACAATTATACTAACACATA-AGTGCATCATCAAATAAACAGAAGCAATTATACTGGCACAC
17710199 ATAGTGCATCAT
65 ATAGTGCATCAT
17710211 CGGATAAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 4 0.06
85 5 0.08
86 56 0.86
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (85 bp):
CGAAACAATTATACTAACACATAAGTGCATCATCAAATAAACAGAAGCAATTATACTGGCACACA
TAGTGCATCATTGAATATAC
Found at i:17715123 original size:16 final size:17
Alignment explanation
Indices: 17715102--17715133 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17715092 CATTGGAAGC
17715102 AAATT-AAAAATTTTTG
1 AAATTAAAAAATTTTTG
17715118 AAATTAAAAAATTTTT
1 AAATTAAAAAATTTTT
17715134 AATTTTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAATTAAAAAATTTTTG
Found at i:17717147 original size:14 final size:15
Alignment explanation
Indices: 17717114--17717142 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17717104 TTCAACTTTT
17717114 AATT-TTAAAATTTA
1 AATTATTAAAATTTA
17717128 AATTATTAAAATTTA
1 AATTATTAAAATTTA
17717143 TTTATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATTAAAATTTA
Found at i:17722162 original size:2 final size:2
Alignment explanation
Indices: 17722155--17722181 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17722145 ATTTATCAAG
17722155 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17722182 AATAAGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17725195 original size:11 final size:11
Alignment explanation
Indices: 17725179--17725220 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
17725169 ATAATGGCAA
17725179 CAAAATAATAG
1 CAAAATAATAG
17725190 CAAAATAATAG
1 CAAAATAATAG
** *
17725201 TGAAATGATAG
1 CAAAATAATAG
17725212 CAAAATAAT
1 CAAAATAAT
17725221 GAAAAAATAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:17725228 original size:22 final size:22
Alignment explanation
Indices: 17725180--17725226 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
17725170 TAATGGCAAC
*
17725180 AAAATAATAGCAAAATAATAGT
1 AAAATAATAGCAAAATAATAGA
* *
17725202 GAAATGATAGCAAAATAAT-GA
1 AAAATAATAGCAAAATAATAGA
17725223 AAAA
1 AAAA
17725227 ATAGTGTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.64, C:0.04, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAATAATAGCAAAATAATAGA
Found at i:17725813 original size:29 final size:29
Alignment explanation
Indices: 17725772--17725827 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
17725762 TACCTTTTAC
17725772 ATAATTTTTAAATTAT-AAAAATAATTTT
1 ATAATTTTTAAATTATAAAAAATAATTTT
*
17725800 ATAATTTTTTAAATTTTAAAAAATAATT
1 ATAA-TTTTTAAATTATAAAAAATAATT
17725828 AAATGCTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 11 0.44
30 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
ATAATTTTTAAATTATAAAAAATAATTTT
Found at i:17725830 original size:47 final size:47
Alignment explanation
Indices: 17725740--17725831 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
17725730 TAGAAAATAT
* ** * * **
17725740 TAAAAATATTTTTATAATTTTATACCTTTTACATAATTTTTAAATTA
1 TAAAAATAATTTTATAATTTTATAAATTTTAAAAAATAATTAAATTA
*
17725787 TAAAAATAATTTTATAATTTTTTAAATTTTAAAAAATAATTAAAT
1 TAAAAATAATTTTATAATTTTATAAATTTTAAAAAATAATTAAAT
17725832 GCTGACATGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (47 bp):
TAAAAATAATTTTATAATTTTATAAATTTTAAAAAATAATTAAATTA
Found at i:17727376 original size:23 final size:23
Alignment explanation
Indices: 17727341--17727391 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
17727331 ATATTACAAT
*
17727341 AATACTTTTATATAAAATATTTA
1 AATACTTTTATATAAAATAATTA
17727364 AATA-TTTTCATATAAAATAATTA
1 AATACTTTT-ATATAAAATAATTA
17727387 AATAC
1 AATAC
17727392 AACAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
AATACTTTTATATAAAATAATTA
Found at i:17729846 original size:27 final size:27
Alignment explanation
Indices: 17729773--17729851 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 27
17729763 TTTTCTCTCT
*
17729773 AAAAATGGCATAT-TCTCATAAATA-TA
1 AAAAATGGCATATATAT-ATAAATATTA
* * *
17729799 AAAGAATGACCTA-AAATTATAAATATTA
1 AAA-AATGGCATATATA-TATAAATATTA
*
17729827 AAAAATGGCATATATATATATATAT
1 AAAAATGGCATATATATATAAATAT
17729852 AAATTACTCG
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
26 3 0.08
27 29 0.73
28 8 0.20
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAAATGGCATATATATATAAATATTA
Found at i:17735785 original size:18 final size:18
Alignment explanation
Indices: 17735727--17735785 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
17735717 TGATTAGACC
* * *
17735727 CAACGTGAGTAGGAGGGT
1 CAACTTGAGCAGGAGAGT
* *
17735745 CAACATGAGCATGAGAGT
1 CAACTTGAGCAGGAGAGT
*
17735763 CAACTTGAGGAGGAGAGT
1 CAACTTGAGCAGGAGAGT
17735781 CAACT
1 CAACT
17735786 ATAAGTAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.17
Consensus pattern (18 bp):
CAACTTGAGCAGGAGAGT
Found at i:17741809 original size:35 final size:35
Alignment explanation
Indices: 17741768--17741841 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
17741758 TCACACAAAA
17741768 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
1 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
17741803 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
1 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
17741838 TATT
1 TATT
17741842 CGTGTATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.42
Consensus pattern (35 bp):
TATTTTTGGGCACATCCCCTTCAATTACAGATATT
Found at i:17742350 original size:27 final size:27
Alignment explanation
Indices: 17742312--17742389 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
17742302 TAGTATTGAC
*
17742312 GCCTATCTCAGAAGCGCCAATGGTGGT
1 GCCTATCTCAGAGGCGCCAATGGTGGT
* **
17742339 GCCTATCTCAGAGGCGCCATTATTGGT
1 GCCTATCTCAGAGGCGCCAATGGTGGT
*
17742366 GCC-ATACTGAGAGGCGCCAATGGT
1 GCCTAT-CTCAGAGGCGCCAATGGT
17742390 CTGATTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (27 bp):
GCCTATCTCAGAGGCGCCAATGGTGGT
Found at i:17742699 original size:38 final size:39
Alignment explanation
Indices: 17742656--17742738 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 39
17742646 AAAAAGTCAG
17742656 TTATAATTAAACTTTTAAAAAAATGATTTTTAA-TTTTT
1 TTATAATTAAACTTTTAAAAAAATGATTTTTAATTTTTT
**
17742694 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTTT
1 TTATAATTAAACTTTTAAAAAAATGATTTTTAATTTTTT
17742733 TTATAA
1 TTATAA
17742739 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 31 0.74
39 11 0.26
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (39 bp):
TTATAATTAAACTTTTAAAAAAATGATTTTTAATTTTTT
Found at i:17742916 original size:8 final size:8
Alignment explanation
Indices: 17742903--17743020 Score: 59
