Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 49 of 100
Found at i:8972208 original size:9 final size:9
Alignment explanation
Indices: 8972196--8972269 Score: 59
Period size: 9 Copynumber: 8.7 Consensus size: 9
8972186 TCAAAATGAC
8972196 AAAAATAAT
1 AAAAATAAT
8972205 -AAAATAAT
1 AAAAATAAT
*
8972213 AAAAAAAAT
1 AAAAATAAT
8972222 -AAAA-AA-
1 AAAAATAAT
*
8972228 AAAGATAAT
1 AAAAATAAT
*
8972237 AATAATAAT
1 AAAAATAAT
* *
8972246 AATAATGAT
1 AAAAATAAT
8972255 AAAAA-AATT
1 AAAAATAA-T
8972264 AAAAAT
1 AAAAAT
8972270 TAAAAATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
7 5 0.10
8 15 0.29
9 32 0.62
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAATAAT
Found at i:8972208 original size:17 final size:17
Alignment explanation
Indices: 8972182--8972225 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
8972172 AAATAAAATC
*
8972182 AAAATCAAAATGACAAAA
1 AAAAT-AAAATAACAAAA
* *
8972200 ATAATAAAATAATAAAA
1 AAAATAAAATAACAAAA
8972217 AAAATAAAA
1 AAAATAAAA
8972226 AAAAAGATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAACAAAA
Found at i:8973279 original size:24 final size:25
Alignment explanation
Indices: 8973225--8973281 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
8973215 TTATTATTTA
*
8973225 ATATATATTATTAAAATAATATAAT
1 ATATTTATTATTAAAATAATATAAT
* *
8973250 ATATTTATTATTGAAATATTA-AAT
1 ATATTTATTATTAAAATAATATAAT
8973274 ATATTTAT
1 ATATTTAT
8973282 GTTTAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATTTATTATTAAAATAATATAAT
Found at i:8973454 original size:15 final size:16
Alignment explanation
Indices: 8973426--8973456 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8973416 AAATTTTATG
8973426 TTAAAATATAAAATAT
1 TTAAAATATAAAATAT
8973442 TTAAAAT-TAAAATAT
1 TTAAAATATAAAATAT
8973457 CAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAATATAAAATAT
Found at i:8973710 original size:160 final size:161
Alignment explanation
Indices: 8973517--8973839 Score: 621
Period size: 160 Copynumber: 2.0 Consensus size: 161
8973507 TTCAATTAAA
*
8973517 TTAAACTTAAATTTAAATTTAAAAAAATCATATTTATGATCCAATTTGAGTAAAATTATGCTCAT
1 TTAAACTTAAACTTAAATTTAAAAAAATCATATTTATGATCCAATTTGAGTAAAATTATGCTCAT
8973582 AAACTTTATAACTAATCCTATATATAAATAATTTTTTGTCAAAAATTATCATTTTTTTCAAAAGA
66 AAACTTTATAACTAATCCTATATATAAATAATTTTTTGTCAAAAATTATCATTTTTTTCAAAAGA
8973647 GTAAAATAATTTTTAGAAAAATAATTTTATT
131 GTAAAATAATTTTTAGAAAAATAATTTTATT
*
8973678 TTAAA-TTAAACTTAAATTTAAAAAAATCATATTTATGATCCGATTTGAGTAAAATTATGCTCAT
1 TTAAACTTAAACTTAAATTTAAAAAAATCATATTTATGATCCAATTTGAGTAAAATTATGCTCAT
8973742 AAACTTTATAACTAATCCTATATATAAATAATTTTTTGTCAAAAATTATCATTTTTTTCAAAAGA
66 AAACTTTATAACTAATCCTATATATAAATAATTTTTTGTCAAAAATTATCATTTTTTTCAAAAGA
8973807 GTAAAATAATTTTTAGAAAAATAATTTTATT
131 GTAAAATAATTTTTAGAAAAATAATTTTATT
8973838 TT
1 TT
8973840 TCATTAACAA
Statistics
Matches: 160, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
160 155 0.97
161 5 0.03
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (161 bp):
TTAAACTTAAACTTAAATTTAAAAAAATCATATTTATGATCCAATTTGAGTAAAATTATGCTCAT
AAACTTTATAACTAATCCTATATATAAATAATTTTTTGTCAAAAATTATCATTTTTTTCAAAAGA
GTAAAATAATTTTTAGAAAAATAATTTTATT
Found at i:8974955 original size:22 final size:20
Alignment explanation
Indices: 8974923--8974963 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
8974913 TGTGTCTTGC
*
8974923 ATTTAATAAATATATATTTTTA
1 ATTTAACAAATA-AT-TTTTTA
8974945 ATTTAACAAATAATTTTTT
1 ATTTAACAAATAATTTTTT
8974964 GAAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAACAAATAATTTTTTA
Found at i:8977087 original size:2 final size:2
Alignment explanation
Indices: 8977068--8977115 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
8977058 GCATATAATT
*
8977068 TA TA CA TA TA -A T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8977108 TA TA TA TA
1 TA TA TA TA
8977116 ATAACTCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8980462 original size:18 final size:18
Alignment explanation
Indices: 8980441--8980476 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8980431 ATACTTTAAA
*
8980441 AAAGTGTGCATTTTTTTT
1 AAAGTGGGCATTTTTTTT
*
8980459 AAAGTGGGTATTTTTTTT
1 AAAGTGGGCATTTTTTTT
8980477 CAAATTTAAA
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:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (18 bp):
AAAGTGGGCATTTTTTTT
Found at i:8983836 original size:17 final size:16
Alignment explanation
Indices: 8983816--8983865 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
8983806 ATTTTAATTT
8983816 TATATTTATATATATA
1 TATATTTATATATATA
* *
8983832 CTATATTTATACATTTGA
1 -TATATTTATATATAT-A
*
8983850 TATATTCATATATATA
1 TATATTTATATATATA
8983866 AATACGTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (16 bp):
TATATTTATATATATA
Found at i:8984689 original size:17 final size:17
Alignment explanation
Indices: 8984631--8984689 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 17
8984621 TTTAATATAT
*
8984631 TAATTTA-ATAAAATAA
1 TAATTTATATAAAAAAA
8984647 TATATTTATATAAATTAAAA
1 TA-ATTTATATAAA--AAAA
8984667 TGTAATTTATATAAAAAAA
1 --TAATTTATATAAAAAAA
8984686 TAAT
1 TAAT
8984690 ATTTTCCTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
16 2 0.06
17 9 0.25
18 5 0.14
19 4 0.11
20 3 0.08
21 11 0.31
22 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAATTTATATAAAAAAA
Found at i:8984766 original size:2 final size:2
Alignment explanation
Indices: 8984759--8984796 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8984749 ATGTACATAC
* *
8984759 AT AT AT AT AT AT AT AT AT AC AT AC 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 AT AT
8984797 GTTGGGTCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8984779 original size:24 final size:24
Alignment explanation
Indices: 8984746--8984796 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
8984736 AAATGCAGGT
*
8984746 TATATGTACATACATATATATATA
1 TATATATACATACATATATATATA
8984770 TATATATACATACATATATATATA
1 TATATATACATACATATATATATA
8984794 TAT
1 TAT
8984797 GTTGGGTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (24 bp):
TATATATACATACATATATATATA
Found at i:8984970 original size:16 final size:16
Alignment explanation
Indices: 8984951--8984982 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8984941 TGGGTGTTTC
8984951 TTTTTTTTATTTTTTA
1 TTTTTTTTATTTTTTA
*
8984967 TTTTTTTTGTTTTTTA
1 TTTTTTTTATTTTTTA
8984983 ATTGTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTTTATTTTTTA
Found at i:8985291 original size:2 final size:2
Alignment explanation
Indices: 8985279--8985312 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8985269 CTCCTTCATG
*
8985279 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8985313 AGATAATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8990087 original size:30 final size:30
Alignment explanation
Indices: 8990064--8990119 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8990054 AGGGCTTAAT
8990064 TTAG-TGAAAATAGATGTTTAAGGGTTGAA
1 TTAGATGAAAATAGATGTTTAAGGGTTGAA
*
8990093 TTGGATGAAAATAGATG-TTAATGGGTT
1 TTAGATGAAAATAGATGTTTAA-GGGTT
8990120 CAACTGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (30 bp):
TTAGATGAAAATAGATGTTTAAGGGTTGAA
Found at i:8990134 original size:30 final size:30
Alignment explanation
Indices: 8990070--8990137 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8990060 TAATTTAGTG
* * *
8990070 AAAATAGATGTTTAAGGGTTGAATTGGATG
1 AAAATAGATGTTTAAGGGTTCAACTGGATC
8990100 AAAATAGATG-TTAATGGGTTCAACT-GATTC
1 AAAATAGATGTTTAA-GGGTTCAACTGGA-TC
8990130 AAAATAGA
1 AAAATAGA
8990138 AGATTCAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.18
30 27 0.82
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (30 bp):
AAAATAGATGTTTAAGGGTTCAACTGGATC
Found at i:8992567 original size:16 final size:19
Alignment explanation
Indices: 8992526--8992569 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
8992516 AAATCATGAA
8992526 AATAAAAAATTAAAATTTT
1 AATAAAAAATTAAAATTTT
*
8992545 AACAAAAAA-T-AAA-TTT
1 AATAAAAAATTAAAATTTT
8992561 AATAAAAAA
1 AATAAAAAA
8992570 ATATGTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 3 0.13
18 1 0.04
19 8 0.35
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAAAAATTAAAATTTT
