Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 162 of 163
Found at i:54749032 original size:324 final size:325
Alignment explanation
Indices: 54748438--54749091 Score: 1292
Period size: 324 Copynumber: 2.0 Consensus size: 325
54748428 AAAAATATAA
*
54748438 ATTTATCTGTTAAACTATAAAATTATTTTTTATTCTTACATAATTATCAAATAAATATTTTAATA
1 ATTTTTCTGTTAAACTATAAAATTATTTTTTATTCTTACATAATTATCAAATAAATATTTTAATA
54748503 TTCCAAGATGTGAGAATAAATAAAATTCGTTAGAGAAATAAAACACAGAACTTTTATTATAAAAT
66 TTCCAAGATGTGAGAATAAATAAAATTCGTTAGAGAAATAAAACACAGAACTTTTATTATAAAAT
54748568 AATAATAACAACAAAAAAGTAAAAGAAACTAGTAACTTTAAAAAGCCACTAAACACATGTTCTCT
131 AATAATAACAACAAAAAAGTAAAAGAAACTAGTAACTTTAAAAAGCCACTAAACACATGTTCTCT
54748633 TTCGTTAAAATCAATATTTTATTTATGAACTATTTCTTTCGTTTAAAATAATATTTAAATTTTAA
196 TTCGTTAAAATCAATATTTTATTTATGAACTATTTCTTTCGTTTAAAATAATATTTAAATTTTAA
54748698 ACTTAATCTCTAAAACTCAACATTACTTTTTAAATTTAAATTTCAGTAACATGTAATGA-ATGAG
261 ACTTAATCTCTAAAACTCAACATTACTTTTTAAATTTAAATTTCAGTAACATGTAATGATATGAG
54748762 ATTTTTCTGTTAAACTATAAAATTATTTTTTATTCTTACATAATTATCAAATAAATATTTTAATA
1 ATTTTTCTGTTAAACTATAAAATTATTTTTTATTCTTACATAATTATCAAATAAATATTTTAATA
54748827 TTCCAAGATGTGAGAATAAATAAAATTCGTTAGAGAAATAAAACACAGAACTTTTATTATAAAAT
66 TTCCAAGATGTGAGAATAAATAAAATTCGTTAGAGAAATAAAACACAGAACTTTTATTATAAAAT
54748892 AATAATAACAACAAAAAAGTAAAAGAAACTAGTAACTTTAAAAAGCCACTAAACACATGTTCTCT
131 AATAATAACAACAAAAAAGTAAAAGAAACTAGTAACTTTAAAAAGCCACTAAACACATGTTCTCT
54748957 TTCGTTAAAATCAATATTTTATTTATGAACTATTTCTTTCGTTTAAAATAATATTTAAATTTTAA
196 TTCGTTAAAATCAATATTTTATTTATGAACTATTTCTTTCGTTTAAAATAATATTTAAATTTTAA
54749022 ACTTAATCTCTAAAACTCAACATTACTTTTTAAATTTAAATTTCAGTAACATGTAATGATATGAG
261 ACTTAATCTCTAAAACTCAACATTACTTTTTAAATTTAAATTTCAGTAACATGTAATGATATGAG
54749087 ATTTT
1 ATTTT
54749092 AATATTATAT
Statistics
Matches: 328, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
324 318 0.97
325 10 0.03
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (325 bp):
ATTTTTCTGTTAAACTATAAAATTATTTTTTATTCTTACATAATTATCAAATAAATATTTTAATA
TTCCAAGATGTGAGAATAAATAAAATTCGTTAGAGAAATAAAACACAGAACTTTTATTATAAAAT
AATAATAACAACAAAAAAGTAAAAGAAACTAGTAACTTTAAAAAGCCACTAAACACATGTTCTCT
TTCGTTAAAATCAATATTTTATTTATGAACTATTTCTTTCGTTTAAAATAATATTTAAATTTTAA
ACTTAATCTCTAAAACTCAACATTACTTTTTAAATTTAAATTTCAGTAACATGTAATGATATGAG
Found at i:54765230 original size:29 final size:31
Alignment explanation
Indices: 54765188--54765247 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
54765178 ATAGAACGCA
*
54765188 TTAATAAATAATTC-TAAATTTATAAAAATAT
1 TTAATAAATAATTCATAAAATT-TAAAAATAT
54765219 TTAA-AAA-AATTCATAAAATTTAAAAATAT
1 TTAATAAATAATTCATAAAATTTAAAAATAT
54765248 AACGTGGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 14 0.52
30 9 0.33
31 4 0.15
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (31 bp):
TTAATAAATAATTCATAAAATTTAAAAATAT
Found at i:54768390 original size:22 final size:22
Alignment explanation
Indices: 54768365--54768409 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
54768355 TTAAGAGGGG
*
54768365 TGAGA-ATTAAATTATAAATTTT
1 TGAGAGATTAAAATAT-AATTTT
*
54768387 TGAGAGGTTAAAATATAATTTT
1 TGAGAGATTAAAATATAATTTT
54768409 T
1 T
54768410 ATCATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (22 bp):
TGAGAGATTAAAATATAATTTT
Found at i:54768808 original size:16 final size:17
Alignment explanation
Indices: 54768783--54768817 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
54768773 CTAAACCAAT
*
54768783 AAAACTCAAA-AAAAAA
1 AAAACCCAAATAAAAAA
54768799 AAAACCCAAATAAAAAA
1 AAAACCCAAATAAAAAA
54768816 AA
1 AA
54768818 CACTCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAACCCAAATAAAAAA
Found at i:54768869 original size:16 final size:16
Alignment explanation
Indices: 54768850--54768885 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
54768840 TTAAAATTGT
*
54768850 TATTTATTTATATTTA
1 TATTTATTTAGATTTA
*
54768866 TATTTATTTAGATTTT
1 TATTTATTTAGATTTA
54768882 TATT
1 TATT
54768886 GACTTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTATTTAGATTTA
Found at i:54785425 original size:15 final size:15
Alignment explanation
Indices: 54785396--54785433 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
54785386 CTGTAGCAGC
*
54785396 TTTTGT-TGTTTCTG
1 TTTTGTATGGTTCTG
54785410 TTTTGTATGGTTCTG
1 TTTTGTATGGTTCTG
54785425 TTTTGTATG
1 TTTTGTATG
54785434 TTTGTATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.05, C:0.05, G:0.24, T:0.66
Consensus pattern (15 bp):
TTTTGTATGGTTCTG
Found at i:54788344 original size:16 final size:16
Alignment explanation
Indices: 54788302--54788355 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
54788292 TTGATTTGCT
*
54788302 ATTACACATCTATTCC
1 ATTACACCTCTATTCC
54788318 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
**
54788334 ATTACGTCTCTATTCC
1 ATTACACCTCTATTCC
*
54788350 AATACA
1 ATTACA
54788356 GCAAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.30, C:0.31, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:54802442 original size:30 final size:30
Alignment explanation
Indices: 54802408--54802471 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
54802398 TTAGTTAAAG
* *
54802408 TAAAATTATACTTTGGCCCCTTAAAAATAA
1 TAAAATTATAATTTGACCCCTTAAAAATAA
* * * *
54802438 TAAAATTTTAATTTGATCCTTTAAAAATTA
1 TAAAATTATAATTTGACCCCTTAAAAATAA
54802468 TAAA
1 TAAA
54802472 GATATAAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (30 bp):
TAAAATTATAATTTGACCCCTTAAAAATAA
Found at i:54835338 original size:3 final size:3
Alignment explanation
Indices: 54835323--54835359 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
54835313 AATGGTGGAT
*
54835323 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
54835360 AATATTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:54838168 original size:23 final size:24
Alignment explanation
Indices: 54838119--54838180 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
54838109 TAAATTATGT
*
54838119 TTTTAACTTTT-ATTATTTTTTACA
1 TTTTAACTTTTAATTA-TTTATACA
*
54838143 -TTTAACTTTTAATTATTTATATA
1 TTTTAACTTTTAATTATTTATACA
54838166 TTTTAA--TTTAATTAT
1 TTTTAACTTTTAATTAT
54838181 GTAAAACCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 9 0.26
23 16 0.47
24 9 0.26
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAACTTTTAATTATTTATACA
Found at i:54843234 original size:26 final size:27
Alignment explanation
Indices: 54843199--54843263 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
54843189 TAAATAATGA
54843199 TATAA-ATTTATAATAGTTATAATTAA-
1 TATAATATTTATAATAGTTA-AATTAAT
* *
54843225 T-TAATATTTAATTATATTTAAATTAAT
1 TATAATATTT-ATAATAGTTAAATTAAT
54843252 TATAATATTTAT
1 TATAATATTTAT
54843264 TTATAAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 3 0.09
26 11 0.33
27 11 0.33
28 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TATAATATTTATAATAGTTAAATTAAT
Found at i:54844095 original size:151 final size:151
Alignment explanation
Indices: 54843884--54844171 Score: 418
Period size: 151 Copynumber: 1.9 Consensus size: 151
54843874 TTTAGTGTGT
* * *
54843884 TTTTGTGTCACTCAATTTTAAAAAGTTACAACATGGTTATAGTACTATTCAAAATTTTTTGTTTA
1 TTTTGTGTCACTCAATTTTAAAAAGTTACAACATGGTCATAGCACTATTCAAAAGTTTTTGTTTA
* * * *
54843949 AATCACTAAGTTATTAAGTTTTTTTTTTTTAAGTTCGGCTAATGATCTCCAAACGACAATACGAC
66 AATCACTAAGTTATTAAG-GTTTCTTTTTTAAGTTCGACTAATGATCTCCAAACGACAATACAAC
54844014 AATTGGTAGTAGTAAATTTATG
130 AATTGGTAGTAGTAAATTTATG
* *
54844036 TTTTG-GTCACTCAATTTTAAAAAGTTACAATATGGTCACT-GCACTATTTAAAAGTTTTTGTTT
1 TTTTGTGTCACTCAATTTTAAAAAGTTACAACATGGTCA-TAGCACTATTCAAAAGTTTTTGTTT
* * * * *
54844099 AAGTCACTAGGTTGTTAAGGTTTCTTTTTTAAGTTCGACTAATGATCTCCGAACGATAATACAAC
65 AAATCACTAAGTTATTAAGGTTTCTTTTTTAAGTTCGACTAATGATCTCCAAACGACAATACAAC
54844164 AATTGGTA
130 AATTGGTA
54844172 AGATGGATTA
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
150 48 0.40
151 67 0.55
152 6 0.05
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (151 bp):
TTTTGTGTCACTCAATTTTAAAAAGTTACAACATGGTCATAGCACTATTCAAAAGTTTTTGTTTA
AATCACTAAGTTATTAAGGTTTCTTTTTTAAGTTCGACTAATGATCTCCAAACGACAATACAACA
ATTGGTAGTAGTAAATTTATG
Found at i:54854667 original size:30 final size:30
Alignment explanation
Indices: 54854624--54854728 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 30
54854614 TTAATATAAT
* *
54854624 ATTTGGTATTTAAATTTAATATTTTTTTTA
1 ATTTGATACTTAAATTTAATATTTTTTTTA
* *