Period size: 8 Copynumber: 16.4 Consensus size: 8
17742893 CATACAAAAA
17742903 ATTACAAT
1 ATTACAAT
17742911 ATTACAAT
1 ATTACAAT
* * *
17742919 ATATCCCGAC
1 AT-T-ACAAT
17742929 ATTACAAT
1 ATTACAAT
17742937 ATT-C-AT
1 ATTACAAT
*
17742943 A--A-AAA
1 ATTACAAT
17742948 ATTACAAT
1 ATTACAAT
17742956 ATTACAAT
1 ATTACAAT
17742964 ATT-C-AT
1 ATTACAAT
*
17742970 A--A-AAA
1 ATTACAAT
17742975 ATTACAAT
1 ATTACAAT
17742983 ATTACAAT
1 ATTACAAT
17742991 ATT-C-AT
1 ATTACAAT
*
17742997 A--A-AAA
1 ATTACAAT
17743002 ATTACAAT
1 ATTACAAT
17743010 ATTACAAT
1 ATTACAAT
17743018 ATT
1 ATT
17743021 CATACAAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 34
0.64 0.09 0.27
Matches are distributed among these distances:
5 6 0.07
6 9 0.11
7 6 0.07
8 54 0.67
9 2 0.02
10 4 0.05
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:17742967 original size:27 final size:27
Alignment explanation
Indices: 17742929--17743131 Score: 224
Period size: 27 Copynumber: 8.1 Consensus size: 27
17742919 ATATCCCGAC
17742929 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATAAAAAATTACAAT
17742956 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATAAAAAATTACAAT
17742983 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATAAAAAATTACAAT
*
17743010 ATTACAATATTCATACAAAA--A-AAT
1 ATTACAATATTCATAAAAAATTACAAT
* *
17743034 -TGT--AATATTCATACAAAATTATAAT
1 AT-TACAATATTCATAAAAAATTACAAT
*
17743059 ATTACAATATTCAT-ACAAA--A-AA-
1 ATTACAATATTCATAAAAAATTACAAT
* *
17743081 ATTAAAATATTCATACAAAATTACAAT
1 ATTACAATATTCATAAAAAATTACAAT
17743108 ATT-C---A-T-ATAAAAAATTACAAT
1 ATTACAATATTCATAAAAAATTACAAT
17743129 ATT
1 ATT
17743132 CATACAAAAT
Statistics
Matches: 156, Mismatches: 8, Indels: 30
0.80 0.04 0.15
Matches are distributed among these distances:
21 17 0.11
22 29 0.19
23 7 0.04
24 6 0.04
25 6 0.04
26 6 0.04
27 85 0.54
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATAAAAAATTACAAT
Found at i:17743007 original size:19 final size:19
Alignment explanation
Indices: 17742983--17743264 Score: 127
Period size: 19 Copynumber: 15.2 Consensus size: 19
17742973 AAATTACAAT
17742983 ATTACAATATTCATAAAAA
1 ATTACAATATTCATAAAAA
* *
17743002 ATTACAATA-T--TACAAT
1 ATTACAATATTCATAAAAA
17743018 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATAAAAA
** *
17743032 ATTGTAATATTCATACAAA
1 ATTACAATATTCATAAAAA
* * *
17743051 ATTATAATA-T--TACAAT
1 ATTACAATATTCATAAAAA
17743067 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATAAAAA
* *
17743081 ATTAAAATATTCATACAAA
1 ATTACAATATTCATAAAAA
17743100 ATTACAATATTCATATAAAAA
1 ATTACAATATTC--ATAAAAA
*
17743121 ATTACAATATTCATACAAA
1 ATTACAATATTCATAAAAA
* *
17743140 A-TACTA-ATCCA-AAACTATA
1 ATTACAATATTCATAAA--A-A
*
17743159 AATACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATAAAA-A
* *
17743182 ATTACAATATTCATACAAC
1 ATTACAATATTCATAAAAA
*
17743201 ATTAGAATATTCATAAAAAA
1 ATTACAATATTCAT-AAAAA
17743221 ATTACAATATTCATACAAAAA
1 ATTACAATATTCAT--AAAAA
* *
17743242 AGTTAGAATATTCATACAAA
1 A-TTACAATATTCATAAAAA
17743262 ATT
1 ATT
17743265 TTAATCTAAA
Statistics
Matches: 202, Mismatches: 31, Indels: 60
0.69 0.11 0.20
Matches are distributed among these distances:
14 18 0.09
15 1 0.00
16 23 0.11
17 4 0.02
18 11 0.05
19 63 0.31
20 30 0.15
21 25 0.12
22 14 0.07
23 7 0.03
24 1 0.00
25 5 0.02
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATAAAAA
Found at i:17743049 original size:41 final size:41
Alignment explanation
Indices: 17743004--17743260 Score: 156
Period size: 49 Copynumber: 6.1 Consensus size: 41
17742994 CATAAAAAAT
**
17743004 TACAATATTACAATATTCATACAAAAAAATTGTAATATTCA
1 TACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
17743045 TACAAAATTATAATATTACAATATTCATACAAAAAAATTAAAATATTCA
1 TAC--------AATATTACAATATTCATACAAAAAAATTAAAATATTCA
* * *
17743094 TACAAAATTACAATATTCATA-TAAAAAATTACAATATTCA
1 TACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
* * * *
17743134 TACAA-AATACTA-ATCCA-A-AACTATAAA-TACAAATTTAATT-A
1 TACAATATTACAATATTCATACAA--AAAAATTA-AAA--T-ATTCA
* * *
17743175 TAAAATAATTACAATATTCATAC---AACATTAGAATATTCA
1 TACAAT-ATTACAATATTCATACAAAAAAATTAAAATATTCA
* * * *
17743214 TAAAAAAATTACAATATTCATACAAAAAAGTTAGAATATTCA
1 T-ACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
17743256 TACAA
1 TACAA
17743261 AATTTTAATC
Statistics
Matches: 169, Mismatches: 22, Indels: 50
0.70 0.09 0.21
Matches are distributed among these distances:
37 2 0.01
38 9 0.05
39 30 0.18
40 26 0.15
41 33 0.20
42 20 0.12
43 5 0.03
44 4 0.02
45 1 0.01
49 39 0.23
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.32
Consensus pattern (41 bp):
TACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
Found at i:17743060 original size:49 final size:48
Alignment explanation
Indices: 17742934--17743110 Score: 237
Period size: 49 Copynumber: 3.5 Consensus size: 48
17742924 CCGACATTAC
*
17742934 AATATTCATAAAAAATTACAATATTACAATATTCATAAAAAATTACAATATT
1 AATATTCATAAAAAATTACAATATTACAATATTCATACAAAA--A-AAT-TT
17742986 ACAATATTCATAAAAAATTACAATATTACAATATTCATACAAAAAAATTGT
1 --AATATTCATAAAAAATTACAATATTACAATATTCATACAAAAAAATT-T
* * *
17743037 AATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTAA
1 AATATTCATAAAAAATTACAATATTACAATATTCATACAAAAAAATT-T
*
17743086 AATATTCATACAAAATTACAATATT
1 AATATTCATAAAAAATTACAATATT
17743111 CATATAAAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
49 69 0.59
50 1 0.01
51 4 0.03
52 1 0.01
54 41 0.35
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (48 bp):
AATATTCATAAAAAATTACAATATTACAATATTCATACAAAAAAATTT
Found at i:17743217 original size:39 final size:41
Alignment explanation
Indices: 17743174--17743262 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 41
17743164 AAATTTAATT
* *
17743174 ATAAAATAATTACAATATTCATAC-AACA-TTAGAATATTC
1 ATAAAAAAATTACAATATTCATACAAAAAGTTAGAATATTC
17743213 ATAAAAAAATTACAATATTCATACAAAAAAGTTAGAATATTC
1 ATAAAAAAATTACAATATTCATAC-AAAAAGTTAGAATATTC
*
17743255 ATACAAAA
1 ATAAAAAA
17743263 TTTTAATCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 23 0.52
41 3 0.07
42 18 0.41
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.29
Consensus pattern (41 bp):
ATAAAAAAATTACAATATTCATACAAAAAGTTAGAATATTC
Found at i:17743252 original size:61 final size:60
Alignment explanation
Indices: 17743004--17743261 Score: 188
Period size: 61 Copynumber: 4.1 Consensus size: 60
17742994 CATAAAAAAT
**
17743004 TACAATATTACAATATTCATACAAAAAAATTGTAATATTCATACAAAATTATAATATTACAATAT
1 TACAA-ATTACAATATTCAT--AAAAAAATTACAATATTCATAC-AAA--AT-A-ATTACAATAT
17743069 TCA
58 TCA
* * *