Found at i:8992570 original size:17 final size:18
Alignment explanation
Indices: 8992526--8992572 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
8992516 AAATCATGAA
*
8992526 AATAAAAAATTAAAATTTT
1 AATAAAAAAAT-AAATTTT
*
8992545 AA-CAAAAAATAAA-TTT
1 AATAAAAAAATAAATTTT
8992561 AATAAAAAAATA
1 AATAAAAAAATA
8992573 TGTTTCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 6 0.25
19 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAAAAAAATAAATTTT
Found at i:8996531 original size:12 final size:12
Alignment explanation
Indices: 8996514--8996552 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
8996504 GTATATCAAA
8996514 AATTAAAATATT
1 AATTAAAATATT
8996526 AATTAAAATATT
1 AATTAAAATATT
*
8996538 --TTAATATATT
1 AATTAAAATATT
8996548 AATTA
1 AATTA
8996553 CAATTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTAAAATATT
Found at i:8997379 original size:27 final size:28
Alignment explanation
Indices: 8997304--8997365 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
8997294 TTTTCGAATA
*
8997304 TTAAAT-TT-ATTAATAAA-TTTATAAT
1 TTAAATATTAATTAAAAAATTTTATAAT
8997329 TTAAATATTAATTAAAAAATTTTA-AAT
1 TTAAATATTAATTAAAAAATTTTATAAT
8997356 TTAAATATTA
1 TTAAATATTA
8997366 TGTTAAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 6 0.18
26 2 0.06
27 21 0.64
28 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTAAATATTAATTAAAAAATTTTATAAT
Found at i:9007981 original size:16 final size:16
Alignment explanation
Indices: 9007948--9007981 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9007938 AAAATCTAGA
*
9007948 CTTTTTTTTCCTTTTT
1 CTTTTTTTTCCTTATT
*
9007964 CTTTTTTTTTCTTATT
1 CTTTTTTTTCCTTATT
9007980 CT
1 CT
9007982 AAAATCCGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTTTTTTTCCTTATT
Found at i:9008003 original size:2 final size:2
Alignment explanation
Indices: 9007996--9008021 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9007986 TCCGGATCGT
9007996 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
9008022 CATTATAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9008581 original size:19 final size:20
Alignment explanation
Indices: 9008549--9008591 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9008539 GGATATATAC
*
9008549 ATATATTAATTTTTAAAATT
1 ATATATTAAATTTTAAAATT
*
9008569 ATAT-TTAAATTTTTAAATT
1 ATATATTAAATTTTAAAATT
9008588 -TATA
1 ATATA
9008592 ATATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 13 0.65
20 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATATTAAATTTTAAAATT
Found at i:9010889 original size:33 final size:34
Alignment explanation
Indices: 9010852--9010923 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
9010842 ACAAACTCCC
9010852 ACTACAAAACT-CCCATC-ATCAAACTACAAATCA
1 ACTACAAAACTCCCCA-CGATCAAACTACAAATCA
9010885 ACTACAAAACTCCCCACGATCAAACTACAAATCA
1 ACTACAAAACTCCCCACGATCAAACTACAAATCA
9010919 ACTAC
1 ACTAC
9010924 TTAGAATAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
33 12 0.32
34 25 0.68
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (34 bp):
ACTACAAAACTCCCCACGATCAAACTACAAATCA
Found at i:9024168 original size:19 final size:21
Alignment explanation
Indices: 9024142--9024187 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9024132 GATATATACA
9024142 TATATATT-AATTTTTTAAAAT
1 TATAT-TTAAATTTTTTAAAAT
*
9024163 TATATTTAAATTTTTTAAATT
1 TATATTTAAATTTTTTAAAAT
9024184 TATA
1 TATA
9024188 ATATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTTAAATTTTTTAAAAT
Found at i:9024176 original size:20 final size:21
Alignment explanation
Indices: 9024142--9024187 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
9024132 GATATATACA
*
9024142 TATATATTAATTTTTTAAAAT
1 TATATATTAAATTTTTAAAAT
*
9024163 TATAT-TTAAATTTTTTAAAT
1 TATATATTAAATTTTTAAAAT
9024183 T-TATA
1 TATATA
9024188 ATATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATATTAAATTTTTAAAAT
Found at i:9026505 original size:33 final size:33
Alignment explanation
Indices: 9026468--9026538 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
9026458 ACAAACTCCC
9026468 ACTACAAAACTCCCATC-ATCAAACTACAAATCA
1 ACTACAAAACTCCCA-CGATCAAACTACAAATCA
9026501 ACTACAAAACTCCCACGATCAAACTACAAATCA
1 ACTACAAAACTCCCACGATCAAACTACAAATCA
9026534 ACTAC
1 ACTAC
9026539 TTAGAATAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (33 bp):
ACTACAAAACTCCCACGATCAAACTACAAATCA
Found at i:9033238 original size:14 final size:14
Alignment explanation
Indices: 9033219--9033246 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9033209 TTTAATAATT
9033219 TTTTTAAAAAATAA
1 TTTTTAAAAAATAA
9033233 TTTTTAAAAAATAA
1 TTTTTAAAAAATAA
9033247 ACTATAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:9039902 original size:17 final size:16
Alignment explanation
Indices: 9039880--9039915 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9039870 GGTTAGGTAA
*
9039880 TTTTATATTTTATATAT
1 TTTTATATATTAT-TAT
9039897 TTTTATATATTATTAT
1 TTTTATATATTATTAT
9039913 TTT
1 TTT
9039916 GTTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATATATTATTAT
Found at i:9040280 original size:30 final size:30
Alignment explanation
Indices: 9040246--9040354 Score: 112
Period size: 30 Copynumber: 3.5 Consensus size: 30
9040236 TTTTTTATAA
9040246 AATAAAATAAAAAATTAACTAAAAATTATT
1 AATAAAATAAAAAATTAACTAAAAATTATT
* *
9040276 AATAAAA-ATAAAAATTAATTAAGAATTATTACT
1 AATAAAATA-AAAAATTAACTAA-AA--ATTATT
* * *
9040309 AAAAAAATAAAAAAATAACTAAAAAATATT
1 AATAAAATAAAAAATTAACTAAAAATTATT
9040339 AATAAAAATAATAAAA
1 AAT-AAAATAA-AAAA
9040355 AATGATAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
29 1 0.02
30 25 0.39
31 9 0.14
32 6 0.09
33 22 0.34
34 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.27
Consensus pattern (30 bp):
AATAAAATAAAAAATTAACTAAAAATTATT
Found at i:9040339 original size:33 final size:32
Alignment explanation
Indices: 9040240--9040357 Score: 132
Period size: 33 Copynumber: 3.6 Consensus size: 32
9040230 TCTTTCTTTT
9040240 TTATAAAATAAAATAAAAAATTAACTAAAAATTA
1 TTAT-AAA-AAAATAAAAAATTAACTAAAAATTA
* * *
9040274 TTA-ATAAAAAT-AAAAATTAATTAAGAATTA
1 TTATAAAAAAATAAAAAATTAACTAAAAATTA
* *
9040304 TTACTAAAAAAATAAAAAAATAACTAAAAAATA
1 TTA-TAAAAAAATAAAAAATTAACTAAAAATTA
9040337 TTAATAAAAATAATAAAAAAT
1 TT-ATAAAAA-AATAAAAAAT
9040358 GATAAAAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
30 20 0.29
31 5 0.07
32 9 0.13
33 23 0.33
34 13 0.19
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.28
Consensus pattern (32 bp):
TTATAAAAAAATAAAAAATTAACTAAAAATTA
Found at i:9040344 original size:13 final size:11
Alignment explanation
Indices: 9040309--9040366 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
9040299 AATTATTACT
9040309 AAAAA-AATAA
1 AAAAATAATAA
9040319 AAAAATAACT-A
1 AAAAATAA-TAA
*
9040330 AAAAATATTAA
1 AAAAATAATAA
9040341 TAAAAATAAT-A
1 -AAAAATAATAA
*
9040352 AAAAATGATAA
1 AAAAATAATAA
9040363 AAAA
1 AAAA
9040367 GAAAATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 14 0.35
11 17 0.43
12 9 0.22
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:9041717 original size:18 final size:18
Alignment explanation
Indices: 9041694--9041730 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9041684 TCTTTTTATC
9041694 TTTTTAAATATATAAAAT
1 TTTTTAAATATATAAAAT
*
9041712 TTTTTAAATATATATAAT
1 TTTTTAAATATATAAAAT
9041730 T
1 T
9041731 ATCTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAAATATATAAAAT
Found at i:9041833 original size:39 final size:40
Alignment explanation
Indices: 9041747--9041823 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 40
9041737 TTATATATTT
9041747 TTTAAATATATAATTTAAATATATTGTTATCAAAAAAATC
1 TTTAAATATATAATTTAAATATATTGTTATCAAAAAAATC
* * *
9041787 TGTAAATA-ATAA-TT-AA-ATCTTGTTATCAACAAAATC
1 TTTAAATATATAATTTAAATATATTGTTATCAAAAAAATC
9041823 T
1 T
9041824 AATTTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 19 0.56
37 2 0.06
38 2 0.06
39 4 0.12
40 7 0.21
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (40 bp):
TTTAAATATATAATTTAAATATATTGTTATCAAAAAAATC
Found at i:9044220 original size:26 final size:26
Alignment explanation