54854654 ATTTGATACTTAAACTTGAAT-TTTCTTTTA
1 ATTTGATACTTAAA-TTTAATATTTTTTTTA
* * *
54854684 ATTTGGCAT-C-TAAATTTGACACTTTTTCTTA
1 ATTT-G-ATACTTAAATTTAATA-TTTTTTTTA
*
54854715 AGTTGATACTTAAA
1 ATTTGATACTTAAA
54854729 CTTTTAGAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
29 5 0.09
30 30 0.52
31 21 0.36
32 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (30 bp):
ATTTGATACTTAAATTTAATATTTTTTTTA
Found at i:54858961 original size:31 final size:31
Alignment explanation
Indices: 54858902--54858967 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 31
54858892 TCTTTATAGT
54858902 TTTTAAAAGAATTAAATCAAAATTTTA-TTA
1 TTTTAAAAGAATTAAATCAAAATTTTATTTA
*
54858932 TTTTAAAA-AGTTAAAT-AATAATTTGTTATTTA
1 TTTTAAAAGAATTAAATCAA-AA-TT-TTATTTA
54858964 TTTT
1 TTTT
54858968 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 2 0.06
29 9 0.29
30 10 0.32
31 3 0.10
32 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTTAAAAGAATTAAATCAAAATTTTATTTA
Found at i:54865579 original size:18 final size:18
Alignment explanation
Indices: 54865556--54865598 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
54865546 AAAAATTTAA
54865556 ATAATTTAGTGATATTTT
1 ATAATTTAGTGATATTTT
54865574 ATAATTTAGTGATATTTT
1 ATAATTTAGTGATATTTT
54865592 ATAATTT
1 ATAATTT
54865599 TTGAAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
ATAATTTAGTGATATTTT
Found at i:54878722 original size:2 final size:2
Alignment explanation
Indices: 54878717--54878750 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
54878707 ATATATATAT
54878717 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
54878751 GTACTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:54880703 original size:12 final size:12
Alignment explanation
Indices: 54880688--54880739 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
54880678 CATATACACA
54880688 CATACATACATG
1 CATACATACATG
* *
54880700 CATACCTACATA
1 CATACATACATG
* *
54880712 TATACATGCATG
1 CATACATACATG
*
54880724 CATGCATACATG
1 CATACATACATG
54880736 CATA
1 CATA
54880740 TATGTATGTA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (12 bp):
CATACATACATG
Found at i:54880731 original size:20 final size:20
Alignment explanation
Indices: 54880681--54880734 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
54880671 ACCAGCACAT
*
54880681 ATACACACATACATACATGC
1 ATACATACATACATACATGC
* *
54880701 ATACCTACATATATACATGC
1 ATACATACATACATACATGC
* *
54880721 ATGCATGCATACAT
1 ATACATACATACAT
54880735 GCATATATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (20 bp):
ATACATACATACATACATGC
Found at i:54881786 original size:3 final size:3
Alignment explanation
Indices: 54881760--54881799 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
54881750 AGAGTAACCA
54881760 AAT AA- AAT AA- AAT AA- AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
54881800 AGATTTGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:54881789 original size:6 final size:6
Alignment explanation
Indices: 54881760--54881799 Score: 52
Period size: 5 Copynumber: 7.3 Consensus size: 6
54881750 AGAGTAACCA
54881760 AATAA- AATAA- AATAA- AAT-AT AATAAT AATAAT AATAAT AA
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AA
54881800 AGATTTGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 1 0.03
5 16 0.48
6 16 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AATAAT
Found at i:54890530 original size:21 final size:21
Alignment explanation
Indices: 54890506--54890546 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54890496 ATTATTACAA
54890506 TACAA-ATAGACTAAGAATAAG
1 TACAATATAGACTAA-AATAAG
*
54890527 TACAATGTAGACTAAAATAA
1 TACAATATAGACTAAAATAA
54890547 AAAAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (21 bp):
TACAATATAGACTAAAATAAG
Found at i:54900886 original size:58 final size:59
Alignment explanation
Indices: 54900784--54900899 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
54900774 AGGCCTGAAC
* * * *
54900784 TTGACAACTATTCTTATATTGAGGCCTAAACTTTTTTTGGTCCAAATTAGGCCCTAAAT
1 TTGACAACTATTCTCATATTAAGGCCTAAACATTTTTTGGTCCAAATTAAGCCCTAAAT
* *
54900843 TTGACAAGC-ATTCTCATATTAAGGCCTGAACATTTTTT-GTCCAAGTTAAGCCCTAAA
1 TTGACAA-CTATTCTCATATTAAGGCCTAAACATTTTTTGGTCCAAATTAAGCCCTAAA
54900900 CTAGGTAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
58 17 0.34
59 32 0.64
60 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (59 bp):
TTGACAACTATTCTCATATTAAGGCCTAAACATTTTTTGGTCCAAATTAAGCCCTAAAT
Found at i:54908853 original size:33 final size:33
Alignment explanation
Indices: 54908816--54908908 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
54908806 AATTCCCGCC
*
54908816 GCAACAACCACCGCAATACCCACCACCTGCTCA
1 GCAACAGCCACCGCAATACCCACCACCTGCTCA
*
54908849 GCAACAGCCACCGCAATACCCACTACCTGCTCA
1 GCAACAGCCACCGCAATACCCACCACCTGCTCA
* * * *
54908882 ACAGCAGCCTCCGCAGTACCCACCACC
1 GCAACAGCCACCGCAATACCCACCACC
54908909 ATCAGAACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.30, C:0.48, G:0.12, T:0.10
Consensus pattern (33 bp):
GCAACAGCCACCGCAATACCCACCACCTGCTCA
Found at i:54925118 original size:22 final size:21
Alignment explanation
Indices: 54925059--54925116 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
54925049 AATATACATA
*
54925059 TTATTTTGACATTTTAAAATT
1 TTATTTTTACATTTTAAAATT
* *
54925080 TGTATTTATATATTTTAAAATT
1 T-TATTTTTACATTTTAAAATT
54925102 TTATTTTTACATTTT
1 TTATTTTTACATTTT
54925117 TAGAAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATTTTTACATTTTAAAATT
Found at i:54937705 original size:22 final size:22
Alignment explanation
Indices: 54937680--54937756 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
54937670 ATAAATATGG
*
54937680 ATTTGAGAGAAATTGTGAAGG-A
1 ATTTGAGAGAAATTGAG-AGGAA
54937702 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
54937725 ATTT-AGAAGAAATTGAGAGGAA
1 ATTTGAG-AGAAATTGAGAGGAA
54937747 ATTTGAGAGA
1 ATTTGAGAGA
54937757 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
22 34 0.68
23 16 0.32
ACGTcount: A:0.44, C:0.01, G:0.30, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:54937718 original size:11 final size:11
Alignment explanation
Indices: 54937682--54937755 Score: 78
Period size: 11 Copynumber: 6.6 Consensus size: 11
54937672 AAATATGGAT
54937682 TTGAGA-GAAA
1 TTGAGAGGAAA
* *
54937692 TTGTGAAGGAAT
1 TTGAG-AGGAAA
*
54937704 TTGAGAGCAAA
1 TTGAGAGGAAA
54937715 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
54937726 TTTAGAAGAAA
1 TTGAGAGGAAA
54937737 TTGAGAGGAAA
1 TTGAGAGGAAA
54937748 TTTGAGAG
1 -TTGAGAG
54937756 AGGATTAGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
10 4 0.08
11 33 0.65
12 14 0.27
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:54947191 original size:64 final size:64
Alignment explanation
Indices: 54947090--54947283 Score: 388
Period size: 64 Copynumber: 3.0 Consensus size: 64
54947080 CCCCTTTAGA
54947090 GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
1 GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
54947154 GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
1 GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
54947218 GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
1 GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
54947282 GG
1 GG
54947284 TGTTACCTTT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 130 1.00
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (64 bp):
GGCCAAAACTTAAGTGAAAGATCCCATGGAGGCAGAAGCTGGAGAAAATGGCCAATTTGGAAAG
Found at i:54952649 original size:29 final size:30
Alignment explanation
Indices: 54952595--54952670 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
54952585 TTATAGGGAC
* *
54952595 TGAATCAAATTAGTCCCTCTACTA-TTAAA
1 TGAATCAAATTAGTCCATATACTATTTAAA
*
54952624 TGAATCAATTTAGTCCATATGA-TATTTAAA
1 TGAATCAAATTAGTCCATAT-ACTATTTAAA
* *
54952654 AGAATCAAATAAGTCCA
1 TGAATCAAATTAGTCCA
54952671 GTTTGGAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (30 bp):
TGAATCAAATTAGTCCATATACTATTTAAA
Found at i:54954192 original size:163 final size:163
Alignment explanation
Indices: 54953922--54954251 Score: 615
Period size: 163 Copynumber: 2.0 Consensus size: 163
54953912 CTTAAGTAGA
* *
54953922 TGAAAAACATGTGTGTATATTCATAAGAGCTTATTACACTTTAGACACCAACCAGCCAGCCATTT
1 TGAAAAACATGCGTGTATATTCATAAGAGCTTATTACACTTTAGACACCAACCAGCCAGCCATTA
* *
54953987 GTAAATTTATCCCACATAATACTAAATAGACTCGGTCGCTATCTGTAATGTAAAAATGCGTGTTC