17743072 TACAAAAAAATTAAAATATTCAT-ACAAAATTACAATATTCATATAAAA-AATTACAATATTCA
1 TAC----AAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAATTACAATATTCA
* * * * *
17743134 TACAAAATACTA-ATCCA-AAACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TACAAATTACAATATTCATAAA--A-AAATTACAATA-TTCA-TACAAAATAATTACAATATTCA
* *
17743195 TACAACATTAGAATATTCATAAAAAAATTACAATATTCATACAAAA-AAGTTAGAATATTCA
1 TACAA-ATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAA-TTACAATATTCA
17743256 TACAAA
1 TACAAA
17743262 ATTTTAATCT
Statistics
Matches: 155, Mismatches: 18, Indels: 42
0.72 0.08 0.20
Matches are distributed among these distances:
57 5 0.03
58 7 0.05
59 9 0.06
60 13 0.08
61 44 0.28
62 29 0.19
63 6 0.04
64 3 0.02
65 1 0.01
67 3 0.02
68 20 0.13
71 13 0.08
72 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (60 bp):
TACAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAATTACAATATTCA
Found at i:17743262 original size:22 final size:21
Alignment explanation
Indices: 17743010--17743140 Score: 74
Period size: 21 Copynumber: 6.0 Consensus size: 21
17743000 AAATTACAAT
*
17743010 ATTACAATATTCATACAAAAAA
1 ATTAGAATATTCATAC-AAAAA
17743032 ATT-GTAATATTCATAC--AAA
1 ATTAG-AATATTCATACAAAAA
*
17743051 ATTATAATATTACAATATTCATACAAAA
1 ATTAGAATATT-C-ATA--C--A-AAAA
*
17743079 AAATTAAAATATTCATAC--AAA
1 --ATTAGAATATTCATACAAAAA
* *
17743100 ATTACAATATTCATATAAAAA
1 ATTAGAATATTCATACAAAAA
*
17743121 ATTACAATATTCATACAAAA
1 ATTAGAATATTCATACAAAA
17743141 TACTAATCCA
Statistics
Matches: 88, Mismatches: 6, Indels: 31
0.70 0.05 0.25
Matches are distributed among these distances:
19 26 0.30
20 1 0.01
21 28 0.32
22 14 0.16
23 1 0.01
26 1 0.01
28 6 0.07
29 1 0.01
30 10 0.11
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (21 bp):
ATTAGAATATTCATACAAAAA
Found at i:17743291 original size:61 final size:60
Alignment explanation
Indices: 17743105--17743291 Score: 166
Period size: 61 Copynumber: 3.1 Consensus size: 60
17743095 ACAAAATTAC
* *
17743105 AATATTCATATAAAAAATTACAATATTCATACAAAA-TACTAATCCAAAACTATAAATAC-A
1 AATATTCATATAAAAAATTACAATATTCATACAAAATTA-TAAT-CTAAACTATAAAAACTA
* * * * ** * *
17743165 AAT-TTAATTATAAAATAATTACAATATTCATACAACATTAGAATATTCA-TAAAAAAATTA
1 AATATTCA-TATAAAA-AATTACAATATTCATACAAAATTATAATCTAAACTATAAAAACTA
* * * *
17743225 CAATATTCATACAAAAAAGTTAGAATATTCATACAAAATTTTAATCTAAACTATAAACACTA
1 -AATATTCATATAAAAAA-TTACAATATTCATACAAAATTATAATCTAAACTATAAAAACTA
17743287 AATAT
1 AATAT
17743292 AGATAATTTA
Statistics
Matches: 97, Mismatches: 22, Indels: 15
0.72 0.16 0.11
Matches are distributed among these distances:
59 9 0.09
60 14 0.14
61 61 0.63
62 13 0.13
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.32
Consensus pattern (60 bp):
AATATTCATATAAAAAATTACAATATTCATACAAAATTATAATCTAAACTATAAAAACTA
Found at i:17744064 original size:36 final size:36
Alignment explanation
Indices: 17743995--17744065 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
17743985 TTTAGAACAC
*
17743995 AAATGTGTGTTTAAAAATATTATATAATAAATAATG
1 AAATGTATGTTTAAAAATATTATATAATAAATAATG
*
17744031 AAATGTATGGTTTAAAACTAATTA-ATAAT-AATAAT
1 AAATGTAT-GTTTAAAAAT-ATTATATAATAAATAAT
17744066 AACATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.42
37 14 0.45
38 4 0.13
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (36 bp):
AAATGTATGTTTAAAAATATTATATAATAAATAATG
Found at i:17744679 original size:19 final size:19
Alignment explanation
Indices: 17744655--17744692 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17744645 AAATCCCGAG
17744655 TTAATCAAGTGGACGAGTC
1 TTAATCAAGTGGACGAGTC
17744674 TTAATCAAGTGGACGAGTC
1 TTAATCAAGTGGACGAGTC
17744693 ATATTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
TTAATCAAGTGGACGAGTC
Found at i:17757772 original size:17 final size:17
Alignment explanation
Indices: 17757750--17757811 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
17757740 ACATAACCAT
17757750 TTTAGCATAAAATTAAA
1 TTTAGCATAAAATTAAA
*
17757767 TTTAGCATAACA-TAACCA
1 TTTAGCATAAAATTAA--A
17757785 TTTTAGCATAAAATTAAA
1 -TTTAGCATAAAATTAAA
17757803 TTTAGCATA
1 TTTAGCATA
17757812 CCAATTACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.51
18 2 0.05
19 11 0.28
20 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTAGCATAAAATTAAA
Found at i:17757778 original size:36 final size:36
Alignment explanation
Indices: 17757738--17757811 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
17757728 GTGAATCATG
17757738 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
17757774 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
17757810 TA
1 TA
17757812 CCAATTACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (36 bp):
TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
Found at i:17757791 original size:19 final size:19
Alignment explanation
Indices: 17757738--17757795 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
17757728 GTGAATCATG
17757738 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
*
17757757 TAAAATTAA--A-TTTAGCA
1 TAACA-TAACCATTTTAGCA
17757774 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
17757793 TAA
1 TAA
17757796 AATTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 3 0.09
17 11 0.33
18 2 0.06
19 14 0.42
20 3 0.09
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (19 bp):
TAACATAACCATTTTAGCA
Found at i:17759006 original size:33 final size:33
Alignment explanation
Indices: 17758969--17759035 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
17758959 AAAATTGGAA
17758969 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
1 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
17759002 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
1 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
17759035 A
1 A
17759036 CTTTACCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
AATTTGCCCAATGGCGACTCTCACATTTCCCTT
Found at i:17760031 original size:18 final size:18
Alignment explanation
Indices: 17760010--17760047 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17760000 TATTTGAATT
17760010 TGCATATGTATCTGTAAC
1 TGCATATGTATCTGTAAC
* *
17760028 TGCATCTGTATTTGTAAC
1 TGCATATGTATCTGTAAC
17760046 TG
1 TG
17760048 ATTTGTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (18 bp):
TGCATATGTATCTGTAAC
Found at i:17763418 original size:46 final size:46
Alignment explanation
Indices: 17763338--17763615 Score: 450
Period size: 46 Copynumber: 6.0 Consensus size: 46
17763328 ACATTGCTAT
*
17763338 AACTCAGTATGGTTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
17763385 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