Indices: 9044184--9044235 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9044174 TTGTATCATC
9044184 ATAAAGGTTGAAAAAAATATTAGTCT
1 ATAAAGGTTGAAAAAAATATTAGTCT
9044210 ATAAAGGTTGAAAAAAATATTAGTCT
1 ATAAAGGTTGAAAAAAATATTAGTCT
9044236 TAGTATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (26 bp):
ATAAAGGTTGAAAAAAATATTAGTCT
Found at i:9045448 original size:14 final size:15
Alignment explanation
Indices: 9045421--9045451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9045411 AATTGGGAAA
9045421 AGAAAAGAAAAGGGG
1 AGAAAAGAAAAGGGG
*
9045436 AGAAAAGAAAGGGGG
1 AGAAAAGAAAAGGGG
9045451 A
1 A
9045452 AAGAGGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAAGGGG
Found at i:9049154 original size:16 final size:16
Alignment explanation
Indices: 9049133--9049166 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9049123 CAAAATTAAT
9049133 AAAATATTATTTTTTA
1 AAAATATTATTTTTTA
9049149 AAAATATTATTTTTTA
1 AAAATATTATTTTTTA
9049165 AA
1 AA
9049167 TATAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATATTATTTTTTA
Found at i:9049204 original size:16 final size:16
Alignment explanation
Indices: 9049163--9049214 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
9049153 TATTATTTTT
*
9049163 TAAATATA-AA-TATT
1 TAAATATATAATTATA
*
9049177 TAAAAATATAATTATA
1 TAAATATATAATTATA
*
9049193 TAAATATATAATTAAA
1 TAAATATATAATTATA
9049209 TAAATA
1 TAAATA
9049215 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 23 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATATATAATTATA
Found at i:9049210 original size:12 final size:12
Alignment explanation
Indices: 9049193--9049227 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9049183 TATAATTATA
*
9049193 TAAATATATAAT
1 TAAATAAATAAT
9049205 TAAATAAATAAT
1 TAAATAAATAAT
9049217 TAAA-AAATAAT
1 TAAATAAATAAT
9049228 ATTTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:9049229 original size:28 final size:29
Alignment explanation
Indices: 9049163--9049229 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
9049153 TATTATTTTT
* *
9049163 TAAATATAA-ATATTTAAAAATATAATTA
1 TAAAAATAATATAATTAAAAATATAATTA
*
9049191 TATAAAT-ATATAATTAAATAA-ATAATTA
1 TAAAAATAATATAATTAAA-AATATAATTA
9049219 -AAAAATAATAT
1 TAAAAATAATAT
9049230 TTTATATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 6 0.19
28 24 0.75
29 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
TAAAAATAATATAATTAAAAATATAATTA
Found at i:9050692 original size:23 final size:23
Alignment explanation
Indices: 9050666--9050710 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9050656 AATATCATAA
*
9050666 TTTTTT-TTA-AAAGTATTATTAT
1 TTTTTTATTATAAAATATT-TTAT
9050688 TTTTTTATTATAAAATATTTTAT
1 TTTTTTATTATAAAATATTTTAT
9050711 CACCAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTTTATTATAAAATATTTTAT
Found at i:9051162 original size:21 final size:21
Alignment explanation
Indices: 9051136--9051176 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9051126 AAATTTTGAA
9051136 GATTC-AGATTTTAAGGGTTTG
1 GATTCAAG-TTTTAAGGGTTTG
*
9051157 GATTCAAGTTTTGAGGGTTT
1 GATTCAAGTTTTAAGGGTTT
9051177 TAGGGTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (21 bp):
GATTCAAGTTTTAAGGGTTTG
Found at i:9051285 original size:14 final size:14
Alignment explanation
Indices: 9051266--9051314 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
9051256 TTAAGCTTTG
*
9051266 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
*
9051280 GGGTTTGGATCTTAG
1 GGGTTTGGAT-TTAA
9051295 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
*
9051309 GAGTTT
1 GGGTTT
9051315 AAAGGTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:9051300 original size:15 final size:14
Alignment explanation
Indices: 9051265--9051307 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
9051255 TTTAAGCTTT
*
9051265 GGGGTTTTGATTTA
1 GGGGTTTGGATTTA
*
9051279 AGGGTTTGGATCTTA
1 GGGGTTTGGAT-TTA
9051294 GGGGTTTGGATTTA
1 GGGGTTTGGATTTA
9051308 AGAGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.44
Consensus pattern (14 bp):
GGGGTTTGGATTTA
Found at i:9051378 original size:15 final size:15
Alignment explanation
Indices: 9051273--9051390 Score: 50
Period size: 16 Copynumber: 7.7 Consensus size: 15
9051263 TTGGGGTTTT
9051273 GATTTAAGGG-TTTG
1 GATTTAAGGGATTTG
*
9051287 GATCTT-AGGGGTTTG
1 GAT-TTAAGGGATTTG
*
9051302 GATTTAAGAG-TTTAAAG
1 GATTTAAGGGATTT---G
9051319 G-TTT--GGGATTTCG
1 GATTTAAGGGATTT-G
* * *
9051332 GATTTTGAGGGGTTTTA
1 GA-TTT-AAGGGATTTG
*
9051349 GATTTTAGGGAATTTG
1 GATTTAAGGG-ATTTG
9051365 GATTTAAGGGATTTTG
1 GATTTAAGGGA-TTTG
*
9051381 GATTTTAGGG
1 GATTTAAGGG
9051391 GTTTTAGAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
13 2 0.03
14 14 0.18
15 22 0.28
16 31 0.39
17 4 0.05
18 6 0.08
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.42
Consensus pattern (15 bp):
GATTTAAGGGATTTG
Found at i:9051395 original size:16 final size:16
Alignment explanation
Indices: 9051323--9051395 Score: 83
Period size: 16 Copynumber: 4.5 Consensus size: 16
9051313 TTAAAGGTTT
*
9051323 GGGATTTCGGATTTTGA
1 GGGATTTTGGATTTT-A
* *
9051340 GGGGTTTTAGATTTTA
1 GGGATTTTGGATTTTA
* *
9051356 GGGAATTTGGATTTAA
1 GGGATTTTGGATTTTA
9051372 GGGATTTTGGATTTTA
1 GGGATTTTGGATTTTA
*
9051388 GGGGTTTT
1 GGGATTTT
9051396 AGAAACCTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
16 34 0.74
17 12 0.26
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (16 bp):
GGGATTTTGGATTTTA
Found at i:9052532 original size:21 final size:21
Alignment explanation
Indices: 9052491--9052534 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
9052481 GGGAAGACTG
*
9052491 TGTTTGTCTTTTTTTTATTTT
1 TGTTTGTCTTTTGTTTATTTT
* *
9052512 TGTTTTTCTGTTTGTTTTTTTT
1 TGTTTGTCT-TTTGTTTATTTT
9052534 T
1 T
9052535 TATGGTTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.02, C:0.05, G:0.11, T:0.82
Consensus pattern (21 bp):
TGTTTGTCTTTTGTTTATTTT
Found at i:9052861 original size:18 final size:19
Alignment explanation
Indices: 9052812--9052861 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
9052802 TGTCTTATTT
*
9052812 TTTTGTTATTATTATTATA
1 TTTTATTATTATTATTATA
*
9052831 TTTTTTTAAATTATTATTA-A
1 TTTTATT--ATTATTATTATA
9052851 TTTTATTATTA
1 TTTTATTATTA
9052862 AAATTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 7 0.26
21 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATTATTATTATTATA
Found at i:9053343 original size:110 final size:110
Alignment explanation
Indices: 9053043--9053675 Score: 503
Period size: 110 Copynumber: 5.8 Consensus size: 110
9053033 AAAACGATTA
* * * * * * * * *
9053043 GGATGACACCGCAAGTCGAAAAATAATA-AATCAATTGAGATAACA-TAGCAAATCAAATATATG
1 GGATAACACCGTAAGTCAAAAAATAA-AGAATCGATCGAGACAACACT-GCGAATCGAATTTATG
* * * * * *
9053106 CTCAGAGATCTTA-AGAATCATGCCCGAAGGTCTTACAGAATTGA-TCA
64 CCCGGAGGTCTTAGA-AATCATGCCCGGAGGTCTTACAGAATCGACT-G
* * *
9053153 GGATAATACCGTAAGTC-AAAAATAATGAATCGATC-AGGACAACACTGCGAATCAAATTTATGC
1 GGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGA-GACAACACTGCGAATCGAATTTATGC
* *
9053216 TCGGAGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCGACTG
65 CCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTG
* ** * *
9053262 GGACAACACCACAAGTCAAAAAATAAAGAATCGATCGAAACAATA-TCGCGAATCGAATTTATGC
1 GGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGAGACAACACT-GCGAATCGAATTTATGC
* * *
9053326 CCGGAGGTTTTAGAAATCATGCCTGGAGGTCTTATAGAATCGACTG
65 CCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTG
* ** * * * * ** *
9053372 AGATAACATTGTAAGTTAAAAAATAAAGAATCGATCGGGATAATACCACGAATCGAATTTATGTC
1 GGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGAGACAACACTGCGAATCGAATTTATGCC
** * * * * *
9053437 CAAAAGTCTTAGAAATCATGCCCGAAGGTCTTTCAAAATTGACTG
66 CGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTG
** * * * * *
9053482 AAACAACACCGTAAGTCAAAAAATCAAGAATCGATCGGGATAACACTGCGAATCGAATTTATGCT
1 GGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGAGACAACACTGCGAATCGAATTTATGCC
** ** *
9053547 TTGAGGTCTTAGAAATCATGCTTGGAGGTCTTACAGAATCGACTA
66 CGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTG
* * * * * * * *
9053592 GAATAACACCGCAAGTCGAAAGAT-AAGAAATTGATC-AGGATAACA-TCGCGAATCAAAATTAT