66 ATAAATTTATCCCACATAATACTAAATAGACTCGGTCGCTATCTGTAATGTAAAAATGCGTGCTC
54954052 AGTTCAATGCTTCTCATGCTGTACTGATTATGT
131 AGTTCAATGCTTCTCATGCTGTACTGATTATGT
54954085 TGAAAAACATGCGTGTATATTCATAAGAGCTTATTACACTTTAGACACCAACCAGCCAGCCATTA
1 TGAAAAACATGCGTGTATATTCATAAGAGCTTATTACACTTTAGACACCAACCAGCCAGCCATTA
*
54954150 ATAAATTTATCCCACATAATACTATATAGACTCGGTCGCTATCTGTAATGTAAAAATGCGTGCTC
66 ATAAATTTATCCCACATAATACTAAATAGACTCGGTCGCTATCTGTAATGTAAAAATGCGTGCTC
54954215 AGTTCAATGCTTCTCATGCTGTACTGATTATGT
131 AGTTCAATGCTTCTCATGCTGTACTGATTATGT
54954248 TGAA
1 TGAA
54954252 TAAGTTACAA
Statistics
Matches: 162, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (163 bp):
TGAAAAACATGCGTGTATATTCATAAGAGCTTATTACACTTTAGACACCAACCAGCCAGCCATTA
ATAAATTTATCCCACATAATACTAAATAGACTCGGTCGCTATCTGTAATGTAAAAATGCGTGCTC
AGTTCAATGCTTCTCATGCTGTACTGATTATGT
Found at i:54962668 original size:28 final size:28
Alignment explanation
Indices: 54962610--54962669 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
54962600 AAAGTCGGGT
* *
54962610 TTTTTTTAAATTTATCGAAATGGGCTGA
1 TTTTTTTAAATTTACCGAAATGGGCTCA
* *
54962638 TTTTTTTATTATTTACCGGAATGGGC-CA
1 TTTTTTTA-AATTTACCGAAATGGGCTCA
54962666 TTTT
1 TTTT
54962670 CCGGAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (28 bp):
TTTTTTTAAATTTACCGAAATGGGCTCA
Found at i:54963014 original size:22 final size:23
Alignment explanation
Indices: 54962989--54963044 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
54962979 AATTTTTAAA
*
54962989 TATTATTTAAGAT-TTATTTATT
1 TATTATTTAAGATATTATTAATT
*
54963011 TATTTATTTTTAGATAATTATTAATT
1 TA-TTA-TTTAAGAT-ATTATTAATT
54963037 TATTATTT
1 TATTATTT
54963045 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 3 0.11
24 10 0.36
25 3 0.11
26 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTATTTAAGATATTATTAATT
Found at i:54965007 original size:122 final size:121
Alignment explanation
Indices: 54964790--54965134 Score: 541
Period size: 121 Copynumber: 2.8 Consensus size: 121
54964780 CCCAAACTTG
* *
54964790 CTACTGTAGAAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
* *
54964855 TAGAGGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAAAAATCTTACATGAC
66 TAGA-GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAAATATTACATGAC
*
54964912 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
* * **
54964977 TAGAGTCGATTTTATATTATTTGCTCAGAAACGTC-AAAAAATATTTATTACATGAC
66 TAGAG-CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAAATATTACATGAC
*
54965033 CTACTGTAGCAAAATCGCGTCCACGATGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
*
54965098 TAGAAGCGATTTTATACTATTTGAC-CAGAAACATCAA
66 TAG-AGCGATTTTATACTATTTG-CTCAGAAACGTCAA
54965135 CTCGAAATAA
Statistics
Matches: 206, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
121 109 0.53
122 97 0.47
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (121 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
TAGAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAAATATTACATGAC
Found at i:54965475 original size:30 final size:28
Alignment explanation
Indices: 54965424--54965479 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
54965414 AAAATAGTTC
*
54965424 ATTTCGGTAAATAATTAAAAAATCGACCT
1 ATTTCGGTAAATAAATAAAAAA-CGACCT
54965453 ATTTCGGTAAAATAAA-ATAAAAACGAC
1 ATTTCGGT-AAATAAATA-AAAAACGAC
54965480 TTTTTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (28 bp):
ATTTCGGTAAATAAATAAAAAACGACCT
Found at i:54972230 original size:16 final size:16
Alignment explanation
Indices: 54972191--54972254 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
54972181 TATTTTGAAA
* *
54972191 TTAAAAAATATGTTAA
1 TTAAAAAAAATGTTAT
* *
54972207 ATATAAAAAATGTTAT
1 TTAAAAAAAATGTTAT
*
54972223 TTAAAAAAAAAGTTAT
1 TTAAAAAAAATGTTAT
54972239 CTTAAAGATAAAATGT
1 -TTAAA-A-AAAATGT
54972255 GAAATTGATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 25 0.68
17 5 0.14
18 1 0.03
19 6 0.16
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (16 bp):
TTAAAAAAAATGTTAT
Found at i:54972231 original size:17 final size:19
Alignment explanation
Indices: 54972211--54972254 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
54972201 TGTTAAATAT
54972211 AAAAAATGTTAT-TTAAA-
1 AAAAAATGTTATCTTAAAG
54972228 AAAAAA-GTTATCTTAAAG
1 AAAAAATGTTATCTTAAAG
*
54972246 ATAAAATGT
1 AAAAAATGT
54972255 GAAATTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 5 0.22
19 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (19 bp):
AAAAAATGTTATCTTAAAG
Found at i:54974476 original size:36 final size:36
Alignment explanation
Indices: 54974433--54974507 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
54974423 TGTAGTTAGT
54974433 GTAGAAATAGCGGTGGCGGTGAGATTAGATATTGTA
1 GTAGAAATAGCGGTGGCGGTGAGATTAGATATTGTA
54974469 GTAGAAATAGCGGTGGCGGTGAGATTAGATATTGTA
1 GTAGAAATAGCGGTGGCGGTGAGATTAGATATTGTA
54974505 GTA
1 GTA
54974508 TGAGACAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (36 bp):
GTAGAAATAGCGGTGGCGGTGAGATTAGATATTGTA
Found at i:54978173 original size:12 final size:12
Alignment explanation
Indices: 54978156--54978190 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
54978146 AATTATATTT
54978156 AATTATTATATC
1 AATTATTATATC
*
54978168 AATTATTATAAC
1 AATTATTATATC
*
54978180 ATTTATTATAT
1 AATTATTATAT
54978191 AAAATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (12 bp):
AATTATTATATC
Found at i:54980559 original size:9 final size:9
Alignment explanation
Indices: 54980545--54980574 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
54980535 TCTTAACAAT
54980545 AATTTTAAA
1 AATTTTAAA
54980554 AATTTTAAA
1 AATTTTAAA
*
54980563 AATCTTAAA
1 AATTTTAAA
54980572 AAT
1 AAT
54980575 CTATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTTTAAA
Found at i:54980583 original size:9 final size:9
Alignment explanation
Indices: 54980549--54980582 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
54980539 AACAATAATT
*
54980549 TTAAAAATT
1 TTAAAAATC
54980558 TTAAAAATC
1 TTAAAAATC
54980567 TTAAAAATC
1 TTAAAAATC
54980576 TATAAAA
1 T-TAAAA
54980583 TTAATTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAAAAATC
Found at i:54980628 original size:17 final size:17
Alignment explanation
Indices: 54980606--54980639 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54980596 CAAAATTTTA
*
54980606 AAAATATATACAAATAT
1 AAAATATATAAAAATAT
54980623 AAAATATATAAAAATAT
1 AAAATATATAAAAATAT
54980640 GTATAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATATATAAAAATAT
Found at i:54986495 original size:21 final size:20
Alignment explanation
Indices: 54986462--54986501 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
54986452 TTTTAAATAA
*
54986462 AAAAATACCTACCTCAAAATG
1 AAAAATACATACCT-AAAATG
*
54986483 AAAAATATATACCTAAAAT
1 AAAAATACATACCTAAAAT
54986502 AAATCATACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAATACATACCTAAAATG
Found at i:55009516 original size:31 final size:31
Alignment explanation
Indices: 55009480--55009544 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
55009470 AAAATGATTT
*
55009480 TTGAACTA-TCTGAAAGTTTTCATTTAAGTCA
1 TTGAACTATTC-GAAAGTTTTCATTTAAATCA
* *
55009511 TTGAACTATTCGATAGTTTTTATTTAAATCA
1 TTGAACTATTCGAAAGTTTTCATTTAAATCA
55009542 TTG
1 TTG
55009545 GGCTGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (31 bp):
TTGAACTATTCGAAAGTTTTCATTTAAATCA
Found at i:55011447 original size:13 final size:13
Alignment explanation
Indices: 55011426--55011478 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
55011416 TTTAAACCAA
* *
55011426 ACTTTTCAAAAGT
1 ACTTCTCAAAAGC
55011439 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
* * *
55011452 ACTTTTCCATAGC
1 ACTTCTCAAAAGC
*
55011465 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
55011478 A
1 A
55011479 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:55022769 original size:1 final size:1
Alignment explanation
Indices: 55022763--55022791 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
55022753 AAATTATGCC
55022763 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55022792 CTTGTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:55028076 original size:110 final size:110
Alignment explanation
Indices: 55027883--55028102 Score: 406
Period size: 110 Copynumber: 2.0 Consensus size: 110
55027873 AAGAGGGGAG
*
55027883 GGCTTTTACAAAAAAAAAAAAAAATGCAAAGGCCAGGGGGACAGCTTTAGATTGCTCTGACCTGG