17763431 AACTCAGTATGGTTTTCTTTACC-AGAATACCATACCCACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGA-AATACCATACCTACTTTTCAC
*
17763477 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
17763523 AACTTAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
17763569 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
17763615 A
1 A
17763616 CTTTGCCATG
Statistics
Matches: 218, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 0.94
47 13 0.06
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:17767614 original size:13 final size:13
Alignment explanation
Indices: 17767596--17767620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17767586 ATTGCTTAAA
17767596 AATAATATCCCAT
1 AATAATATCCCAT
17767609 AATAATATCCCA
1 AATAATATCCCA
17767621 ACAATTTCCT
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:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATATCCCAT
Found at i:17770998 original size:22 final size:24
Alignment explanation
Indices: 17770956--17771000 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
17770946 TAACTAAGTT
17770956 TACTTGCTTTTCTAACTTAATTCA
1 TACTTGCTTTTCTAACTTAATTCA
17770980 TACTT-CTTTTCT-ACTTAATTC
1 TACTTGCTTTTCTAACTTAATTC
17771001 CTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.53
Consensus pattern (24 bp):
TACTTGCTTTTCTAACTTAATTCA
Found at i:17771509 original size:19 final size:20
Alignment explanation
Indices: 17771485--17771523 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17771475 ATTAATAAGC
17771485 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
17771504 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
17771524 TTCCACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:17772288 original size:15 final size:15
Alignment explanation
Indices: 17772268--17772319 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
17772258 AATATAAAAC
17772268 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
17772283 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
17772302 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
17772317 ATT
1 ATT
17772320 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:17772288 original size:31 final size:34
Alignment explanation
Indices: 17772253--17772319 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
17772243 TATTTTAACC
*
17772253 TTTATAA-TAT-A-AAACATTTATTATTAATATA
1 TTTATAATTATAATAAACATTTATTATTAAAATA
* *
17772284 TTTATAATTGTAATAAATATTTATTATTAAAATA
1 TTTATAATTATAATAAACATTTATTATTAAAATA
17772318 TT
1 TT
17772320 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 7 0.23
32 2 0.07
33 1 0.03
34 20 0.67
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (34 bp):
TTTATAATTATAATAAACATTTATTATTAAAATA
Found at i:17772478 original size:17 final size:16
Alignment explanation
Indices: 17772459--17772514 Score: 85
Period size: 17 Copynumber: 3.4 Consensus size: 16
17772449 AATTATTATA
17772459 TAAATAATATAATAAT
1 TAAATAATATAATAAT
*
17772475 ATAAATAATATGATAAT
1 -TAAATAATATAATAAT
17772492 TAAATAATATAAATAAT
1 TAAATAATAT-AATAAT
17772509 TAAATA
1 TAAATA
17772515 TGTATGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.28
17 26 0.72
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATAATATAATAAT
Found at i:17772512 original size:8 final size:8
Alignment explanation
Indices: 17772459--17772514 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
17772449 AATTATTATA
17772459 TAAATAA-
1 TAAATAAT
17772466 TATAATAAT
1 TA-AATAAT
17772475 ATAAATAA-
1 -TAAATAAT
*
17772483 TATGATAAT
1 TA-AATAAT
17772492 TAAATAAT
1 TAAATAAT
17772500 ATAAATAAT
1 -TAAATAAT
17772509 TAAATA
1 TAAATA
17772515 TGTATGTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
7 4 0.10
8 20 0.49
9 15 0.37
10 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
TAAATAAT
Found at i:17773066 original size:23 final size:20
Alignment explanation
Indices: 17773036--17773085 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
17773026 GTTCATTAAA
17773036 TAAAAATAACATTTAAATATCAC
1 TAAAAATAAC-TTTAAA-AT-AC
*
17773059 TAAAAATATCTTTAAAATAC
1 TAAAAATAACTTTAAAATAC
17773079 TAAAAAT
1 TAAAAAT
17773086 GTGAAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 2 0.08
22 6 0.23
23 9 0.35
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATAACTTTAAAATAC
Found at i:17775411 original size:8 final size:8
Alignment explanation
Indices: 17775387--17775427 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
17775377 TATGTGGTTG
17775387 ATGTGTAT
1 ATGTGTAT
* *
17775395 ACGTATAT
1 ATGTGTAT
17775403 ATGTGTAT
1 ATGTGTAT
17775411 ATGTGTAT
1 ATGTGTAT
17775419 ATGTGTAT
1 ATGTGTAT
17775427 A
1 A
17775428 CAACTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.46
Consensus pattern (8 bp):
ATGTGTAT
Found at i:17778861 original size:23 final size:23
Alignment explanation
Indices: 17778837--17778881 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17778827 AATGATATAT
*
17778837 TTTAATTATT-TTAATATTTTAA
1 TTTAATTATTATTAATATCTTAA
17778859 TTTAATTATTATTAATATCTTAA
1 TTTAATTATTATTAATATCTTAA
17778882 CAATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAATTATTATTAATATCTTAA
Found at i:17778888 original size:25 final size:22
Alignment explanation
Indices: 17778838--17778889 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
17778828 ATGATATATT
* *
17778838 TTAATTATTTTAATATTTTAAT
1 TTAATTATTTTAATATTTAAAA
17778860 TTAATTATTATTAATATCTTAACAA
1 TTAATTATT-TTAATAT-TTAA-AA
17778885 TTAAT
1 TTAAT
17778890 AATAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 7 0.28
24 3 0.12
25 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATTTTAATATTTAAAA
Found at i:17782503 original size:18 final size:18
Alignment explanation
Indices: 17782480--17782522 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17782470 TTTTGTCATT
*
17782480 ATATATTTTGAAAT-TAAA
1 ATATATATT-AAATATAAA
17782498 ATATATATTAAATATAAA
1 ATATATATTAAATATAAA
*
17782516 AAATATA
1 ATATATA
17782523 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATATTAAATATAAA
Found at i:17782522 original size:38 final size:38
Alignment explanation
Indices: 17782479--17782563 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
17782469 TTTTTGTCAT
* *
17782479 TATATATTTTGAAATTAAAATATATATTAAATATAAAAAA
1 TATA-ATTTTGAAATAAAAAT-TATATTAAAGATAAAAAA
** * *
17782519 TATAATTTTTTAATAAAAATTATCTTAAAGATAAAATA
1 TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
*
17782557 TAAAATT
1 TATAATT
17782564 GATGCAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 21 0.55
39 13 0.34