1 GGATAACACCGTAAGTCAAAAAATAAAG-AATCGATCGA-GACAACACT-GCGAATCGAATTTAT
* * *
9053654 ACCTGAAGGTCTTAGAAATCAT
63 GCCCGGAGGTCTTAGAAATCAT
9053676 CATCTTTGAA
Statistics
Matches: 426, Mismatches: 85, Indels: 24
0.80 0.16 0.04
Matches are distributed among these distances:
108 1 0.00
109 90 0.21
110 334 0.78
111 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (110 bp):
GGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGAGACAACACTGCGAATCGAATTTATGCC
CGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTG
Found at i:9053668 original size:220 final size:217
Alignment explanation
Indices: 9053121--9053675 Score: 573
Period size: 220 Copynumber: 2.5 Consensus size: 217
9053111 AGATCTTAAG
* * * * *
9053121 AATCATGCCCGAAGGTCTTACAGAATTGA-TCAGGATAATACCGTAAGTCAAAAATAATG-AATC
1 AATCATGCCTGGAGGTCTTACAGAATCGACT-AGAATAACACCGTAAGTCAAAAATAA-GAAATC
* * * * *
9053184 GATCAGGACAACACTGCGAATCAAATTTATGCTCGGAGGTCTTAAAAATCATGCCCGGAGGTCTT
64 GATCAGGATAACAC-GCGAATCAAATTTATCCT-GAAGGTCTTAGAAATCATGCCCGAAGGTCTT
* ** *
9053249 ACAGAATCGACTGGGACAACACCACAAGTCAAAAAATAAAGAATCGATCGAAACAATATCGCGAA
127 ACAAAATCGACTGAAACAACACCACAAGTCAAAAAATAAAGAATCGATCGAAACAACATCGCGAA
*
9053314 TCGAATTTATGCCCGGAGGTTTTAGA
192 TCGAATTTATGCCCGGAGGTCTTAGA
* ** *
9053340 AATCATGCCTGGAGGTCTTATAGAATCGACT-GAGATAACATTGTAAGTTAAAAAATAA-AGAAT
1 AATCATGCCTGGAGGTCTTACAGAATCGACTAGA-ATAACACCGTAAG-TCAAAAATAAGA-AAT
* * * * * *
9053403 CGATCGGGATAATACCACGAATCGAATTTATGTCC-AAAAGTCTTAGAAATCATGCCCGAAGGTC
63 CGATCAGGATAACA-CGCGAATCAAATTTA--TCCTGAAGGTCTTAGAAATCATGCCCGAAGGTC
* * ** * ** *
9053467 TTTCAAAATTGACTGAAACAACACCGTAAGTCAAAAAATCAAGAATCGATCGGGATAACA-CTGC
125 TTACAAAATCGACTGAAACAACACCACAAGTCAAAAAATAAAGAATCGATCGAAACAACATC-GC
***
9053531 GAATCGAATTTATGCTTTGAGGTCTTAGA
189 GAATCGAATTTATGCCCGGAGGTCTTAGA
* * * *
9053560 AATCATGCTTGGAGGTCTTACAGAATCGACTAGAATAACACCGCAAGTCGAAAGATAAGAAATTG
1 AATCATGCCTGGAGGTCTTACAGAATCGACTAGAATAACACCGTAAGTC-AAAAATAAGAAATCG
*
9053625 ATCAGGATAACATCGCGAATCAAAATTATACCTGAAGGTCTTAGAAATCAT
65 ATCAGGATAACA-CGCGAATCAAATTTAT-CCTGAAGGTCTTAGAAATCAT
9053676 CATCTTTGAA
Statistics
Matches: 270, Mismatches: 52, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
218 2 0.01
219 39 0.14
220 223 0.83
221 4 0.01
222 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (217 bp):
AATCATGCCTGGAGGTCTTACAGAATCGACTAGAATAACACCGTAAGTCAAAAATAAGAAATCGA
TCAGGATAACACGCGAATCAAATTTATCCTGAAGGTCTTAGAAATCATGCCCGAAGGTCTTACAA
AATCGACTGAAACAACACCACAAGTCAAAAAATAAAGAATCGATCGAAACAACATCGCGAATCGA
ATTTATGCCCGGAGGTCTTAGA
Found at i:9054382 original size:41 final size:41
Alignment explanation
Indices: 9054304--9054383 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
9054294 TCTTATACAA
* * *
9054304 ATACCAATACAAGTGATGCAAATACAAATGTCTTTCTTGTG
1 ATACAAATACAAGCGATGCAAATACAAATGACTTTCTTGTG
* *
9054345 ATACAAATGCAAGCGATGCAAATGCAAA-GACTCTTCTTG
1 ATACAAATACAAGCGATGCAAATACAAATGACT-TTCTTG
9054384 CCCCTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 3 0.09
41 30 0.91
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (41 bp):
ATACAAATACAAGCGATGCAAATACAAATGACTTTCTTGTG
Found at i:9055294 original size:9 final size:9
Alignment explanation
Indices: 9055288--9055313 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9055278 TATTTTTTAT
9055288 TTTTTTTTC
1 TTTTTTTTC
9055297 TTTTTTTTC
1 TTTTTTTTC
9055306 TTTTTTTT
1 TTTTTTTT
9055314 TTTGAATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:9062366 original size:30 final size:29
Alignment explanation
Indices: 9062281--9062366 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
9062271 GTTTTGAGGG
* *
9062281 TTTTAGGGTTTGGTTTTAAGGTATTAAAGA
1 TTTTAGGGTTTGATTTTAAAGT-TTAAAGA
* *
9062311 -TTTAGGATTTTGATTTTAGAGTTTAAAGA
1 TTTTAGG-GTTTGATTTTAAAGTTTAAAGA
*
9062340 TTTTAGGGTTTCGATTTTAAAATTTAA
1 TTTTAGGGTTT-GATTTTAAAGTTTAA
9062367 GGTTTGGGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 16 0.35
30 30 0.65
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.49
Consensus pattern (29 bp):
TTTTAGGGTTTGATTTTAAAGTTTAAAGA
Found at i:9062392 original size:14 final size:15
Alignment explanation
Indices: 9062373--9062436 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
9062363 TTAAGGTTTG
*
9062373 GGGTTTTGAT-TTAA
1 GGGTTTGGATCTTAA
*
9062387 GGGTTTGGATCTTAG
1 GGGTTTGGATCTTAA
*
9062402 GGGTTTGGATCTTAG
1 GGGTTTGGATCTTAA
9062417 GGGTTTGGAT-TTAA
1 GGGTTTGGATCTTAA
*
9062431 GAGTTT
1 GGGTTT
9062437 AAAGGTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.38
15 28 0.62
ACGTcount: A:0.17, C:0.03, G:0.36, T:0.44
Consensus pattern (15 bp):
GGGTTTGGATCTTAA
Found at i:9062407 original size:15 final size:15
Alignment explanation
Indices: 9062372--9062426 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
9062362 TTTAAGGTTT
*
9062372 GGGGTTTTGAT-TTA
1 GGGGTTTGGATCTTA
*
9062386 AGGGTTTGGATCTTA
1 GGGGTTTGGATCTTA
9062401 GGGGTTTGGATCTTA
1 GGGGTTTGGATCTTA
9062416 GGGGTTTGGAT
1 GGGGTTTGGAT
9062427 TTAAGAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
14 9 0.24
15 28 0.76
ACGTcount: A:0.15, C:0.04, G:0.40, T:0.42
Consensus pattern (15 bp):
GGGGTTTGGATCTTA
Found at i:9062470 original size:16 final size:16
Alignment explanation
Indices: 9062449--9062564 Score: 101
Period size: 16 Copynumber: 7.2 Consensus size: 16
9062439 AGGTTTAAGA
*
9062449 TTTTGGATTTTGGGGG
1 TTTTGGATTTTAGGGG
9062465 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGGGG
***
9062481 TTTCAAATTTTATGGGG
1 TTTTGGATTTTA-GGGG
* *
9062498 -TTTGGATTTAAGGGA
1 TTTTGGATTTTAGGGG
*
9062513 TTTTAGATTTTTAGGGG
1 TTTTGGA-TTTTAGGGG
** * *
9062530 TTTCAGATTTTA-AGA
1 TTTTGGATTTTAGGGG
9062545 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGGGG
9062561 TTTT
1 TTTT
9062565 AGAAACCTAG
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
15 14 0.18
16 46 0.60
17 17 0.22
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (16 bp):
TTTTGGATTTTAGGGG
Found at i:9062506 original size:48 final size:48
Alignment explanation
Indices: 9062442--9062567 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 48
9062432 AGTTTAAAGG
* * *
9062442 TTTAAGATTTTGGATTTTGGGGGTTTTGGA-TTTTAGGGGTTTCAAAT
1 TTTAAGAGTTTGGATTTTAGGGGTTTTAGATTTTTAGGGGTTTCAAAT
* * * * *
9062489 TTTATGGGGTTTGGATTTAAGGGATTTTAGATTTTTAGGGGTTTCAGAT
1 TTTA-AGAGTTTGGATTTTAGGGGTTTTAGATTTTTAGGGGTTTCAAAT
*
9062538 TTTAAGATTTTGGATTTTAGGGGTTTTAGA
1 TTTAAGAGTTTGGATTTTAGGGGTTTTAGA
9062568 AACCTAGGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.06
48 40 0.62
49 20 0.31
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (48 bp):
TTTAAGAGTTTGGATTTTAGGGGTTTTAGATTTTTAGGGGTTTCAAAT
Found at i:9062537 original size:17 final size:17
Alignment explanation
Indices: 9062472--9062540 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
9062462 GGGTTTTGGA
*
9062472 TTTTAGGGGTTTCA-AA
1 TTTTAGGGGTTTCAGAT
*
9062488 TTTTATGGGGTTT-GGA-
1 TTTTA-GGGGTTTCAGAT
* * *
9062504 TTTAAGGGATTTTAGAT
1 TTTTAGGGGTTTCAGAT
9062521 TTTTAGGGGTTTCAGAT
1 TTTTAGGGGTTTCAGAT
9062538 TTT
1 TTT
9062541 AAGATTTTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.14
16 11 0.26
17 25 0.60
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.49
Consensus pattern (17 bp):
TTTTAGGGGTTTCAGAT
Found at i:9063056 original size:12 final size:10
Alignment explanation
Indices: 9063027--9063052 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9063017 ATAATAATAT
9063027 AAAAAATTCA
1 AAAAAATTCA
9063037 AAAAAATTCA
1 AAAAAATTCA
9063047 AAAAAA
1 AAAAAA
9063053 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:9063701 original size:1 final size:1
Alignment explanation
Indices: 9063695--9063738 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
9063685 TGTGTTTATC
* * * *
9063695 TTTTTTTTTTATTTTTGTTTTTTTGTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9063739 GTGTGGTTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:9064055 original size:3 final size:3
Alignment explanation
Indices: 9064047--9064103 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
9064037 CTCTCTTGAT
* * **
9064047 TTA TTA TTA TTA -TA TTT TTT TTAA TTA TTA TTA TTA TTA TTA AAA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