1 GGCTTTTAAAAAAAAAAAAAAAAATGCAAAGGCCAGGGGGACAGCTTTAGATTGCTCTGACCTGG
55027948 GAACATATACTATTCATATTTAGATTGATCTTCAAATATTTTTTA
66 GAACATATACTATTCATATTTAGATTGATCTTCAAATATTTTTTA
*
55027993 GGCTTTTAAAAAAAAAAAAAAAAACTGCAATGG-CAGGGGGACAGCTTTAGATTGCTCTGACCTG
1 GGCTTTTAAAAAAAAAAAAAAAAA-TGCAAAGGCCAGGGGGACAGCTTTAGATTGCTCTGACCTG
55028057 GGAACATATACTATTCATATTTAGATTGATCTTCAAATATTTTTTA
65 GGAACATATACTATTCATATTTAGATTGATCTTCAAATATTTTTTA
55028103 TGCTAATGTG
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
110 100 0.93
111 7 0.07
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (110 bp):
GGCTTTTAAAAAAAAAAAAAAAAATGCAAAGGCCAGGGGGACAGCTTTAGATTGCTCTGACCTGG
GAACATATACTATTCATATTTAGATTGATCTTCAAATATTTTTTA
Found at i:55032161 original size:31 final size:31
Alignment explanation
Indices: 55032123--55032191 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
55032113 ATAATCATTG
***
55032123 AACTATTCGAAAGTTTTCATTTAAGTCACTA
1 AACTATTCGAAAGTTTTCATTTAAAAAACTA
*
55032154 AACTATTCGAAAGTTTTTATTTAAAAAACTA
1 AACTATTCGAAAGTTTTCATTTAAAAAACTA
55032185 AACTATT
1 AACTATT
55032192 TGCATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (31 bp):
AACTATTCGAAAGTTTTCATTTAAAAAACTA
Found at i:55034892 original size:84 final size:85
Alignment explanation
Indices: 55034797--55034966 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 85
55034787 TTATTTCAAT
55034797 TTAATTGTACACATAAAAGTAAATAAATATATACATTTATTTTTATATATAGATTTAATATTTAT
1 TTAATTGTACACATAAAAGTAAATAAATATATACATTTATTTTTATATATAGATTTAATATTTAT
55034862 CCCTAAAAC-CTTTATTAAG
66 CCCTAAAACTCTTTATTAAG
55034881 TTAATTGTACACATAAAAGTAAATAAATATATACATTTATTTTTATATATAGATTTAATATTTAT
1 TTAATTGTACACATAAAAGTAAATAAATATATACATTTATTTTTATATATAGATTTAATATTTAT
55034946 CCCTAAAACTCTTTATTAAG
66 CCCTAAAACTCTTTATTAAG
55034966 T
1 T
55034967 CGATATCATA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 74 0.87
85 11 0.13
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (85 bp):
TTAATTGTACACATAAAAGTAAATAAATATATACATTTATTTTTATATATAGATTTAATATTTAT
CCCTAAAACTCTTTATTAAG
Found at i:55036111 original size:29 final size:29
Alignment explanation
Indices: 55036079--55036145 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
55036069 ACCAATAAAA
*
55036079 GCCGTTTTTTTCAAAATTTATCGAAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* * ** *
55036108 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
*
55036137 GCCATTTTT
1 GCCGTTTTT
55036146 CGCGAAATCG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (29 bp):
GCCGTTTTTTTCAAAATTTACCGAAATGG
Found at i:55043529 original size:57 final size:57
Alignment explanation
Indices: 55043467--55043578 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 57
55043457 TTTTTGTTTT
** * * * *
55043467 AAGATAATTTCTAAACTTGGCATTTGTTCCTATATT-GATGCCTAAATTTTTTTATCA
1 AAGATAATCCCTAAACTTGACAATTGTTCCTACATTGGA-GCCTAAAGTTTTTTATCA
* *
55043524 AAGATAATCCCTACACTTGACAATTGTTCTTACATTGGAGCCTAAAGTTTTTTAT
1 AAGATAATCCCTAAACTTGACAATTGTTCCTACATTGGAGCCTAAAGTTTTTTAT
55043579 GGTCCAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
57 44 0.96
58 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (57 bp):
AAGATAATCCCTAAACTTGACAATTGTTCCTACATTGGAGCCTAAAGTTTTTTATCA
Found at i:55054842 original size:3 final size:3
Alignment explanation
Indices: 55054834--55054885 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
55054824 TATTGCTTTT
55054834 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55054882 TTA T
1 TTA T
55054886 GTGTGCAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:55058582 original size:5 final size:5
Alignment explanation
Indices: 55058572--55058610 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
55058562 TTGGAATTAA
55058572 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
55058611 CCTAATTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:55070628 original size:71 final size:72
Alignment explanation
Indices: 55070511--55070650 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 72
55070501 TCATGTTCGT
* * * *
55070511 CTTAACCTCCTTTCTATATTAATTAAATACCGTTTACTTTGTCTTTCTTCAACCTATGAATTAAT
1 CTTAACCCCCTTTCTATATTAATTAAATACCATTCACTTTGTCTTTCTTCAACCTACGAATTAAT
55070576 GATTTGC
66 GATTTGC
* *
55070583 CTTAACCCCCTTT-TATATTAATT-AATGACCATTCACTTTGTCTTTCTTCAACTTGCGAATTAA
1 CTTAACCCCCTTTCTATATTAATTAAAT-ACCATTCACTTTGTCTTTCTTCAACCTACGAATTAA
55070646 TGATT
65 TGATT
55070651 CTTTTTGGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 3 0.05
71 46 0.75
72 12 0.20
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (72 bp):
CTTAACCCCCTTTCTATATTAATTAAATACCATTCACTTTGTCTTTCTTCAACCTACGAATTAAT
GATTTGC
Found at i:55072085 original size:30 final size:30
Alignment explanation
Indices: 55072049--55072136 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
55072039 ACTTCATGTG
* *
55072049 TTGTTTGGGCAGAGAGTTTGATGGAGAAGT
1 TTGTTTGTGCAGAGAGTTTGATGGAGAAAT
**
55072079 TTGTTTGTGCAGAGAGTGAGATGGAGAAAT
1 TTGTTTGTGCAGAGAGTTTGATGGAGAAAT
*
55072109 TTATTTGTGCAGAGAGTTTGATGGAGAA
1 TTGTTTGTGCAGAGAGTTTGATGGAGAA
55072137 TGGTCAATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.27, C:0.03, G:0.36, T:0.33
Consensus pattern (30 bp):
TTGTTTGTGCAGAGAGTTTGATGGAGAAAT
Found at i:55072402 original size:30 final size:30
Alignment explanation
Indices: 55072366--55072423 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
55072356 TTTTCATGTG
*
55072366 TTGTTTGGGCAGAGAGTTTGATGGAGAAGT
1 TTGTTTGGGCAGAGAGTTCGATGGAGAAGT
*
55072396 TTGTTTGTGCAGAGAGTTCGATGGAGAA
1 TTGTTTGGGCAGAGAGTTCGATGGAGAA
55072424 TGGTCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.05, G:0.38, T:0.33
Consensus pattern (30 bp):
TTGTTTGGGCAGAGAGTTCGATGGAGAAGT
Found at i:55072534 original size:30 final size:30
Alignment explanation
Indices: 55072498--55072555 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
55072488 TTTTCATGTG
55072498 TTGTTTGGGCAGAGAGTTTGATGGAGAAGT
1 TTGTTTGGGCAGAGAGTTTGATGGAGAAGT
*
55072528 TTGTTTGTGCAGAGAGTTTGATGGAGAA
1 TTGTTTGGGCAGAGAGTTTGATGGAGAA
55072556 TGGTCAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.03, G:0.38, T:0.34
Consensus pattern (30 bp):
TTGTTTGGGCAGAGAGTTTGATGGAGAAGT
Found at i:55072545 original size:17 final size:16
Alignment explanation
Indices: 55072498--55072547 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
55072488 TTTTCATGTG
55072498 TTGTTTGGGCAGAGAGT
1 TTGTTT-GGCAGAGAGT
*
55072515 TTG-ATGG-AGA-AGT
1 TTGTTTGGCAGAGAGT
55072528 TTGTTTGTGCAGAGAGT
1 TTGTTTG-GCAGAGAGT
55072545 TTG
1 TTG
55072548 ATGGAGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 6 0.22
14 5 0.19
15 3 0.11
16 4 0.15
17 9 0.33
ACGTcount: A:0.20, C:0.04, G:0.38, T:0.38
Consensus pattern (16 bp):
TTGTTTGGCAGAGAGT
Found at i:55072588 original size:132 final size:132
Alignment explanation
Indices: 55072351--55072599 Score: 480
Period size: 132 Copynumber: 1.9 Consensus size: 132
55072341 ACAAATGAAA
55072351 TTCTATTTTCATGTGTTGTTTGGGCAGAGAGTTTGATGGAGAAGTTTGTTTGTGCAGAGAGTTCG
1 TTCTATTTTCATGTGTTGTTTGGGCAGAGAGTTTGATGGAGAAGTTTGTTTGTGCAGAGAGTTCG
*
55072416 ATGGAGAATGGTCAATTTGATAAGCTGAAGGCGAAAGGAAGAGAGAAGATAAAATTTCACTATCT
66 ATGGAGAATGGTCAATTAGATAAGCTGAAGGCGAAAGGAAGAGAGAAGATAAAATTTCACTATCT
55072481 CC
131 CC
*
55072483 TTCTATTTTCATGTGTTGTTTGGGCAGAGAGTTTGATGGAGAAGTTTGTTTGTGCAGAGAGTTTG
1 TTCTATTTTCATGTGTTGTTTGGGCAGAGAGTTTGATGGAGAAGTTTGTTTGTGCAGAGAGTTCG
55072548 ATGGAGAATGGTCAATTAGATAAGCTGAAGGCGAAAGGAAGAGAGAAGATAA
66 ATGGAGAATGGTCAATTAGATAAGCTGAAGGCGAAAGGAAGAGAGAAGATAA
55072600 TGGCAGGGCT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 115 1.00
ACGTcount: A:0.30, C:0.08, G:0.31, T:0.31
Consensus pattern (132 bp):
TTCTATTTTCATGTGTTGTTTGGGCAGAGAGTTTGATGGAGAAGTTTGTTTGTGCAGAGAGTTCG
ATGGAGAATGGTCAATTAGATAAGCTGAAGGCGAAAGGAAGAGAGAAGATAAAATTTCACTATCT
CC
Found at i:55073975 original size:3 final size:3
Alignment explanation
Indices: 55073967--55074015 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
55073957 TTATATTGCT
55073967 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55074015 T
1 T
55074016 GTGTGCAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:55076484 original size:11 final size:11
Alignment explanation
Indices: 55076459--55076499 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
55076449 ATAGAATGCA
*
55076459 GAGTGGGATGT
1 GAGTGGAATGT