40 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (38 bp):
TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
Found at i:17783439 original size:16 final size:16
Alignment explanation
Indices: 17783418--17783459 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
17783408 CGTTCGGTTC
*
17783418 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
17783434 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
17783450 GGC-GTAATAG
1 -GCTGTAATAG
17783460 TAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:17783783 original size:61 final size:61
Alignment explanation
Indices: 17783704--17783906 Score: 215
Period size: 61 Copynumber: 3.3 Consensus size: 61
17783694 ATTTAATAAA
*
17783704 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * *
17783765 AATATATAATACT-ATAAAATATAATTTAA-AAT-AATAATTATTAAATAT-AATTTAATAAAA-
1 AATATATAAT-CTAATAAAAT-T--CTTAATATTAAAT-ATTCTT--ATATGAATTTACTAAAAT
17783825 -A-
59 CAT
* *
17783826 AATATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
17783887 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
17783907 ATAATTTAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
57 4 0.04
58 15 0.13
59 7 0.06
60 6 0.05
61 49 0.43
62 7 0.06
63 7 0.06
64 15 0.13
65 4 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (61 bp):
AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:17783803 original size:13 final size:12
Alignment explanation
Indices: 17783779--17783819 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
17783769 TATAATACTA
17783779 TAAAATATAATT
1 TAAAATATAATT
17783791 TAAAATAATAATT
1 TAAAAT-ATAATT
*
17783804 ATTAAATATAATT
1 -TAAAATATAATT
17783817 TAA
1 TAA
17783820 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:17783820 original size:102 final size:102
Alignment explanation
Indices: 17783707--17784048 Score: 350
Period size: 102 Copynumber: 3.2 Consensus size: 102
17783697 TAATAAAAAT
17783707 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
17783772 AATACTATAAAATATAATTTAAAATAATAATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
* * * * *
17783809 ATATAATTTAATAAAAAAATATATAAT-TTAATAAAAATCTTAATATTAAATATT-CTTATATGA
1 ATATAATTTAAT--AAAATTCT-TAATATT-A-AATATTCTT-ATA-TGAAT-TTAC-TA-A--A
* * * *
17783872 ATTTACTAA-A-ATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTACTAA
54 A-TCA-TAATATATAATACTATA-AA----AT---AT--AATTTAAAATAATAATTATTAA
17783931 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
17783996 AATACTATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
17784033 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
17784049 ATATATAATT
Statistics
Matches: 193, Mismatches: 19, Indels: 56
0.72 0.07 0.21
Matches are distributed among these distances:
102 48 0.25
104 10 0.05
105 5 0.03
106 7 0.04
107 5 0.03
108 5 0.03
109 4 0.02
110 4 0.02
111 5 0.03
112 22 0.11
113 5 0.03
114 4 0.02
115 4 0.02
116 5 0.03
117 5 0.03
118 7 0.04
119 5 0.03
120 10 0.05
122 33 0.17
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATAATTATTAA
Found at i:17783865 original size:122 final size:122
Alignment explanation
Indices: 17783669--17783946 Score: 506
Period size: 122 Copynumber: 2.3 Consensus size: 122
17783659 TTAATCATAT
* * *
17783669 TTTAACATAATTATTATTAAATATAATTTAAT--AAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAAATCTTAATA
17783732 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
17783789 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAAATCTTAATA
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAAATCTTAATA
17783854 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
17783911 TTTAAAATAATAATTACTAAATATAATTTAATAAAA
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAA
17783947 TTCTTAATAT
Statistics
Matches: 152, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 30 0.20
122 122 0.80
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (122 bp):
TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAAATCTTAATA
TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:17783883 original size:37 final size:36
Alignment explanation
Indices: 17783828--17783993 Score: 113
Period size: 37 Copynumber: 4.7 Consensus size: 36
17783818 AATAAAAAAA
17783828 TATATAATTTAATAAAAATCTTAATATTAAATATTCT
1 TATATAATTTAAT-AAAATCTTAATATTAAATATTCT
* *
17783865 TATATGAATTTACTAAAATCATAATA-TATAATA--C-
1 TATAT-AATTTAATAAAATCTTAATATTA-AATATTCT
* *
17783899 --TATAA---AATATAAT-TTAA-AATAATA-ATTACT
1 TATATAATTTAATAAAATCTTAATATTAA-ATATT-CT
*
17783929 AAATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 -TATATAATTTAATAAAA-TCTTAATATTAAATATTCT
* *
17783967 TATATGAATTTACTAAAATCATAATAT
1 TATAT-AATTTAATAAAATCTTAATAT
17783994 ATAATACTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 38
0.68 0.07 0.26
Matches are distributed among these distances:
26 3 0.03
27 6 0.06
28 6 0.06
29 1 0.01
31 2 0.02
32 3 0.03
33 5 0.05
35 1 0.01
36 8 0.08
37 33 0.33
38 25 0.25
39 7 0.07
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (36 bp):
TATATAATTTAATAAAATCTTAATATTAAATATTCT
Found at i:17783963 original size:224 final size:220
Alignment explanation
Indices: 17783707--17784131 Score: 762
Period size: 224 Copynumber: 1.9 Consensus size: 220
17783697 TAATAAAAAT
17783707 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
17783772 AATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATATAATT
66 AATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAAT--AAAAATATATAATT
* *
17783837 TAATAAAAATCTTAATATTAAA-TATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
129 TAATAAAAATATTAATA--AAATTATTCATATATGAATTTACTAAAATCATAATATATAATACTA
17783901 TAAAATATAATTTAAAATAATAATTACTAA
192 TAAAA-ATAATTTAAAATAATAATTACTAA
17783931 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
17783996 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTA
*
17784061 ATAAAATTATTAATAAAATTATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAA
131 ATAAAAATATTAATAAAATTATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAA
17784126 AATAAT
196 AATAAT
17784132 ATATAATCTA
Statistics
Matches: 196, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
220 8 0.04
221 46 0.23
222 29 0.15
224 113 0.58
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (220 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTA
ATAAAAATATTAATAAAATTATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAA
AATAATTTAAAATAATAATTACTAA
Found at i:17784073 original size:12 final size:12
Alignment explanation
Indices: 17784058--17784083 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17784048 AATATATAAT