9064092 TTA TTA TTA TTA
1 TTA TTA TTA TTA
9064104 AATTGAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9066175 original size:26 final size:23
Alignment explanation
Indices: 9066145--9066192 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
9066135 AAATTTAAGA
9066145 TTATCTAATTTATAATTAAAAAAAAG
1 TTATCTAATTT-TAA--AAAAAAAAG
*
9066171 TTATCTTATTTTAAAAAAAAAA
1 TTATCTAATTTTAAAAAAAAAA
9066193 CTATTCTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
TTATCTAATTTTAAAAAAAAAAG
Found at i:9066535 original size:117 final size:116
Alignment explanation
Indices: 9066411--9066644 Score: 405
Period size: 117 Copynumber: 2.0 Consensus size: 116
9066401 CAAACAAATT
* * *
9066411 TAAAATATTTTCATTTTAATTTTATTTTAAAACTCACTTACTAATCAATGCACACTATGTGTTTC
1 TAAAATATTTTCATTTTAATTTTATTTTAAAACTCACTTACTAATCAAGGCACACCATGTATTTC
*
9066476 TTTTTTTTTTTTAAGGTTTTTCTTTTCTTATTTTTACATAATTGATAAATCA
66 TTTTTGTTTTTT-AGGTTTTTCTTTTCTTATTTTTACATAATTGATAAATCA
9066528 TAAAATATTTTCATTTTAATTTTATTTTAAAACTCACTTACTAATCAAGGCACACCATGTATTTC
1 TAAAATATTTTCATTTTAATTTTATTTTAAAACTCACTTACTAATCAAGGCACACCATGTATTTC
* *
9066593 TTTTTGTTTTTTAGGTTTTTCTTTTTTTATTTTTTCATAATTGATAAATCA
66 TTTTTGTTTTTTAGGTTTTTCTTTTCTTATTTTTACATAATTGATAAATCA
9066644 T
1 T
9066645 TTTTAGATTT
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 38 0.34
117 73 0.66
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (116 bp):
TAAAATATTTTCATTTTAATTTTATTTTAAAACTCACTTACTAATCAAGGCACACCATGTATTTC
TTTTTGTTTTTTAGGTTTTTCTTTTCTTATTTTTACATAATTGATAAATCA
Found at i:9066950 original size:13 final size:13
Alignment explanation
Indices: 9066916--9066954 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
9066906 ATTTAAAAAA
9066916 ATTTTTCAATCCTTT
1 ATTTTTCAAT--TTT
*
9066931 CTTTTTCAATTTT
1 ATTTTTCAATTTT
9066944 ATTTTTCAATT
1 ATTTTTCAATT
9066955 CATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 13 0.59
15 9 0.41
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTCAATTTT
Found at i:9067056 original size:16 final size:16
Alignment explanation
Indices: 9067025--9067054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9067015 TCTTCCTTCT
9067025 TTTTTTTTGCTTTTTA
1 TTTTTTTTGCTTTTTA
9067041 TTTTTTTT-CTTTTT
1 TTTTTTTTGCTTTTT
9067055 TAAGGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.03, C:0.07, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTTTGCTTTTTA
Found at i:9067798 original size:35 final size:35
Alignment explanation
Indices: 9067754--9067824 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9067744 CCTACTATCA
9067754 AACTACAAATCAACAACTTAGAATAACTTTAATTT
1 AACTACAAATCAACAACTTAGAATAACTTTAATTT
9067789 AACTACAAATCAACAACTTAGAATAACTTTAATTT
1 AACTACAAATCAACAACTTAGAATAACTTTAATTT
9067824 A
1 A
9067825 TAAGATCCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (35 bp):
AACTACAAATCAACAACTTAGAATAACTTTAATTT
Found at i:9069977 original size:8 final size:8
Alignment explanation
Indices: 9069964--9070003 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9069954 TTCTCTCATA
9069964 TATATATT
1 TATATATT
9069972 TATATA--
1 TATATATT
9069978 TATATATT
1 TATATATT
9069986 TATAT-TT
1 TATATATT
*
9069993 TATCTATT
1 TATATATT
9070001 TAT
1 TAT
9070004 TTTTATCTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
6 6 0.21
7 6 0.21
8 16 0.57
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:9069980 original size:14 final size:14
Alignment explanation
Indices: 9069961--9069990 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9069951 TGTTTCTCTC
9069961 ATATATATATTTAT
1 ATATATATATTTAT
9069975 ATATATATATTTAT
1 ATATATATATTTAT
9069989 AT
1 AT
9069991 TTTATCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATATATATTTAT
Found at i:9070007 original size:14 final size:14
Alignment explanation
Indices: 9069968--9070011 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9069958 CTCATATATA
* * *
9069968 TATTTATATATATA
1 TATTTATTTTTATC
9069982 TATTTATATTTTATC
1 TATTTAT-TTTTATC
9069997 TATTTATTTTTATC
1 TATTTATTTTTATC
9070011 T
1 T
9070012 CGAGTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTATTTTTATC
Found at i:9070197 original size:26 final size:26
Alignment explanation
Indices: 9070168--9070235 Score: 73
Period size: 33 Copynumber: 2.3 Consensus size: 26
9070158 TAGTTAGTGT
9070168 ATAAAAAAATTAATAATTATCCTATA
1 ATAAAAAAATTAATAATTATCCTATA
9070194 ATAAAAAAAGCAAAGATTAATAATTATCCTATA
1 AT----AAA--AAA-ATTAATAATTATCCTATA
9070227 ATAAAAAAA
1 ATAAAAAAA
9070236 ACCAAAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
29 3 0.09
30 3 0.09
32 3 0.09
33 20 0.57
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (26 bp):
ATAAAAAAATTAATAATTATCCTATA
Found at i:9076490 original size:23 final size:23
Alignment explanation
Indices: 9076460--9076504 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9076450 CCGAGACGGT
*
9076460 TTTTGGTTTTTTTTTTTTTTATA
1 TTTTGGTTTTTTTTTTATTTATA
9076483 TTTTGGTTTTTTTTTTATTTAT
1 TTTTGGTTTTTTTTTTATTTAT
9076505 TTGTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (23 bp):
TTTTGGTTTTTTTTTTATTTATA
Found at i:9077925 original size:21 final size:21
Alignment explanation
Indices: 9077872--9077928 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
9077862 AAAACAATAT
9077872 TAAAAATAAAATTAATTATTA
1 TAAAAATAAAATTAATTATTA
* ** ** *
9077893 CAGTAACGAAATTGATTATTA
1 TAAAAATAAAATTAATTATTA
9077914 TAAAAATAAAATTAA
1 TAAAAATAAAATTAA
9077929 AATGAATGAT
Statistics
Matches: 24, Mismatches: 12, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAAAATAAAATTAATTATTA
Found at i:9078030 original size:27 final size:26
Alignment explanation
Indices: 9077995--9078058 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
9077985 ACTAAAATTG
* *
9077995 TATTAATAAATTTTATAATATATTTAA
1 TATTAATAAATTTAATAA-ATAATTAA
*
9078022 TATTTATAAATTTAATAAATAATTAAA
1 TATTAATAAATTTAATAAATAATT-AA
*
9078049 AATTAATAAA
1 TATTAATAAA
9078059 ATTATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TATTAATAAATTTAATAAATAATTAA
Found at i:9085131 original size:13 final size:15
Alignment explanation
Indices: 9085102--9085137 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9085092 TTGATTGGGT
9085102 TGTTTTAATTATATA
1 TGTTTTAATTATATA
* *
9085117 TGTTTTATTTATATG
1 TGTTTTAATTATATA
9085132 TGTTTT
1 TGTTTT
9085138 CTTTGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (15 bp):
TGTTTTAATTATATA
Found at i:9085767 original size:33 final size:33
Alignment explanation
Indices: 9085703--9085769 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
9085693 ATTTTTTGGA
****
9085703 TTTTTTTGAATTTTTTAAGGTGGTTGAAATTTT
1 TTTTTTTGAATTTTTTAAACAAGTTGAAATTTT
9085736 TTTTTTTGAATTTTTTACAACAAGTTG-AATTTT
1 TTTTTTTGAATTTTTTA-AACAAGTTGAAATTTT
9085769 T
1 T
9085770 CAGTGTGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.24, C:0.03, G:0.13, T:0.60
Consensus pattern (33 bp):
TTTTTTTGAATTTTTTAAACAAGTTGAAATTTT
Found at i:9087148 original size:131 final size:131
Alignment explanation
Indices: 9086914--9087174 Score: 468
Period size: 131 Copynumber: 2.0 Consensus size: 131
9086904 TTTGAGCACA
* * *
9086914 AGAGCATATTCTTTATTTTGTTAGGTGGTGAAAATAATACTGATGATAATAACTCAAATCACATA
1 AGAGCATATTCTTTATTTTGATAAGTGGTGAAAATAATACTGATAATAATAACTCAAATCACATA
*
9086979 AAAGATTTGTTTAAGATTGATTAGATTTTATTTTATGGATAAAAAGAATTGTAAGAGAAAATTCT
66 AAAGATTTGTTTAAGATTGATTAGATTTTATTTGATGGATAAAAAGAATTGTAAGAGAAAATTCT
9087044 T
131 T
* *
9087045 AGAGCATTTTCTTTATTTTGATAAGTGGTGAAAATAATACTGATAATAATGACTCAAATCACATA
1 AGAGCATATTCTTTATTTTGATAAGTGGTGAAAATAATACTGATAATAATAACTCAAATCACATA
9087110 AAAGATTTGTTTAAGATTGATTAGATTTTATTTGATGGATAAAAAGAATTGTAAGAGAAAATTCT
66 AAAGATTTGTTTAAGATTGATTAGATTTTATTTGATGGATAAAAAGAATTGTAAGAGAAAATTCT
9087175 AAAAGGAAAG
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 124 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (131 bp):
AGAGCATATTCTTTATTTTGATAAGTGGTGAAAATAATACTGATAATAATAACTCAAATCACATA
AAAGATTTGTTTAAGATTGATTAGATTTTATTTGATGGATAAAAAGAATTGTAAGAGAAAATTCT
T
Found at i:9096824 original size:56 final size:56
Alignment explanation
Indices: 9096738--9096844 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