55076470 GAGTGAGAATG-
1 GAGTG-GAATGT
55076481 GAGTGGAATGT
1 GAGTGGAATGT
55076492 GAGTGGAA
1 GAGTGGAA
55076500 AAGATGCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 5 0.19
11 18 0.67
12 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (11 bp):
GAGTGGAATGT
Found at i:55076652 original size:6 final size:6
Alignment explanation
Indices: 55076641--55076694 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
55076631 ACTTTCTTTC
** *
55076641 TATGTT TATGTT TAT-TT TAAATT TCT-TT CTATGTT TATGTT TATGTT
1 TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGTT
55076688 TAT-TT TA
1 TATGTT TA
55076695 AAATTTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
5 10 0.24
6 29 0.71
7 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (6 bp):
TATGTT
Found at i:55076675 original size:29 final size:30
Alignment explanation
Indices: 55076633--55076689 Score: 107
Period size: 29 Copynumber: 1.9 Consensus size: 30
55076623 AGCTTTCCAC
55076633 TTTCTTTCTATGTTTATGTTTAT-TTTAAA
1 TTTCTTTCTATGTTTATGTTTATGTTTAAA
55076662 TTTCTTTCTATGTTTATGTTTATGTTTA
1 TTTCTTTCTATGTTTATGTTTATGTTTA
55076690 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.18, C:0.07, G:0.09, T:0.67
Consensus pattern (30 bp):
TTTCTTTCTATGTTTATGTTTATGTTTAAA
Found at i:55078522 original size:18 final size:19
Alignment explanation
Indices: 55078475--55078526 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
55078465 AAAATCAAAA
* *
55078475 AAATTCGGTTAACCGACTG
1 AAATTCGGTTAATCGACCG
55078494 AAATTCGGTTAATCGACCG
1 AAATTCGGTTAATCGACCG
*
55078513 -AATTCAGTTAATCG
1 AAATTCGGTTAATCG
55078527 GTCGATTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (19 bp):
AAATTCGGTTAATCGACCG
Found at i:55078727 original size:18 final size:18
Alignment explanation
Indices: 55078694--55078746 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
55078684 ATTCACCTAA
*
55078694 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
55078713 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
55078731 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
55078747 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:55078858 original size:9 final size:9
Alignment explanation
Indices: 55078844--55078883 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
55078834 GTAATGATTC
55078844 AATTCGGTT
1 AATTCGGTT
*
55078853 AATTCGGGT
1 AATTCGGTT
*
55078862 AATTCGATT
1 AATTCGGTT
55078871 AATTCGGTT
1 AATTCGGTT
55078880 AATT
1 AATT
55078884 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:55081067 original size:14 final size:14
Alignment explanation
Indices: 55081026--55081083 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
55081016 AATCAAACAC
*
55081026 CAGAAAATATTTTC
1 CAGAAAATATTTTA
*
55081040 CAGTAAAACATTTTA
1 CAG-AAAATATTTTA
55081055 CAG-AAATCATTTTA
1 CAGAAAAT-ATTTTA
*
55081069 CGGAAAATATTTTA
1 CAGAAAATATTTTA
55081083 C
1 C
55081084 TGGCAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
13 3 0.08
14 18 0.49
15 16 0.43
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (14 bp):
CAGAAAATATTTTA
Found at i:55082101 original size:29 final size:28
Alignment explanation
Indices: 55082049--55082103 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
55082039 TCTTCACAAG
*
55082049 TCTAGAATTTAGTCATTGTAATTTTATT
1 TCTAGAATTTAGTCATTATAATTTTATT
55082077 TCTAGGAATTTAGTC-TTATACATTTTA
1 TCTA-GAATTTAGTCATTATA-ATTTTA
55082104 GATTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (28 bp):
TCTAGAATTTAGTCATTATAATTTTATT
Found at i:55091086 original size:5 final size:5
Alignment explanation
Indices: 55091078--55091141 Score: 94
Period size: 5 Copynumber: 12.8 Consensus size: 5
55091068 ATGATATATC
*
55091078 ATACT ATACT A-AGCT TTACT ATACT ATACT ATACT ATACT ATACT ATACT
1 ATACT ATACT ATA-CT ATACT ATACT ATACT ATACT ATACT ATACT ATACT
*
55091128 GTACT ATACT ATAC
1 ATACT ATACT ATAC
55091142 ACCCATCTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
4 1 0.02
5 51 0.96
6 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (5 bp):
ATACT
Found at i:55096717 original size:33 final size:30
Alignment explanation
Indices: 55096649--55096709 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
55096639 AGCAAGAAGA
55096649 AAAGTTAGACAAAAAAGAAGAACAGTTTGC
1 AAAGTTAGACAAAAAAGAAGAACAGTTTGC
55096679 AAAGTTAGACAAAAAAGAAGAACAGTTTGC
1 AAAGTTAGACAAAAAAGAAGAACAGTTTGC
55096709 A
1 A
55096710 TCTAAGTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.20, T:0.16
Consensus pattern (30 bp):
AAAGTTAGACAAAAAAGAAGAACAGTTTGC
Found at i:55099000 original size:17 final size:17
Alignment explanation
Indices: 55098978--55099010 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55098968 TAGTTTAGTC
55098978 TTTTTTTTTAATTTTAT
1 TTTTTTTTTAATTTTAT
55098995 TTTTTTTTTAATTTTA
1 TTTTTTTTTAATTTTA
55099011 AAGATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTAATTTTAT
Found at i:55103661 original size:6 final size:6
Alignment explanation
Indices: 55103625--55103649 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55103615 AAAACAGAGC
55103625 TCTCCT TCTCCT TCTCCT TCTCCT T
1 TCTCCT TCTCCT TCTCCT TCTCCT T
55103650 ACCTTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTCCT
Found at i:55118519 original size:67 final size:67
Alignment explanation
Indices: 55118411--55118543 Score: 266
Period size: 67 Copynumber: 2.0 Consensus size: 67
55118401 CAAAGAAATG
55118411 GAAAAACAGCTAAAATTCACTGGTAATGGACTGTATTTTCTCATCAATGTAAAGTAAAACCCCAA
1 GAAAAACAGCTAAAATTCACTGGTAATGGACTGTATTTTCTCATCAATGTAAAGTAAAACCCCAA
55118476 AA
66 AA
55118478 GAAAAACAGCTAAAATTCACTGGTAATGGACTGTATTTTCTCATCAATGTAAAGTAAAACCCCAA
1 GAAAAACAGCTAAAATTCACTGGTAATGGACTGTATTTTCTCATCAATGTAAAGTAAAACCCCAA
55118543 A
66 A
55118544 TCGGTTTGGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (67 bp):
GAAAAACAGCTAAAATTCACTGGTAATGGACTGTATTTTCTCATCAATGTAAAGTAAAACCCCAA
AA
Found at i:55125946 original size:33 final size:33
Alignment explanation
Indices: 55125876--55125948 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
55125866 AAGCAACCTC
*
55125876 TAAAAAATTATTTTGAAGAAAACTTAACAAACA
1 TAAAAAATTATTTTAAAGAAAACTTAACAAACA
* * *
55125909 -AAAAAATTATTTTAAATAGAA-TTATTCAAACA
1 TAAAAAATTATTTTAAAGAAAACTTA-ACAAACA
55125941 TAAAAAAT
1 TAAAAAAT
55125949 ATTAATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 3 0.09
32 24 0.71
33 7 0.21
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (33 bp):
TAAAAAATTATTTTAAAGAAAACTTAACAAACA
Found at i:55133361 original size:4 final size:4
Alignment explanation
Indices: 55133352--55133376 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
55133342 ATGAATCTGC
55133352 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
55133377 GTATAGTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:55140031 original size:31 final size:29
Alignment explanation
Indices: 55139996--55140065 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 29
55139986 AATTTTTAAT
55139996 TTAAATTTTAAAATATAAAAAATTAAAAAGA
1 TTAAATTTTAAAAT-TAAAAAA-TAAAAAGA
*
55140027 TTAAATTTTTAAAATTAAAAAATATAAAGA
1 TTAAA-TTTTAAAATTAAAAAATAAAAAGA
55140057 TTAAATTTT
1 TTAAATTTT
55140066 GGAAGAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 4 0.11
30 12 0.32
31 12 0.32
32 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAATTTTAAAATTAAAAAATAAAAAGA
Found at i:55143244 original size:17 final size:17
Alignment explanation
Indices: 55143222--55143257 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
55143212 CGATCTGAAT
55143222 CAAAATTTGAAGTTTTA
1 CAAAATTTGAAGTTTTA
55143239 CAAAATTTGAAGTTTTA
1 CAAAATTTGAAGTTTTA
55143256 CA
1 CA
55143258 TAAAGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (17 bp):
CAAAATTTGAAGTTTTA
Found at i:55147444 original size:2 final size:2
Alignment explanation
Indices: 55147437--55147467 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
55147427 GAAGGTGTAA
*
55147437 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55147468 ATTTACTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55150238 original size:9 final size:9
Alignment explanation
Indices: 55150224--55150248 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
55150214 TAATGGGTTG
55150224 CACCGCCAC
1 CACCGCCAC
55150233 CACCGCCAC
1 CACCGCCAC
55150242 CACCGCC
1 CACCGCC
55150249 TGGTGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.68, G:0.12, T:0.00