17784058 TTAATAAAATTA
1 TTAATAAAATTA
17784070 TTAATAAAATTA
1 TTAATAAAATTA
17784082 TT
1 TT
17784084 CATATATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAATAAAATTA
Found at i:17784241 original size:12 final size:12
Alignment explanation
Indices: 17784224--17784250 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17784214 TTCTACAATA
17784224 AATATATAATTT
1 AATATATAATTT
17784236 AATATATAATTT
1 AATATATAATTT
17784248 AAT
1 AAT
17784251 TATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATATAATTT
Found at i:17784534 original size:32 final size:32
Alignment explanation
Indices: 17784498--17784559 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
17784488 TCATGTTGGT
17784498 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
17784530 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
17784560 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:17785156 original size:15 final size:15
Alignment explanation
Indices: 17785145--17785176 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17785135 AATAAATTGG
17785145 AATATTAAAAATAAA
1 AATATTAAAAATAAA
17785160 AATATTAAAAATAAA
1 AATATTAAAAATAAA
17785175 AA
1 AA
17785177 AAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATATTAAAAATAAA
Found at i:17785296 original size:23 final size:23
Alignment explanation
Indices: 17785249--17785296 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
17785239 TTTTTATTTT
**
17785249 AACTTGAATTACAAAAATATCCA
1 AACTTGAATTACAAAAATAAACA
17785272 AACTTGAATTACAAAAATAAACA
1 AACTTGAATTACAAAAATAAACA
17785295 AA
1 AA
17785297 TGCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (23 bp):
AACTTGAATTACAAAAATAAACA
Found at i:17785393 original size:111 final size:112
Alignment explanation
Indices: 17785278--17785626 Score: 263
Period size: 111 Copynumber: 3.1 Consensus size: 112
17785268 TCCAAACTTG
*
17785278 AATTACAAA-AATAAACAAATGCATTATTTAGTAAATTGAAAAACAATTGCATAAAACCAATCCA
1 AATTAAAAATAATAAACAAATGCATTATTTAGTAAATTGAAAAACAATTGCATAAAACCAATCCA
17785342 TAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATAATAGTTAA
66 TAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATAATAGTTAA
* ** ** *** * ** **
17785389 AATTAAAAATAATAAAAATAAATTTAATTATTTTTTAAATAT-ATAATTTAATTAG-TTTTATGC
1 AATTAAAAATAAT--AAACAAA-TGCATTATTTAGTAAAT-TGA-AAAACAATT-GCATAAAACC
* ** * ** * * * * *
17785452 ATTTAATTA-TTTTTATTT-TAACTTG---AAT--TTCAAAAATATCCAAACTT-G
60 AATCCATAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATA---ATAGTTAA
* *
17785500 AATTACAAA-AATAAACAATTGCATTATTTAGTAAATTGAAAAACAATTGCATAAAACCAATCCA
1 AATTAAAAATAATAAACAAATGCATTATTTAGTAAATTGAAAAACAATTGCATAAAACCAATCCA
** *
17785564 TAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAATAGTTAA
66 TAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATAATAGTTAA
17785611 AATTAAAAATAATAAA
1 AATTAAAAATAATAAA
17785627 AATAAATTGT
Statistics
Matches: 162, Mismatches: 55, Indels: 41
0.63 0.21 0.16
Matches are distributed among these distances:
105 1 0.01
106 15 0.09
107 18 0.11
108 11 0.07
109 9 0.06
110 7 0.04
111 30 0.19
112 13 0.08
113 9 0.06
114 12 0.07
115 21 0.13
116 15 0.09
117 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.34
Consensus pattern (112 bp):
AATTAAAAATAATAAACAAATGCATTATTTAGTAAATTGAAAAACAATTGCATAAAACCAATCCA
TAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATAATAGTTAA
Found at i:17785428 original size:21 final size:24
Alignment explanation
Indices: 17785401--17785447 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17785391 TTAAAAATAA
* *
17785401 TAAAAATA-AATTTAATTATTTTT
1 TAAATATATAATTTAATTAGTTTT
17785424 TAAATATATAATTTAATTAGTTTT
1 TAAATATATAATTTAATTAGTTTT
17785448 ATGCATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATATATAATTTAATTAGTTTT
Found at i:17785447 original size:23 final size:23
Alignment explanation
Indices: 17785401--17785448 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17785391 TTAAAAATAA
*
17785401 TAAAAATAAATTTAATTATTTTT
1 TAAAAATAAATTTAATTATGTTT
*
17785424 TAAATATATAATTTAATTA-GTTT
1 TAAAAATA-AATTTAATTATGTTT
17785447 TA
1 TA
17785449 TGCATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAAAATAAATTTAATTATGTTT
Found at i:17785581 original size:222 final size:222
Alignment explanation
Indices: 17785187--17785634 Score: 833
Period size: 222 Copynumber: 2.0 Consensus size: 222
17785177 AAATTAATTT
*
17785187 AATTTAATTAATTTTTAAATATATAATTTAATTATTTTTATGCATTTAATTATTTTTATTTTAAC
1 AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
17785252 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
66 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
** *
17785317 AAAACAATTGCATAAAACCAATCCATAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATAA
131 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
17785382 TAGTTAAAATTAAAAATAATAAAAATA
196 TAGTTAAAATTAAAAATAATAAAAATA
*
17785409 AATTTAATTATTTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
1 AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
* *
17785474 TTGAATTTCAAAAATATCCAAACTTGAATTACAAAAATAAACAATTGCATTATTTAGTAAATTGA
66 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
17785539 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
131 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
17785604 TAGTTAAAATTAAAAATAATAAAAATA
196 TAGTTAAAATTAAAAATAATAAAAATA
17785631 AATT
1 AATT
17785635 GTTTTGCACT
Statistics
Matches: 219, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 219 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (222 bp):
AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
TAGTTAAAATTAAAAATAATAAAAATA
Found at i:17786776 original size:17 final size:18
Alignment explanation
Indices: 17786743--17786779 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
17786733 ATCGAGTCAT
17786743 AAAATTTCATTAATTATTA
1 AAAATTTCA-TAATTATTA
17786762 AAAATTTCA-AATTATTA
1 AAAATTTCATAATTATTA
17786779 A
1 A
17786780 CATGCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTCATAATTATTA
Found at i:17789230 original size:25 final size:25
Alignment explanation
Indices: 17789194--17789252 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
17789184 ATAGAAACGG
*
17789194 AAAACATCAACTTAATACAGAAACC
1 AAAACATGAACTTAATACAGAAACC
17789219 AAAACATGAACTTAATACAGAAACC
1 AAAACATGAACTTAATACAGAAACC
17789244 AAAACATGA
1 AAAACATGA
17789253 CCATTATAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.58, C:0.20, G:0.07, T:0.15
Consensus pattern (25 bp):
AAAACATGAACTTAATACAGAAACC
Found at i:17790141 original size:5 final size:5