9096728 TTGGGAAGAC
*
9096738 TGGTAGGTAAGAGCAACCCTTTCCTTGCCAGTTCAGCCAATGCTAAGCAACGAGAG
1 TGGTAGGTAAGAGCAACCCTCTCCTTGCCAGTTCAGCCAATGCTAAGCAACGAGAG
*
9096794 TGGTAGGTAAGAGCAATCCTCTCCTTGCCAGTTCAGCCAATGCTAAGCAAC
1 TGGTAGGTAAGAGCAACCCTCTCCTTGCCAGTTCAGCCAATGCTAAGCAAC
9096845 CCCCATGCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (56 bp):
TGGTAGGTAAGAGCAACCCTCTCCTTGCCAGTTCAGCCAATGCTAAGCAACGAGAG
Found at i:9105639 original size:20 final size:21
Alignment explanation
Indices: 9105602--9105641 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9105592 TAATATTATG
*
9105602 TTTTTCAAAAACATTAAATAT
1 TTTTTCAAAAACAATAAATAT
*
9105623 TTTTTTAAAAA-AATAAATA
1 TTTTTCAAAAACAATAAATA
9105642 AATAAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTTTCAAAAACAATAAATAT
Found at i:9107006 original size:36 final size:31
Alignment explanation
Indices: 9106945--9107011 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 31
9106935 AAAATTAAAT
*
9106945 AAATAAATTTAATATTTAATTAAATTTTATCA
1 AAATAAATCTAATATTTAATTAAA-TTTATCA
9106977 AAATAAATCTACATATTTAAATATAAAATTTATCA
1 AAATAAATCTA-ATATTT-AAT-T-AAATTTATCA
9107012 CATCAATCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 10 0.33
33 6 0.20
34 3 0.10
35 8 0.27
36 3 0.10
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (31 bp):
AAATAAATCTAATATTTAATTAAATTTATCA
Found at i:9110716 original size:17 final size:16
Alignment explanation
Indices: 9110686--9110719 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9110676 TTCTCATCTT
9110686 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
9110702 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
9110719 T
1 T
9110720 CATTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.62
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:9124007 original size:244 final size:238
Alignment explanation
Indices: 9123492--9124159 Score: 672
Period size: 244 Copynumber: 2.7 Consensus size: 238
9123482 AACATGTTTT
* *
9123492 TTTTTTTTTTCAAAAACTATGTCTTAAAGGTAAAAACATATTTTTGTTAACCTTTTCAACCACCT
1 TTTTTTATTTCAAAAACTATGTCTTAAA-GTAAAAACATTTTTTTGTTAACCTTTTCAACCA--T
* * * *
9123557 TTTTT-TGTC-ACACACGTAGTTAAAATATTTTATTAAA-CTCAACTTTTTT-ATTATCAACCAC
63 TTTTTATG-CAATAAACGTAGTTAAAACATTTTATTAAATCT-AACTTTTTTCATTATCAACCAT
* * * * *
9123618 ATTTTCAAAGAAAAAAAGTGATGTTTCAT-GGTTTAACAAATTATTGTAATAAAAAAGTTGAGAA
126 GTTTTCAAAGAAAAAATGTGATATTTCATAAGTTTAACAAATTATTTTAATAAAAAAGTTGAGAA
* ** * * * * *
9123682 ATCATGTGATTTGAAAATAAATACCATAGTTTTTATATCAAGAGCGTA
191 ACCACATGACTCGAAAACAAACACCACAGTTTTTATATCAAGAGCGTA
* ** * * *
9123730 TTATTTAATTTCAAAAACTACATCTTAAAAGTAAAAAGCGTGTTTTTTGCTAACCTTTTCAACTA
1 TT-TTTTATTTCAAAAACTATGTCTT-AAAGTAAAAA-CAT-TTTTTTGTTAACCTTTTCAACCA
* *
9123795 TTTTTTTATGCAATAAACATAGTTAAAACATTTTATTAAATCTAACTTTTTTCCATCATCAACCA
62 -TTTTTTATGCAATAAACGTAGTTAAAACATTTTATTAAATCTAACTTTTTT-CATTATCAACCA
* *
9123860 TGTTTTTAAAGAAAAAATGTAATATTTCATAAGTTTAACAAATTATTTTAATAAAAAAGTTGA-A
125 TGTTTTCAAAGAAAAAATGTGATATTTCATAAGTTTAACAAATTATTTTAATAAAAAAGTTGAGA
* * *
9123924 GAACCACATGACTCGAAAACAAACACTACA-TTTTTCATGTCTGAA-A-TGTA
190 -AACCACATGACTCGAAAACAAACACCACAGTTTTT-ATATC--AAGAGCGTA
* * *
9123974 GTTTTTTATTTCAAAAACAATGTCTTGAAAGTAAAAAAAAATATTTTTTGTTAAACTTTTCAACC
1 -TTTTTTATTTCAAAAACTATGTCTT-AAAGT--AAAAACAT-TTTTTTGTTAACCTTTTCAACC
* * * *
9124039 ATTTTTTATCCCAAT-AACGTAATTAAAACATTTTGTTAAATCTAAATTTATTTTCATTATCAAC
61 ATTTTTTAT-GCAATAAACGTAGTTAAAACATTTTATTAAATCT-AACTT-TTTTCATTATCAAC
* *
9124103 CATGTTTACAAAGAAAAGAAATGTGATATTTCATAAGTTTAACAAATCATTTTAATA
123 CATGTTTTCAAAG-AAA-AAATGTGATATTTCATAAGTTTAACAAATTATTTTAATA
9124160 GACTAAGAGC
Statistics
Matches: 354, Mismatches: 54, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
238 2 0.01
239 26 0.07
240 12 0.03
241 55 0.16
242 2 0.01
243 40 0.11
244 114 0.32
245 52 0.15
246 14 0.04
247 37 0.10
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (238 bp):
TTTTTTATTTCAAAAACTATGTCTTAAAGTAAAAACATTTTTTTGTTAACCTTTTCAACCATTTT
TTATGCAATAAACGTAGTTAAAACATTTTATTAAATCTAACTTTTTTCATTATCAACCATGTTTT
CAAAGAAAAAATGTGATATTTCATAAGTTTAACAAATTATTTTAATAAAAAAGTTGAGAAACCAC
ATGACTCGAAAACAAACACCACAGTTTTTATATCAAGAGCGTA
Found at i:9125153 original size:165 final size:162
Alignment explanation
Indices: 9124859--9125155 Score: 362
Period size: 165 Copynumber: 1.8 Consensus size: 162
9124849 TATCCAAAAA
* *
9124859 AAAATATAATCTATCTTAAAACTATAAAATTTTAAAAAAATTTTATAATATATTTTTAACATAGA
1 AAAATATAATCTATCTTAAAACTATAAAATTTTAAAAAAATTTTATAATATATTTTCAACATAAA
* * * ** * * * * * *
9124924 TTATGTTTTTATCTTAAAAATATAGTCTATATTAATTCTACTGAAGTCATCTTATTAACATTTTT
66 ATACGTTTTAAAATTAAAAACATAGTCTACATTAATTATACTAAAATCATCTTAATAACATTTTT
9124989 TTGTCCTTGTTTCATAACATATTTTCAATTTT
131 TTGTCCTTGTTTCATAACATATTTTCAATTTT
** * *
9125021 AAAATATGGTCTATCTTAAAATTATAAAATTTTGAAAAATAATTTTTATATTATATTTTCAACAT
1 AAAATATAATCTATCTTAAAACTATAAAATTTT-AAAAA-AA-TTTTATAATATATTTTCAACAT
* * * *
9125086 AAAATACGTTTTAAAATTAAAAACATAGTCTACATTGATTATGCTAAAATCCT-TTAGATAGCAT
63 AAAATACGTTTTAAAATTAAAAACATAGTCTACATTAATTATACTAAAATCATCTTA-ATAACAT
9125150 TTTTTT
127 TTTTTT
9125156 AGTTTTTGTC
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
162 30 0.27
163 5 0.05
164 5 0.05
165 70 0.64
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.45
Consensus pattern (162 bp):
AAAATATAATCTATCTTAAAACTATAAAATTTTAAAAAAATTTTATAATATATTTTCAACATAAA
ATACGTTTTAAAATTAAAAACATAGTCTACATTAATTATACTAAAATCATCTTAATAACATTTTT
TTGTCCTTGTTTCATAACATATTTTCAATTTT
Found at i:9129033 original size:15 final size:15
Alignment explanation
Indices: 9129010--9129080 Score: 79
Period size: 15 Copynumber: 4.6 Consensus size: 15
9129000 ACTTATAAAT
*
9129010 AATATTATATTAATA
1 AATAATATATTAATA
* *
9129025 AATAATATACTATTTA
1 AATAATATATTA-ATA
* *
9129041 ATACAATATTTTAATA
1 A-ATAATATATTAATA
9129057 AATAATATATTAATA
1 AATAATATATTAATA
9129072 AATAATATA
1 AATAATATA
9129081 AAGAATAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
15 31 0.69
16 6 0.13
17 8 0.18
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:9129090 original size:47 final size:47
Alignment explanation
Indices: 9129010--9129100 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
9129000 ACTTATAAAT
* * **
9129010 AATATTATATTAATAAATAATATACTATTTAATACAATA-TTTTAATA
1 AATAATATATTAATAAATAATATACAAAATAATA-AATAGTTTTAATA
9129057 AATAATATATTAATAAATAATATA-AAGAATAATAAATAGTTTTA
1 AATAATATATTAATAAATAATATACAA-AATAATAAATAGTTTTA
9129101 TTTTACTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 5 0.13
47 33 0.87
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (47 bp):
AATAATATATTAATAAATAATATACAAAATAATAAATAGTTTTAATA
Found at i:9129186 original size:15 final size:15
Alignment explanation
Indices: 9129166--9129206 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
9129156 TATAATTATT
*
9129166 TTTTAATATTAATAA
1 TTTTAATATAAATAA
9129181 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
9129197 TTTCAATATA
1 TTTTAATATA
9129207 CTTTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:9129204 original size:25 final size:26
Alignment explanation
Indices: 9129176--9129238 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
9129166 TTTTAATATT
9129176 AATAATTTTAATAATAAAT-AATTTC
1 AATAATTTTAATAATAAATCAATTTC
* * *
9129201 AATATACTTTAAT-ATAAATCATTTTT
1 AATA-ATTTTAATAATAAATCAATTTC
9129227 AAT-ATTTTAATA
1 AATAATTTTAATA
9129239 GTTATGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 7 0.23
25 10 0.32
26 14 0.45
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAATTTTAATAATAAATCAATTTC
Found at i:9130476 original size:15 final size:17
Alignment explanation
Indices: 9130435--9130564 Score: 67
Period size: 17 Copynumber: 7.4 Consensus size: 17
9130425 TATTTGTCTA
*
9130435 TTTATTAATATATATTT
1 TTTATTATTATATATTT
9130452 TTTATCTATTA-ATA-TT
1 TTTAT-TATTATATATTT
*
9130468 TTTATTATTTATCTACTTTT
1 TTTATTA-TTATATA--TTT
*
9130488 ATTTATTATTAT-TATTA
1 -TTTATTATTATATATTT
9130505 TTTATCTAATTAT-T-TTT
1 TTTAT-T-ATTATATATTT
9130522 TGTTATCTATTAATATATTT
1 T-TTAT-TATT-ATATATTT
*
9130542 ATCTT-TT-TTATTTATTT
1 -T-TTATTATTATATATTT
9130559 TTTATT
1 TTTATT
9130565 TTTTTATTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 31