Consensus pattern (9 bp):
CACCGCCAC
Found at i:55154953 original size:29 final size:30
Alignment explanation
Indices: 55154893--55154954 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
55154883 CCAACCAAAA
* *
55154893 GATCTCATTTAATAGTACAGTGACCAAATT
1 GATCTCATTTAATAATACAGGGACCAAATT
* * *
55154923 GATCT-ATTTAATAATAGAGGGACTAATTT
1 GATCTCATTTAATAATACAGGGACCAAATT
55154952 GAT
1 GAT
55154955 AAGGTCCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (30 bp):
GATCTCATTTAATAATACAGGGACCAAATT
Found at i:55161799 original size:207 final size:201
Alignment explanation
Indices: 55161450--55161829 Score: 566
Period size: 207 Copynumber: 1.9 Consensus size: 201
55161440 ACAGGACCAA
* *
55161450 AAACACAAGAAAAACTATACCCAAGATAGAGAATAAAACCAGGGGAAAACTCATTTGGAATAGAA
1 AAACACAAGAAAAACTATACCCAAGATAGAGAATAAAACCAGGGGAAAACTCATTCGAAATAGAA
* * * *
55161515 AACATTGAAGAGATATTCAACTTAGAAGCTGCTTTGAATAGAGAACCATTACCAAATTAAACTTT
66 AACATTCAAAAAATATTCAACTTAGAAGCTGCTTTGAATAGAGAACCATTACCAAACTAAACTTT
*
55161580 CAAACTAAATTAAGAGGAAAACAATAGTAAGCAAACTGAATTGCTTTCACTTTTATACACAAAGT
131 CAAACTAAATTAAGAGGAAAACAATAGAAAGCAAACTGAATTGCTTTCACTTTTATACACAAAGT
55161645 ACATTG
196 ACATTG
* *
55161651 AAACACAAGAAAAGCTATTCCCAAGATAGAGAATAAAACCAGGAGAAAGGGAAAACTCATTCGAA
1 AAACACAAGAAAAACTATACCCAAGATAGAGAATAAAACC---AG---GGGAAAACTCATTCGAA
*
55161716 ATAG-AATCTATTCAAAAAATATTCAACTTA-AAGGCTGCTTTGAATAGAGAACCATTACCAAAC
60 ATAGAAAAC-ATTCAAAAAATATTCAACTTAGAA-GCTGCTTTGAATAGAGAACCATTACCAAAC
* *
55161779 TAAGCTTTCAAACTAAATTAAGAGGAAAATAATAGAAAGCAAACTGAATTG
123 TAAACTTTCAAACTAAATTAAGAGGAAAACAATAGAAAGCAAACTGAATTG
55161830 AAACATGGGC
Statistics
Matches: 159, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
201 38 0.24
204 2 0.01
206 5 0.03
207 114 0.72
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (201 bp):
AAACACAAGAAAAACTATACCCAAGATAGAGAATAAAACCAGGGGAAAACTCATTCGAAATAGAA
AACATTCAAAAAATATTCAACTTAGAAGCTGCTTTGAATAGAGAACCATTACCAAACTAAACTTT
CAAACTAAATTAAGAGGAAAACAATAGAAAGCAAACTGAATTGCTTTCACTTTTATACACAAAGT
ACATTG
Found at i:55164946 original size:19 final size:18
Alignment explanation
Indices: 55164896--55164953 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
55164886 AAATTATATA
*
55164896 TTAAATATATATTTTTATT
1 TTAAATATATATATTT-TT
* *
55164915 TTTAATCAAATATACTTTTT
1 TTAAAT-ATATATA-TTTTT
55164935 TTAAATATATATATTTTT
1 TTAAATATATATATTTTT
55164953 T
1 T
55164954 GGACTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 12 0.38
21 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATATATATATTTTT
Found at i:55168171 original size:79 final size:80
Alignment explanation
Indices: 55168081--55168241 Score: 315
Period size: 79 Copynumber: 2.0 Consensus size: 80
55168071 TAATAATACT
55168081 TAACTTGAAATTTGAATAACTCACTAGCCTTATTTAACTTTTCATATTTTTATATTATTAAATTA
1 TAACTTGAAATTTGAATAACTCACTAGCCTTATTTAACTTTTCATATTTTTATATTATTAAATTA
55168146 TGTT-TTACCCTTAA
66 TGTTATTACCCTTAA
55168160 TAACTTGAAATTTGAATAACTCACTAGCCTTATTTAACTTTTCATATTTTTATATTATTAAATTA
1 TAACTTGAAATTTGAATAACTCACTAGCCTTATTTAACTTTTCATATTTTTATATTATTAAATTA
55168225 TGTTATTACCCTTAA
66 TGTTATTACCCTTAA
55168240 TA
1 TA
55168242 TATTGTTAAC
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 69 0.85
80 12 0.15
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.48
Consensus pattern (80 bp):
TAACTTGAAATTTGAATAACTCACTAGCCTTATTTAACTTTTCATATTTTTATATTATTAAATTA
TGTTATTACCCTTAA
Found at i:55198985 original size:2 final size:2
Alignment explanation
Indices: 55198978--55199003 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55198968 TCTTTCCTTT
55198978 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
55199004 CTTGGGTTTT
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:55218986 original size:5 final size:5
Alignment explanation
Indices: 55218976--55219000 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55218966 GATAATTAGA
55218976 GCAAG GCAAG GCAAG GCAAG GCAAG
1 GCAAG GCAAG GCAAG GCAAG GCAAG
55219001 ATGGGCGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GCAAG
Found at i:55241883 original size:6 final size:6
Alignment explanation
Indices: 55241874--55241898 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55241864 TTGATGTGAG
55241874 GTGGAA GTGGAA GTGGAA GTGGAA G
1 GTGGAA GTGGAA GTGGAA GTGGAA G
55241899 GAGGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GTGGAA
Found at i:55242399 original size:3 final size:3
Alignment explanation
Indices: 55242391--55242416 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
55242381 TTAGGCTGCT
55242391 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
55242417 GCAATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:55255374 original size:29 final size:30
Alignment explanation
Indices: 55255342--55255402 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
55255332 TCACGTGTAT
55255342 AATTGCACA-AAATTAAAATTCATGTATAC
1 AATTGCACATAAATTAAAATTCATGTATAC
* *
55255371 AATTGTACATTAAATTAAAGTTCATGTATAC
1 AATTGCACA-TAAATTAAAATTCATGTATAC
55255402 A
1 A
55255403 TTTAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
31 20 0.71
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (30 bp):
AATTGCACATAAATTAAAATTCATGTATAC
Found at i:55278201 original size:25 final size:25
Alignment explanation
Indices: 55278173--55278227 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
55278163 GAAATTTAGC
* *
55278173 GTGCTCTCTGATTATTAGCACGTTA
1 GTGCTATCTGATTACTAGCACGTTA
55278198 GTGCTATCTGATTACTAGCACGTTA
1 GTGCTATCTGATTACTAGCACGTTA
55278223 GTGCT
1 GTGCT
55278228 TTCCGTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (25 bp):
GTGCTATCTGATTACTAGCACGTTA
Found at i:55283216 original size:119 final size:120
Alignment explanation
Indices: 55283005--55283249 Score: 465
Period size: 119 Copynumber: 2.0 Consensus size: 120
55282995 TGGACGCAAG
55283005 ACTTGGGATGGCCCCAAGCCTATCTCCATTGTCGGTTCAACTGGTTCCATTGGAAGTCAGGTGAA
1 ACTTGGGATGGCCCCAAGCCTATCTCCATTGTCGGTTCAACTGGTTCCATTGGAAGTCAGGTGAA
55283070 GTTAAAGGGGGAAAGAGAACTAT-AAAAAAAAAAATCTTTTACATACTGAAACTA
66 GTTAAAGGGGGAAAGAGAACTATAAAAAAAAAAAATCTTTTACATACTGAAACTA
55283124 ACTTGGGATGGCCCCAAGCCTATCTCCATTGTCGGTTCAACTGGTTCCATTGGAAGTCAGGTGAA
1 ACTTGGGATGGCCCCAAGCCTATCTCCATTGTCGGTTCAACTGGTTCCATTGGAAGTCAGGTGAA
55283189 GTTAAAGGGGGAAAGAGAACTATAAAAAAAAAAAAAATCTTTTACATACTGAAACTA
66 GTTAAAGGGGGAAAGAGAACTAT--AAAAAAAAAAAATCTTTTACATACTGAAACTA
55283246 ACTT
1 ACTT
55283250 CTTTCCGTTT
Statistics
Matches: 123, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
119 88 0.72
122 35 0.28
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (120 bp):
ACTTGGGATGGCCCCAAGCCTATCTCCATTGTCGGTTCAACTGGTTCCATTGGAAGTCAGGTGAA
GTTAAAGGGGGAAAGAGAACTATAAAAAAAAAAAATCTTTTACATACTGAAACTA
Found at i:55286507 original size:16 final size:15
Alignment explanation
Indices: 55286486--55286519 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
55286476 ATGAAAAGAT
55286486 AATAATTTAAATATAA
1 AATAA-TTAAATATAA
*
55286502 AATAATTCAATATAA
1 AATAATTAAATATAA
55286517 AAT
1 AAT
55286520 TTAACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTAAATATAA
Found at i:55302909 original size:32 final size:32
Alignment explanation
Indices: 55302866--55302929 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
55302856 TATTTTATTA
*
55302866 TTATTTAACCTATGAATTTAACCTATAAATAG
1 TTATTTAACCTACGAATTTAACCTATAAATAG
* *
55302898 TTATTTGACCTACGAATTTAGCCTATAAATAG
1 TTATTTAACCTACGAATTTAACCTATAAATAG
55302930 GATTTTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (32 bp):
TTATTTAACCTACGAATTTAACCTATAAATAG
Found at i:55305678 original size:50 final size:50
Alignment explanation
Indices: 55305619--55305728 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
55305609 ACACCACGGT
* * *
55305619 TCGTATGAGCTTACTGGT-TTGCAGCTC-GTGAGAGCTTATCGATTCTCAGC
1 TCGTATGAGCTTACCGGTATTGCAGCTCAGAG-GAGCTTATCGATTAT-AGC
* * *
55305669 TCGTATGAGCTTACCGTTATTTCAGCTCAGAGGAGCTTATCGTTTATAGC
1 TCGTATGAGCTTACCGGTATTGCAGCTCAGAGGAGCTTATCGATTATAGC
55305719 TCGTATGAGC
1 TCGTATGAGC
55305729 ATACATGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 29 0.56
51 21 0.40
52 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (50 bp):
TCGTATGAGCTTACCGGTATTGCAGCTCAGAGGAGCTTATCGATTATAGC
Found at i:55308950 original size:3 final size:3
Alignment explanation