Alignment explanation
Indices: 17790131--17790156 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17790121 TTGATTTTAC
17790131 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
17790157 ACAGGGAAAG
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:17790238 original size:19 final size:17
Alignment explanation
Indices: 17790203--17790243 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
17790193 AAATGGAGAA
*
17790203 AAGAAAAGAAACGTGAG
1 AAGAAAAGAAACATGAG
17790220 AAGAAAAGAAACATATGAG
1 AAGAAAAGAAAC--ATGAG
17790239 AAGAA
1 AAGAA
17790244 GAAGCAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.63, C:0.05, G:0.24, T:0.07
Consensus pattern (17 bp):
AAGAAAAGAAACATGAG
Found at i:17802460 original size:14 final size:14
Alignment explanation
Indices: 17802441--17802469 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17802431 ACCTATGATA
17802441 ATACTGTAATAGAC
1 ATACTGTAATAGAC
17802455 ATACTGTAATAGAC
1 ATACTGTAATAGAC
17802469 A
1 A
17802470 AATCTATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
ATACTGTAATAGAC
Found at i:17803339 original size:9 final size:9
Alignment explanation
Indices: 17803325--17803352 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17803315 TTTTGTTGCA
17803325 ACAATTAAT
1 ACAATTAAT
17803334 ACAATTAAT
1 ACAATTAAT
17803343 ACAATTAAT
1 ACAATTAAT
17803352 A
1 A
17803353 GTTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:17803374 original size:68 final size:67
Alignment explanation
Indices: 17803295--17803495 Score: 278
Period size: 59 Copynumber: 3.1 Consensus size: 67
17803285 TCAAGTTTGT
* *
17803295 TTTACTAATCAAATGTTAGATTTTGTTGCAACAATTAATACAATTAATACAATTAATAGTTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT-CAACAATTAATACAATTAATACAATTAATAATTTGAT
17803360 AAA
65 AAA
17803363 TTTACTAATCAAATGTTAGATTTTATT--AC-----A-ACAATTAATACAATTAATAATTTGATA
1 TTTACTAATCAAATGTTAGATTTTATTCAACAATTAATACAATTAATACAATTAATAATTTGATA
17803420 AA
66 AA
*
17803422 TTTACTAATCAAATGTTAGATTTTATTACAATAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT-CAACAATTAATACAATTAATACAATTAATAATTTGAT
*
17803485 AAT
65 AAA
17803488 TTTACTAA
1 TTTACTAA
17803496 CAATTAATTT
Statistics
Matches: 120, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
59 55 0.46
60 1 0.01
62 1 0.01
65 2 0.02
66 27 0.22
67 2 0.02
68 32 0.27
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (67 bp):
TTTACTAATCAAATGTTAGATTTTATTCAACAATTAATACAATTAATACAATTAATAATTTGATA
AA
Found at i:17803505 original size:16 final size:16
Alignment explanation
Indices: 17803484--17803525 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
17803474 AATAATTTGA
*
17803484 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
17803500 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
17803516 TAGTTTTAAT
1 TAATTTTAAT
17803526 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:17803509 original size:22 final size:23
Alignment explanation
Indices: 17803499--17803554 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
17803489 TTACTAACAA
* * *
17803499 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
17803521 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
17803544 TTAATTTTAAT
1 TTAATTTTAAT
17803555 TTAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:17804431 original size:21 final size:21
Alignment explanation
Indices: 17804397--17804484 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
17804387 CTTTCTATTT
* *
17804397 AGCTCTTA-AGAGCTTTTGTTC
1 AGCTCTTATA-AGCTTCTGTTA
*
17804418 AGCTCTTATAAGCTTCTGTTT
1 AGCTCTTATAAGCTTCTGTTA
* * *
17804439 GGTTCTTACAAGCTTCTGTTA
1 AGCTCTTATAAGCTTCTGTTA
* * * *
17804460 AGCTTTTATGAGCTGCTATTA
1 AGCTCTTATAAGCTTCTGTTA
17804481 AGCT
1 AGCT
17804485 TTCAAGCTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 52 0.98
22 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (21 bp):
AGCTCTTATAAGCTTCTGTTA
Found at i:17805756 original size:21 final size:22
Alignment explanation
Indices: 17805731--17805771 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
17805721 TCTAACATGA
17805731 ATGTTATATT-ATATG-AAACAT
1 ATGTT-TATTGATATGTAAACAT
17805752 ATGTTTATTGATATGTAAAC
1 ATGTTTATTGATATGTAAAC
17805772 TCCGACAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ATGTTTATTGATATGTAAACAT
Found at i:17807329 original size:22 final size:22
Alignment explanation
Indices: 17807286--17807332 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17807276 AAAAACAAAA
* * *
17807286 AAATAGTAGCAATATAATAATG
1 AAATAGTAGCAAAACAACAATG
*
17807308 AAATGGTAGCAAAACAACAATG
1 AAATAGTAGCAAAACAACAATG
17807330 AAA
1 AAA
17807333 CAACTGATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (22 bp):
AAATAGTAGCAAAACAACAATG
Found at i:17807695 original size:25 final size:25
Alignment explanation
Indices: 17807666--17807716 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
17807656 TAAACTCGAG
17807666 ATTTTGAGATCTGTAAGTAAAACTA
1 ATTTTGAGATCTGTAAGTAAAACTA
17807691 ATTTTGAGATCTGTAAGTAAAACTA
1 ATTTTGAGATCTGTAAGTAAAACTA
17807716 A
1 A
17807717 AAAAAAAAGT
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:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (25 bp):
ATTTTGAGATCTGTAAGTAAAACTA
Found at i:17811457 original size:58 final size:60
Alignment explanation
Indices: 17811372--17811500 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 60
17811362 TATACATTTT
* * * * * * *
17811372 GGTACCTGAACTTGGTTTCAAGTTTTAATTTAGTACTT-AA-TTGTTTTTT-CTCCAATAA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTT-TTTTTTGCTCCAATAA
* * *
17811430 GGTACTTGAACGTGGCTTAAAGGTTTAACTTGGCACTTCAAGTTTTTTTTGGTCCAATTA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTTTTTTTGCTCCAATAA
17811490 GGTACTTGAAC
1 GGTACTTGAAC
17811501 TTGCTTGCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
58 30 0.52
59 8 0.14
60 20 0.34
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (60 bp):
GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTTTTTTTGCTCCAATAA
Found at i:17817358 original size:5 final size:5
Alignment explanation
Indices: 17817344--17817392 Score: 82
Period size: 5 Copynumber: 10.0 Consensus size: 5
17817334 CGAAATAGTA
*
17817344 ATTA- ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAA ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
17817393 TTTCTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:17821607 original size:25 final size:25
Alignment explanation
Indices: 17821556--17821642 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
17821546 TATCGATTTT
* *