0.71 0.05 0.24
Matches are distributed among these distances:
15 4 0.04
16 18 0.20
17 26 0.28
18 20 0.22
19 4 0.04
20 10 0.11
21 10 0.11
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.68
Consensus pattern (17 bp):
TTTATTATTATATATTT
Found at i:9130542 original size:34 final size:30
Alignment explanation
Indices: 9130464--9130564 Score: 100
Period size: 30 Copynumber: 3.3 Consensus size: 30
9130454 TATCTATTAA
* *
9130464 TATTTTTATTATTTATCTACTTTTATTTAT
1 TATTATTATTATTTATCTAATTTTATTTAT
* *
9130494 TATTATTATTATTTATCTAATTATTTTTTGT
1 TATTATTATTATTTATCTAATT-TTATTTAT
*
9130525 TATCTATTAATATATTTATCT-TTTTTATTTAT
1 TAT-TATT-AT-TATTTATCTAATTTTATTTAT
9130557 T-TT-TTATT
1 TATTATTATT
9130565 TTTTTATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.02
28 2 0.03
29 2 0.03
30 21 0.35
31 10 0.17
32 11 0.18
33 4 0.07
34 9 0.15
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (30 bp):
TATTATTATTATTTATCTAATTTTATTTAT
Found at i:9130908 original size:18 final size:17
Alignment explanation
Indices: 9130885--9130918 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9130875 AATTCGGTGA
9130885 AATTTTCGACGAAGTTTG
1 AATTTTCGACG-AGTTTG
9130903 AATTTTCGACGAGTTT
1 AATTTTCGACGAGTTT
9130919 TCTGGCCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (17 bp):
AATTTTCGACGAGTTTG
Found at i:9131321 original size:13 final size:13
Alignment explanation
Indices: 9131303--9131327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9131293 ATTTTATCAA
9131303 AATAAAATAAAAT
1 AATAAAATAAAAT
9131316 AATAAAATAAAA
1 AATAAAATAAAA
9131328 ATTTTGGGAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:9131409 original size:25 final size:25
Alignment explanation
Indices: 9131364--9131416 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
9131354 AATGATAGAA
*
9131364 TTTATAAAAATTTCAGATGAAAATT
1 TTTATAAAAATTTCAGATGAAAAAT
* *
9131389 TTTAT-AAAATTCTTAGTTGAAAAAT
1 TTTATAAAAATT-TCAGATGAAAAAT
9131414 TTT
1 TTT
9131417 GTCTAGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTATAAAAATTTCAGATGAAAAAT
Found at i:9135217 original size:3 final size:3
Alignment explanation
Indices: 9135211--9135240 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9135201 ATTAAAGAGA
9135211 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9135241 TTGTGAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9135987 original size:16 final size:16
Alignment explanation
Indices: 9135938--9135993 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
9135928 TAAATAATTT
9135938 TAAATAAATA-TTAAA
1 TAAATAAATATTTAAA
9135953 TAAA-AAATTTACATGTTAAA
1 TAAATAAA--T--AT-TTAAA
9135973 TAAATAAATATTTAAA
1 TAAATAAATATTTAAA
9135989 TAAAT
1 TAAAT
9135994 TACTTGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
14 3 0.09
15 4 0.12
16 11 0.32
17 2 0.06
18 1 0.03
19 1 0.03
20 9 0.26
21 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATAAATATTTAAA
Found at i:9172963 original size:12 final size:13
Alignment explanation
Indices: 9172948--9173007 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 13
9172938 AATATTATTT
9172948 TAAATA-TAAATA
1 TAAATATTAAATA
9172960 TAAA-ATTAAATA
1 TAAATATTAAATA
* *
9172972 TATATA-AAAATA
1 TAAATATTAAATA
*
9172984 TATATAATTAAATA
1 TAAAT-ATTAAATA
9172998 TAAA-ATTAAA
1 TAAATATTAAA
9173008 AAAATAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.03
12 29 0.73
13 2 0.05
14 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:9172988 original size:16 final size:16
Alignment explanation
Indices: 9172951--9172989 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9172941 ATTATTTTAA
* *
9172951 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
9172967 AAATATATATAAAAAT
1 ATATATATATAAAAAT
9172983 ATATATA
1 ATATATA
9172990 ATTAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:9173000 original size:22 final size:22
Alignment explanation
Indices: 9172947--9173008 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
9172937 AAATATTATT
*
9172947 TTAAATATAAATATAAAATTAA
1 TTAAATATAAAAATAAAATTAA
* * *
9172969 ATATATATAAAAAT-ATATATAA
1 TTAAATATAAAAATAAAAT-TAA
*
9172991 TTAAATATAAAATTAAAA
1 TTAAATATAAAAATAAAA
9173009 AAATAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 3 0.10
22 25 0.83
23 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAATATAAAAATAAAATTAA
Found at i:9173893 original size:26 final size:24
Alignment explanation
Indices: 9173835--9173895 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 24
9173825 ATTAATTAAA
*
9173835 ATTAAA-ATATTTTTATAAAAAAT
1 ATTAAATATATATTTATAAAAAAT
9173858 ATATATAATATATATTTATAAAAAATT
1 AT-TA-AATATATATTTATAAAAAA-T
9173885 ACTTAAATATA
1 A-TTAAATATA
9173896 CAAGATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 2 0.06
26 21 0.66
27 4 0.12
28 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTAAATATATATTTATAAAAAAT
Found at i:9174216 original size:7 final size:7
Alignment explanation
Indices: 9174206--9174231 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9174196 AAAAATAATG
9174206 AAATTTA
1 AAATTTA
9174213 AAATTTA
1 AAATTTA
9174220 AAATTTA
1 AAATTTA
9174227 AAATT
1 AAATT
9174232 ATTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:9174723 original size:24 final size:25
Alignment explanation
Indices: 9174681--9174770 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 25
9174671 AATTTTTTAC
* *
9174681 AAAATATATATTAATATTTTTTTTAAT
1 AAAAAATATATT-A-ATTTTATTTAAT
*
9174708 -AAAAATATATTAATTTTAATTAATCT
1 AAAAAATATATTAATTTTATTTAA--T
* *
9174734 AAAATAATA-ATTTATATTATTTAAT
1 AAAA-AATATATTAATTTTATTTAAT
9174759 AAAAAATATATT
1 AAAAAATATATT
9174771 TATTAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
24 13 0.25
25 9 0.17
26 11 0.21
27 15 0.29
28 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAAAATATATTAATTTTATTTAAT
Found at i:9174764 original size:27 final size:25
Alignment explanation
Indices: 9174702--9174787 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 25
9174692 TAATATTTTT
*
9174702 TTTAATAAAAATATATTAATTT-TAA
1 TTTAATAAAAA-ATAATAATTTATAA
**
9174727 -TTAATCTAAAATAATAATTTATATTA
1 TTTAATAAAAAATAATAATTTATA--A
9174753 TTTAATAAAAAAT-AT-ATTTATTAA
1 TTTAATAAAAAATAATAATTTA-TAA
9174777 TTATATATAAA
1 TT-TA-ATAAA
9174788 TATATATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
23 9 0.18
24 13 0.27
25 7 0.14
26 10 0.20
27 10 0.20
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTAATAAAAAATAATAATTTATAA
Found at i:9174774 original size:23 final size:25
Alignment explanation
Indices: 9174748--9174794 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9174738 TAATAATTTA
*
9174748 TATTATTTA-ATA-AAAAATATATT
1 TATTAATTATATATAAAAATATATT
*
9174771 TATTAATTATATATAAATATATAT
1 TATTAATTATATATAAAAATATAT
9174795 AAAATATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTAATTATATATAAAAATATATT
Found at i:9178273 original size:11 final size:11
Alignment explanation
Indices: 9178254--9178288 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9178244 CATAAAATAT
9178254 TAATATTTTAA
1 TAATATTTTAA
*
9178265 TAATTTTTTAA
1 TAATATTTTAA
*
9178276 AAATATTTTAA
1 TAATATTTTAA
9178287 TA
1 TA
9178289 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:9178593 original size:24 final size:24
Alignment explanation
Indices: 9178561--9178609 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9178551 CATATATATA
9178561 TATATATAATATCAGATTGACTCC
1 TATATATAATATCAGATTGACTCC
9178585 TATATATAATATCAGATTGACTCC
1 TATATATAATATCAGATTGACTCC
9178609 T
1 T
9178610 TGTGTCACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (24 bp):
TATATATAATATCAGATTGACTCC
Found at i:9180512 original size:24 final size:24
Alignment explanation
Indices: 9180467--9180512 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9180457 TACTTTTAAA
* *
9180467 TAAAATTATTTAATTTTTTATTTT
1 TAAAATTATTAAATTTTATATTTT
9180491 TAAAATT-TTAAATATTTATATT
1 TAAAATTATTAAAT-TTTATATT
9180513 CGATAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TAAAATTATTAAATTTTATATTTT
Found at i:9180593 original size:18 final size:16
Alignment explanation
Indices: 9180549--9180602 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