Indices: 55308942--55308977 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
55308932 CCAATTTAAA
55308942 AAT AAT AAT AAT AA- AA- AAT AA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55308978 TAAGAAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.19
3 25 0.81
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:55310788 original size:4 final size:4
Alignment explanation
Indices: 55310781--55310836 Score: 67
Period size: 4 Copynumber: 13.8 Consensus size: 4
55310771 GAAAAGGAAG
* * * *
55310781 GAAA GAAA GAAA CGAAA CAGA GAAG GAAA GAAA GAAA GAAA AAAA GAAA
1 GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
55310830 GAAA GAA
1 GAAA GAA
55310837 GGAGAAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
4 39 0.91
5 4 0.09
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:55310806 original size:29 final size:29
Alignment explanation
Indices: 55310756--55310822 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
55310746 TGATAAAGTA
* *
55310756 AAAGAAAAAGAAATAGAAAAGGAAGGAAAG
1 AAAG-AAAAGAAACAGAAAAGGAAAGAAAG
* *
55310786 AAAGAAACGAAACAGAGAAGGAAAGAAAG
1 AAAGAAAAGAAACAGAAAAGGAAAGAAAG
55310815 AAAGAAAA
1 AAAGAAAA
55310823 AAAGAAAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.70, C:0.03, G:0.25, T:0.01
Consensus pattern (29 bp):
AAAGAAAAGAAACAGAAAAGGAAAGAAAG
Found at i:55310844 original size:20 final size:20
Alignment explanation
Indices: 55310782--55310844 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
55310772 AAAAGGAAGG
* *
55310782 AAAGAAAGAAACGAAACAGAG
1 AAAGAAAGAAA-GAAAGAGAA
* *
55310803 AAGGAAAGAAAGAAAGAAAA
1 AAAGAAAGAAAGAAAGAGAA
*
55310823 AAAGAAAGAAAGAAGGAGAA
1 AAAGAAAGAAAGAAAGAGAA
55310843 AA
1 AA
55310845 GTTAGGGTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
20 25 0.71
21 10 0.29
ACGTcount: A:0.71, C:0.03, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGAGAA
Found at i:55310986 original size:40 final size:38
Alignment explanation
Indices: 55310880--55310987 Score: 119
Period size: 37 Copynumber: 2.7 Consensus size: 38
55310870 CAGTTGGTTA
* *
55310880 GTCAATTTATTATTTCGGATTAATTCGATGAGGCACTGGGT
1 GTCAATTTATTA-TTC-GATTAATT-GATGAGACACTGAGT
* *
55310921 GTCAATTTACT-TTGGATTAATTGATGAGACACTGAGT
1 GTCAATTTATTATTCGATTAATTGATGAGACACTGAGT
*
55310958 GTCAATTTATTACTTCGATTTATCTGATGA
1 GTCAATTTATTA-TTCGATTAAT-TGATGA
55310988 AGCACTGGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
37 23 0.40
38 8 0.14
39 10 0.18
40 6 0.11
41 10 0.18
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (38 bp):
GTCAATTTATTATTCGATTAATTGATGAGACACTGAGT
Found at i:55311168 original size:20 final size:20
Alignment explanation
Indices: 55311143--55311182 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55311133 TTGAATATGG
55311143 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
55311163 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
55311183 AAATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCAT
Found at i:55313988 original size:3 final size:3
Alignment explanation
Indices: 55313982--55314007 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
55313972 TTAAAAGGAT
55313982 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
55314008 TTAACATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:55325047 original size:12 final size:10
Alignment explanation
Indices: 55325020--55325056 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
55325010 CAACTTAATC
55325020 ATTTCTCTCA
1 ATTTCTCTCA
55325030 ATTTCTCTCTA
1 ATTTCTCTC-A
55325041 ATATTCTCTCA
1 AT-TTCTCTCA
55325052 ATTTC
1 ATTTC
55325057 CTATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 12 0.48
11 6 0.24
12 7 0.28
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:55326776 original size:30 final size:30
Alignment explanation
Indices: 55326718--55326816 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 30
55326708 CGATGACGTA
* * *
55326718 GGCCCATCAACGAG-ACCCAGACATTCACCC
1 GGCCCAGCAAC-AGCACCCATACAATCACCC
* * * *
55326748 GGCCCATCATCAGCGCCCATACAATCACCA
1 GGCCCAGCAACAGCACCCATACAATCACCC
* *
55326778 GGCCCAGCAACAGCACCGATACAGTCACCC
1 GGCCCAGCAACAGCACCCATACAATCACCC
*
55326808 GACCCAGCA
1 GGCCCAGCA
55326817 GTTCAACGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 2 0.04
30 54 0.96
ACGTcount: A:0.30, C:0.43, G:0.17, T:0.09
Consensus pattern (30 bp):
GGCCCAGCAACAGCACCCATACAATCACCC
Found at i:55329297 original size:125 final size:124
Alignment explanation
Indices: 55329068--55329355 Score: 432
Period size: 125 Copynumber: 2.3 Consensus size: 124
55329058 CCAAACATGC
* * * *
55329068 GCTACTATAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGTACTTTTGCTGACAAAGTATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACG-AGGAGCGATTTCAGTACTTTTACTAACAAAGCATCCTG
* * * *
55329133 CTTAAAGTGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAGGA
65 CTTAAAGCGTTTTTAACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
* * *
55329193 GCTATTGTAGCAAAAGCGCGTCCACGAGGGAGCGATTTTAGTACTTTTACTAACAATGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGA-GGAGCGATTTCAGTACTTTTACTAACAAAGCATCCTG
* *
55329258 CTTAAAGCGTTTTTAACACTATTTGCTCAGAAACGTCTACTTAAAATTATTTTTTCAAGA
65 CTTAAAGCGTTTTTAACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
*
55329318 GCTACTGTAGCAAAAGCGCGTCCACGTGGAGCGATTTC
1 GCTACTGTAGCAAAAGCGCGTCCACGAGGAGCGATTTC
55329356 CTTAAAAAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
124 11 0.08
125 135 0.92
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (124 bp):
GCTACTGTAGCAAAAGCGCGTCCACGAGGAGCGATTTCAGTACTTTTACTAACAAAGCATCCTGC
TTAAAGCGTTTTTAACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
Found at i:55335797 original size:26 final size:26
Alignment explanation
Indices: 55335749--55335798 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
55335739 TTCTTCATTG
*
55335749 CTTTTGAAAAGTGCTGTGGAAAAGTA
1 CTTTTGAAAAGTGCTGTGAAAAAGTA
* * *
55335775 CTTTTGAGAAGTGCTTTTAAAAAG
1 CTTTTGAAAAGTGCTGTGAAAAAG
55335799 CTTGGTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (26 bp):
CTTTTGAAAAGTGCTGTGAAAAAGTA
Found at i:55338480 original size:188 final size:181
Alignment explanation
Indices: 55338156--55338523 Score: 567
Period size: 188 Copynumber: 2.0 Consensus size: 181
55338146 TAGCTGGGCT
* *
55338156 TAGAGGTGATCATGGGCCGTGCCGGGTTCGGGCCAGGCCCAGAAAAAATTTTAGGCTCATTTTCT
1 TAGAGGTGATCATGGGCCGGGCCGGGTTCGGGCCAGGCCCAGAAAAAATTTTAGGCCCATTTTCT
* *
55338221 AGGCCCGGTCGACTCGAAATATGGGCCTAAAAATTTATCCAAGCCTGGCCCAAAAGAAAATTGCT
66 AGGCCCGGCCGACCCGAAATATGGGCCTAAAAATTTATCCAAGCCTGGCCCAAAAGAAAATTGCT
*
55338286 AAGCCTAAACCCGACCCGGCCTAACCCGA-ATTATATATATATTTAATATAC
131 AAGCCTAAACCCGACCCGGCCTAACCC-ATATTAAATATATATTTAATATAC
* *** *
55338337 TAGAGGTGATCATGGGCCGGGCCGGGTTTGGGTTGGGCCCAGACAAAATTTTAGGCCCATTTTCT
1 TAGAGGTGATCATGGGCCGGGCCGGGTTCGGGCCAGGCCCAGAAAAAATTTTAGGCCCATTTTC-
55338402 AGGTCCAGGCCCGGCCCGACCCGAAATATGGGCCTAAAAATTTATCCAAGCCTGGCCCAAAAGAA
65 ---T--AGGCCCGG-CCGACCCGAAATATGGGCCTAAAAATTTATCCAAGCCTGGCCCAAAAGAA
55338467 AATTGCTAAGCCTAAACCCGACCCGGCCTAACCCATATTAAATATATATTTAATATA
124 AATTGCTAAGCCTAAACCCGACCCGGCCTAACCCATATTAAATATATATTTAATATA
55338524 TAATATATAT
Statistics
Matches: 169, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
181 57 0.34
185 1 0.01
187 9 0.05
188 102 0.60
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (181 bp):
TAGAGGTGATCATGGGCCGGGCCGGGTTCGGGCCAGGCCCAGAAAAAATTTTAGGCCCATTTTCT
AGGCCCGGCCGACCCGAAATATGGGCCTAAAAATTTATCCAAGCCTGGCCCAAAAGAAAATTGCT
AAGCCTAAACCCGACCCGGCCTAACCCATATTAAATATATATTTAATATAC
Found at i:55339567 original size:42 final size:42
Alignment explanation
Indices: 55339503--55339583 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
55339493 TATTTTCGTC
* * *
55339503 CACACGGGCAGAGACATGGGCGTGT-GTCTCAGCTGTGTGTGA
1 CACACGGCCAGAGACATCGGCGTGTAGTCT-AGCCGTGTGTGA
55339545 CACACGGCCAG-GCACATCGGCGTGTAGTCTAGCCGTGTG
1 CACACGGCCAGAG-ACATCGGCGTGTAGTCTAGCCGTGTG
55339584 ACCCTTACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 29 0.85
43 4 0.12
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.20
Consensus pattern (42 bp):
CACACGGCCAGAGACATCGGCGTGTAGTCTAGCCGTGTGTGA
Found at i:55343588 original size:24 final size:24
Alignment explanation
Indices: 55343561--55343623 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
55343551 ATCCGGGCAA
55343561 TATAACGGG-AGCTCACAAAGAGCC
1 TATAACGGGTAGCTC-CAAAGAGCC