17821556 AGCTCTTATGAGCTTACCGA-TACTC
1 AGCTCGTATGAGCTTACC-ATTATTC
17821581 AGCTCGTATGAGCTTACCATTATTC
1 AGCTCGTATGAGCTTACCATTATTC
* *
17821606 AGCTCAG-AAGAGCTTACCATT-TAC
1 AGCTC-GTATGAGCTTACCATTATTC
17821630 AGCTCGTATGAGC
1 AGCTCGTATGAGC
17821643 ATATATGTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 13 0.24
25 39 0.72
26 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCATTATTC
Found at i:17825563 original size:46 final size:46
Alignment explanation
Indices: 17825504--17825865 Score: 474
Period size: 46 Copynumber: 8.3 Consensus size: 46
17825494 TGACAAGTGG
**
17825504 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
**
17825550 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCCAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
*
17825596 AAAATGATAAGTGGTAGCCTTAGCTACAC---T-T-ATC---TGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
**
17825634 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
**
17825680 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCCAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
*
17825726 AAAATGATAAGTGGTAGCCTTAGCTACAC---T-T-ATC---TGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
*
17825764 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA-
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
* *
17825809 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT-TAGGGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
17825854 -AAGTGATAAGTG
1 AAAGTGATAAGTG
17825866 ATCATACTTA
Statistics
Matches: 277, Mismatches: 22, Indels: 36
0.83 0.07 0.11
Matches are distributed among these distances:
38 57 0.21
41 8 0.03
42 4 0.01
43 8 0.03
44 16 0.06
45 37 0.13
46 147 0.53
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
Found at i:17825688 original size:84 final size:84
Alignment explanation
Indices: 17825546--17825865 Score: 354
Period size: 84 Copynumber: 3.8 Consensus size: 84
17825536 TCTGATCAAG
** *
17825546 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCCACAAAATGATAAGTGGT
1 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
17825611 AGCCTTAGCTACACTTATC
66 AGCCTTAGCTACACTTATC
**
17825630 TGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
17825695 AGCCTTAGCTACACTTATC
66 AGCCTTAGCTACACTTATC
*
17825714 TGATCAAGCCACAAAATGATAAGTGGTAGCCTTAGCTACAC---T-T-ATC---TGACAAAGTGA
1 ---T---G--ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
*
17825771 TAAGTGGTAGCTTTAGCTACACTTATC
58 TAAGTGGTAGCCTTAGCTACACTTATC
* *
17825798 TGATCAAGTGAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT-TAGGGAC-AAGTGAT
1 TGA-C------AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
17825861 AAGTG
59 AAGTG
17825866 ATCATACTTA
Statistics
Matches: 202, Mismatches: 11, Indels: 41
0.80 0.04 0.16
Matches are distributed among these distances:
76 1 0.00
77 1 0.00
78 1 0.00
81 1 0.00
83 28 0.14
84 116 0.57
86 1 0.00
87 5 0.02
88 3 0.01
89 13 0.06
90 4 0.02
92 28 0.14
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (84 bp):
TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
AGCCTTAGCTACACTTATC
Found at i:17825737 original size:130 final size:130
Alignment explanation
Indices: 17825504--17825846 Score: 670
Period size: 130 Copynumber: 2.6 Consensus size: 130
17825494 TGACAAGTGG
17825504 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
1 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
17825569 TTAGCTACACTTATCTGATCAAGCCACAAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGAC
66 TTAGCTACACTTATCTGATCAAGCCACAAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGAC
17825634 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
1 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
17825699 TTAGCTACACTTATCTGATCAAGCCACAAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGAC
66 TTAGCTACACTTATCTGATCAAGCCACAAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGAC
*
17825764 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCC
1 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
17825828 TTAGCTACACTTATCTGAT
66 TTAGCTACACTTATCTGAT
17825847 TAGGGACAAG
Statistics
Matches: 212, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
129 38 0.18
130 174 0.82
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (130 bp):
AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
TTAGCTACACTTATCTGATCAAGCCACAAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGAC
Found at i:17825867 original size:51 final size:45
Alignment explanation
Indices: 17825764--17825865 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
17825754 CTTATCTGAC
*
17825764 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
* *
17825809 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT-TAGGGA
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
*
17825853 CAAGTGATAAGTG
1 AAAGTGATAAGTG
17825866 ATCATACTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 16 0.30
45 37 0.70
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (45 bp):
AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
Found at i:17827750 original size:20 final size:20
Alignment explanation
Indices: 17827684--17827750 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
17827674 ATTTATAACC
17827684 TATATTT-A-AATTTTGTAA
1 TATATTTCATAATTTTGTAA
*
17827702 GTATTATTTCATATATTTTGTTA
1 -TA-TATTTCATA-ATTTTGTAA
*
17827725 TA-ATTTCATAATTTTATAA
1 TATATTTCATAATTTTGTAA
17827744 TATATTT
1 TATATTT
17827751 GGTTTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 11 0.28
20 17 0.43
21 1 0.03
22 3 0.08
23 8 0.20
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATTTCATAATTTTGTAA
Found at i:17849274 original size:27 final size:27
Alignment explanation
Indices: 17849236--17849305 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
17849226 CAAGGTTACT
17849236 CACACAAGCTGACATTATGAATCTGCC
1 CACACAAGCTGACATTATGAATCTGCC
* *
17849263 CACACAAGCTGACATTATGAATTTGCT
1 CACACAAGCTGACATTATGAATCTGCC
*
17849290 CACACAAGCTAACATT
1 CACACAAGCTGACATT
17849306 GTATCGAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (27 bp):
CACACAAGCTGACATTATGAATCTGCC
Found at i:17849665 original size:21 final size:20
Alignment explanation
Indices: 17849641--17849690 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
17849631 CATTTATATA
17849641 AATTAATAAGCAAAATAAAAC
1 AATTAATAA-CAAAATAAAAC
* *
17849662 AATTCAATCACAACATAAAAC
1 AATT-AATAACAAAATAAAAC
17849683 AATATAAT
1 AAT-TAAT
17849691 GAATGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.22
Consensus pattern (20 bp):
AATTAATAACAAAATAAAAC
Done.