9180539 TATGTATTAG
*
9180549 TAAATTATATAATTTA
1 TAAATTATTTAATTTA
9180565 TCAAATT-TTTATATTTGA
1 T-AAATTATTTA-ATTT-A
*
9180583 TAAATTATTTAACTTA
1 TAAATTATTTAATTTA
9180599 TAAA
1 TAAA
9180603 CAAATCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 9 0.28
17 17 0.53
18 6 0.19
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (16 bp):
TAAATTATTTAATTTA
Found at i:9184243 original size:24 final size:25
Alignment explanation
Indices: 9184203--9184265 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 25
9184193 AATGCTATAA
* *
9184203 ATGTTTTGTGGATGGATATTTTATG
1 ATGTTTTATAGATGGATATTTTATG
9184228 ATGTTTTAT-GATGGATATTTTATG
1 ATGTTTTATAGATGGATATTTTATG
9184252 ATGTTTTATAGATG
1 ATGTTTTATAGATG
9184266 CTATGTATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 24 0.67
25 12 0.33
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (25 bp):
ATGTTTTATAGATGGATATTTTATG
Found at i:9184248 original size:14 final size:14
Alignment explanation
Indices: 9184213--9184254 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
9184203 ATGTTTTGTG
9184213 GATGGATATTTTAT
1 GATGGATATTTTAT
9184227 GAT-G---TTTTAT
1 GATGGATATTTTAT
9184237 GATGGATATTTTAT
1 GATGGATATTTTAT
9184251 GATG
1 GATG
9184255 TTTTATAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
GATGGATATTTTAT
Found at i:9185711 original size:52 final size:52
Alignment explanation
Indices: 9185624--9185780 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 52
9185614 TGGACAAGAA
* * *
9185624 GACTTGCAAAAGAAGAATT-T-CAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAG-GAAAG-AGATTCTTAATAGGCAAGTTT
*
9185676 GACTTGCAAGAGAAAAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
* * * * * * *
9185728 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAGTGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
9185780 G
1 G
9185781 TATGGTTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 82 0.90
53 6 0.07
54 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:9186303 original size:31 final size:31
Alignment explanation
Indices: 9186265--9186349 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
9186255 AAACTTTTAG
*
9186265 CCCAACAAATGGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTGTGATGTTC
*
9186296 CCCAACAAATGGTATCAGAGCTGTGATGTTT
1 CCCAACAAATGGTATCAGAGCTGTGATGTTC
*
9186327 CCCAACAAGTGGTATCAGAGCTG
1 CCCAACAAATGGTATCAGAGCTG
9186350 AAGGTTCGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGTGATGTTC
Found at i:9186381 original size:25 final size:24
Alignment explanation
Indices: 9186343--9186394 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
9186333 AAGTGGTATC
*
9186343 AGAGCTGAAGGTTCGAA-ATGTGAGA
1 AGAGCTGAAAGTTC-AAGATGTGA-A
*
9186368 AGAGTTGAAAGTTCAAGATGTGAA
1 AGAGCTGAAAGTTCAAGATGTGAA
9186392 AGA
1 AGA
9186395 AATGTAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.40, C:0.06, G:0.33, T:0.21
Consensus pattern (24 bp):
AGAGCTGAAAGTTCAAGATGTGAA
Found at i:9186412 original size:35 final size:36
Alignment explanation
Indices: 9186357--9186424 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
9186347 CTGAAGGTTC
* *
9186357 GAAATGTGAGAAGAGTTGAAAGTTCAAGATGTGAAA
1 GAAATGTGAAAAGAGCTGAAAGTTCAAGATGTGAAA
*
9186393 GAAATGT-AAAAGAGCTGAAAGTTCGAGATGTG
1 GAAATGTGAAAAGAGCTGAAAGTTCAAGATGTG
9186425 GGAAGAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.43, C:0.04, G:0.31, T:0.22
Consensus pattern (36 bp):
GAAATGTGAAAAGAGCTGAAAGTTCAAGATGTGAAA
Found at i:9186430 original size:25 final size:25
Alignment explanation
Indices: 9186402--9186454 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
9186392 AGAAATGTAA
9186402 AAGAGCTGAAA-G-TTCGAGATGTGGG
1 AAGAGCT-AAAGGTTTC-AGATGTGGG
9186427 AAGAGCTAAAGGTTTCAGATGTGGG
1 AAGAGCTAAAGGTTTCAGATGTGGG
9186452 AAG
1 AAG
9186455 TGCATGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 3 0.12
25 20 0.77
26 3 0.12
ACGTcount: A:0.34, C:0.08, G:0.38, T:0.21
Consensus pattern (25 bp):
AAGAGCTAAAGGTTTCAGATGTGGG
Found at i:9186837 original size:52 final size:52
Alignment explanation
Indices: 9186750--9186893 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 52
9186740 TGGACAAGAA
* *
9186750 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-AGATTCTTAATAGGTAAGTTT
*
9186802 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
* * * *
9186854 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTA
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTA
9186894 GTGGGCAAGT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 78 0.94
53 5 0.06
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:9187432 original size:31 final size:31
Alignment explanation
Indices: 9187391--9187460 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
9187381 AGGTTTTTAG
*
9187391 CCCAACAAATGGTATCAGAACTGTGGTGTTC
1 CCCAACAAATGGTATCAGAACTGTGATGTTC
* *
9187422 CCTAACAAATGGTATCAGAGCTGTGATGTTC
1 CCCAACAAATGGTATCAGAACTGTGATGTTC
9187453 CCCAACAA
1 CCCAACAA
9187461 TAATAACCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAACTGTGATGTTC
Found at i:9193127 original size:46 final size:44
Alignment explanation
Indices: 9193041--9193129 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 44
9193031 AAAAATTAAA
*
9193041 ATTTTTAAATAAAAATTAATTCTTTTAATATTTTAGAATTTTCAT
1 ATTTTTAAATAAAAATTAATTCTTTAAATATTTTA-AATTTTCAT
*
9193086 ATTTTTAAAATATAAAATTAATAT-TTTAAAATATTTTAATTTTT
1 ATTTTT-AAATA-AAAATTAAT-TCTTT-AAATATTTTAAATTTT
9193130 TAAAATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
45 6 0.16
46 5 0.13
47 17 0.45
48 10 0.26
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (44 bp):
ATTTTTAAATAAAAATTAATTCTTTAAATATTTTAAATTTTCAT
Found at i:9193142 original size:21 final size:20
Alignment explanation
Indices: 9193087--9193179 Score: 66
Period size: 24 Copynumber: 4.5 Consensus size: 20
9193077 AATTTTCATA
**
9193087 TTTTTAAAATATAAAATTAAT
1 TTTTTAAAATAT-ATTTTAAT
*
9193108 ATTTT-AAA-ATATTTTAAT
1 TTTTTAAAATATATTTTAAT
9193126 TTTTTAAAATCATATTTTTTGAAT
1 TTTTTAAAAT-ATA--TTTT-AAT
*
9193150 TTTATAAAATATGATTTT-AT
1 TTTTTAAAATAT-ATTTTAAT
9193170 TTTTCTAAAA
1 TTTT-TAAAA
9193180 AAATTCAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
18 10 0.17
19 5 0.09
20 8 0.14
21 12 0.21
22 4 0.07
23 6 0.10
24 13 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTTAAAATATATTTTAAT
Found at i:9193348 original size:38 final size:36
Alignment explanation
Indices: 9193306--9193398 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 36
9193296 AAATATTTAA
9193306 TTTTAATTTTTTGGAATTTTT-ATAAAATTTTCTATATT
1 TTTTAATTTTTTGG-ATTTTTCAT-AAATTTT-TATATT
*
9193344 TTTTAATTTTTAT-GCTTTTTCATAAATTTTTATATT
1 TTTTAATTTTT-TGGATTTTTCATAAATTTTTATATT
*
9193380 TTGTT-ATTTTTTGTATTTT
1 TT-TTAATTTTTTGGATTTT
9193399 GGAAAGAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
35 1 0.02
36 18 0.38
37 14 0.29
38 14 0.29
39 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (36 bp):
TTTTAATTTTTTGGATTTTTCATAAATTTTTATATT
Found at i:9193628 original size:15 final size:16
Alignment explanation
Indices: 9193610--9193643 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9193600 ATTACAAAAA
9193610 AAAAACAAAAA-AATT
1 AAAAACAAAAAGAATT
*
9193625 AAAAGCAAAAAGAATT
1 AAAAACAAAAAGAATT
9193641 AAA
1 AAA
9193644 TATCTTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAACAAAAAGAATT
Found at i:9193995 original size:25 final size:26
Alignment explanation
Indices: 9193932--9193996 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
9193922 GATCAACGTT
* * *
9193932 ATTAAATTCAATTTATACGAAAGCAA
1 ATTAATTTCAAATTATACGAAAGAAA
* *
9193958 A-TATTTATGAAATTATAC-AAAGAAA
1 ATTAATT-TCAAATTATACGAAAGAAA
9193983 ATTAATTTCAAATT
1 ATTAATTTCAAATT
9193997 TGTTACGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (26 bp):
ATTAATTTCAAATTATACGAAAGAAA
Found at i:9199466 original size:2 final size:2
Alignment explanation
Indices: 9199459--9199496 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9199449 AAGTTGATAG
9199459 AT AT 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 AT AT
9199497 CTCTAGCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.