*
55343585 TATAACGGGTAGCTCCGAAGAG-C
1 TATAACGGGTAGCTCCAAAGAGCC
*
55343608 AATTAACGGGTAGCTC
1 TA-TAACGGGTAGCTC
55343624 TGAAAAGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 28 0.80
25 5 0.14
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.17
Consensus pattern (24 bp):
TATAACGGGTAGCTCCAAAGAGCC
Found at i:55343632 original size:24 final size:24
Alignment explanation
Indices: 55343587--55343633 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
55343577 AAAGAGCCTA
*
55343587 TAACGGGTAGCTCCGAAGAGCAAT
1 TAACGGGTAGCTCCGAAAAGCAAT
*
55343611 TAACGGGTAGCTCTGAAAAGCAA
1 TAACGGGTAGCTCCGAAAAGCAA
55343634 GTAGTCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (24 bp):
TAACGGGTAGCTCCGAAAAGCAAT
Found at i:55345477 original size:13 final size:13
Alignment explanation
Indices: 55345438--55345477 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
55345428 AGTTCTTCAT
55345438 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
55345451 TGCTGTGGAGAAG
1 TGCTTTTGAAAAG
55345464 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
55345477 T
1 T
55345478 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:55355566 original size:30 final size:30
Alignment explanation
Indices: 55355524--55355581 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
55355514 ATTCACATCT
55355524 AAAAATAATTATAATGATTATTA-GATATTC
1 AAAAATAATTATAAT-ATTATTATGATATTC
*
55355554 AAAAA-AATTTATAATTTTATTATGATAT
1 AAAAATAA-TTATAATATTATTATGATAT
55355582 GAATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (30 bp):
AAAAATAATTATAATATTATTATGATATTC
Found at i:55365372 original size:25 final size:24
Alignment explanation
Indices: 55365344--55365391 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
55365334 ATCCGGGCAA
55365344 TATAACAGGAAGCTCACAAAGAGCC
1 TATAACAGGAAGCTC-CAAAGAGCC
* *
55365369 TATAACGGGTAGCTCCAAAGAGC
1 TATAACAGGAAGCTCCAAAGAGC
55365392 AATTAATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
TATAACAGGAAGCTCCAAAGAGCC
Found at i:55365494 original size:25 final size:26
Alignment explanation
Indices: 55365465--55365514 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
55365455 TAAGCGAGCA
55365465 CTAA-TGGGAAGCTCACAAAGAGCCT
1 CTAATTGGGAAGCTCACAAAGAGCCT
*
55365490 CTAATTGGGAAGCTCACGAAGAGCC
1 CTAATTGGGAAGCTCACAAAGAGCC
55365515 ATATAACGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (26 bp):
CTAATTGGGAAGCTCACAAAGAGCCT
Found at i:55365525 original size:26 final size:26
Alignment explanation
Indices: 55365466--55365531 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
55365456 AAGCGAGCAC
*
55365466 TAAT-GGGAAGCTCACAAAGAGCCTC
1 TAATCGGGAAGCTCACAAAGAGCCTA
* *
55365491 TAATTGGGAAGCTCACGAAGAGCCATA
1 TAATCGGGAAGCTCACAAAGAGCC-TA
*
55365518 TAA-CGGGACGCTCA
1 TAATCGGGAAGCTCA
55365532 TAAGAGCTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.11
26 27 0.77
27 4 0.11
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (26 bp):
TAATCGGGAAGCTCACAAAGAGCCTA
Found at i:55367581 original size:7 final size:7
Alignment explanation
Indices: 55367569--55367593 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55367559 TATTATAATA
55367569 TTAAAAG
1 TTAAAAG
55367576 TTAAAAG
1 TTAAAAG
55367583 TTAAAAG
1 TTAAAAG
55367590 TTAA
1 TTAA
55367594 GTATATATAT
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:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
TTAAAAG
Found at i:55367663 original size:17 final size:16
Alignment explanation
Indices: 55367641--55367689 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
55367631 AAAAAGAAGG
55367641 AGAGAAAGAAACGAAAA
1 AGAGAAAGAAA-GAAAA
*
55367658 AGAGAAGGAAAGAAAGA
1 AGAGAAAGAAAGAAA-A
* *
55367675 AAAGAAAAAAAGAAA
1 AGAGAAAGAAAGAAA
55367690 GAAAGAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAGAAAA
Found at i:55367671 original size:25 final size:24
Alignment explanation
Indices: 55367621--55367705 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 24
55367611 TTATAATGAT
*
55367621 AAAGTAAAAG-AAAAAGAAGGAGAG
1 AAAG-AAAAGAAAAAAGAAGGAAAG
*
55367645 AAAGAAACGAAAAAGAGAAGGAAAG
1 AAAGAAAAGAAAAA-AGAAGGAAAG
*
55367670 AAAGAAAAGAAAAAAAGAAAGAAAG
1 AAAGAAAAG-AAAAAAGAAGGAAAG
55367695 AAGGAGAAAAG
1 AA--AGAAAAG
55367706 TTAGGGTTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 28 0.54
26 5 0.10
27 7 0.13
ACGTcount: A:0.71, C:0.01, G:0.27, T:0.01
Consensus pattern (24 bp):
AAAGAAAAGAAAAAAGAAGGAAAG
Found at i:55367674 original size:4 final size:4
Alignment explanation
Indices: 55367633--55367696 Score: 58
Period size: 4 Copynumber: 15.5 Consensus size: 4
55367623 AGTAAAAGAA
* * * *
55367633 AAAG AAGG AGAG AAAG AAACG AAA- AAGAG AAGG AAAG AAAG AAAAG AAAA
1 AAAG AAAG AAAG AAAG AAA-G AAAG AA-AG AAAG AAAG AAAG -AAAG AAAG
55367683 AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AA
55367697 GGAGAAAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
3 2 0.04
4 36 0.75
5 10 0.21
ACGTcount: A:0.72, C:0.02, G:0.27, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:55367979 original size:29 final size:28
Alignment explanation
Indices: 55367927--55367981 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
55367917 AATTGTAGAA
*
55367927 TAAATTGTAAATTTTGAGTATTAGGGGC
1 TAAATTGTAAATTTTGAATATTAGGGGC
55367955 TAAATTGTGAAATTTTGAA-ATTTAGGG
1 TAAATTGT-AAATTTTGAATA-TTAGGG
55367982 ATATAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.40
Consensus pattern (28 bp):
TAAATTGTAAATTTTGAATATTAGGGGC
Found at i:55368570 original size:37 final size:38
Alignment explanation
Indices: 55368481--55368582 Score: 125
Period size: 37 Copynumber: 2.6 Consensus size: 38
55368471 TTCGAGTCGG
* *
55368481 TGAGACACTGAGTGTCAATTTATTACTTTGGATTAATTCGA
1 TGAGACACTGGGTGTCAATTTA-T--TTTGGATTAACTCGA
* * *
55368522 TGAGGCACTGGGTGCCAATTTATTTTGGTTTAACT-GA
1 TGAGACACTGGGTGTCAATTTATTTTGGATTAACTCGA
55368559 TGAGACACTGGGTGTCAATTTATT
1 TGAGACACTGGGTGTCAATTTATT
55368583 ACTTCGATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.44
38 10 0.19
40 1 0.02
41 19 0.35
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (38 bp):
TGAGACACTGGGTGTCAATTTATTTTGGATTAACTCGA
Found at i:55368609 original size:40 final size:39
Alignment explanation
Indices: 55368487--55368611 Score: 123
Period size: 37 Copynumber: 3.2 Consensus size: 39
55368477 TCGGTGAGAC
* * *
55368487 ACTGAGTGTCAATTTATTACTTTGGATTAAT-TCGATGAGGC
1 ACTGGGTGTCAATTTATTAC-TT-GATTTATCT-GATGAGGA
* * *
55368528 ACTGGGTGCCAATTTATT--TTGGTTTAACTGATGA-GA
1 ACTGGGTGTCAATTTATTACTTGATTTATCTGATGAGGA
55368564 CACTGGGTGTCAATTTATTACTTCGATTTATCTGATGAGGA
1 -ACTGGGTGTCAATTTATTACTT-GATTTATCTGATGAGGA
55368605 ACTGGGT
1 ACTGGGT
55368612 ACCAAATGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
36 1 0.01
37 26 0.38
38 3 0.04
39 2 0.03
40 19 0.28
41 18 0.26
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (39 bp):
ACTGGGTGTCAATTTATTACTTGATTTATCTGATGAGGA
Found at i:55372524 original size:25 final size:25
Alignment explanation
Indices: 55372442--55372601 Score: 183
Period size: 25 Copynumber: 6.6 Consensus size: 25
55372432 ATATTATGCA
**
55372442 CTAATGAA-CAGAGAGCACTGACGTG
1 CTAAT-AATCAGAGAGCACCAACGTG
55372467 CT-AT-A-CAGAGAGCA-CAGACGTG
1 CTAATAATCAGAGAGCACCA-ACGTG
**
55372489 C---TAATCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACCAACGTG
*
55372511 CTAGTAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACCAACGTG
*
55372536 CTAACAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACCAACGTG
55372561 CTAATAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACCAACGTG
*
55372586 TTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
55372602 GCGCTAAAGT
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 31 0.26
24 2 0.02
25 83 0.70
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACCAACGTG
Found at i:55380343 original size:25 final size:24
Alignment explanation
Indices: 55380276--55380343 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
55380266 ATGAAAATGT
*
55380276 TATTGTATAAATAAAATTA-CAAA
1 TATTGTAAAAATAAAATTATCAAA
* * * *
55380299 TA-TATAAAAATGGAATTTATGAATA
1 TATTGTAAAAAT-AAAATTATCAA-A
55380324 TATTGTAAAAATAAAATTAT
1 TATTGTAAAAATAAAATTAT
55380344 AAAAATGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 7 0.21
23 7 0.21
24 2 0.06
25 9 0.27
26 8 0.24
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (24 bp):
TATTGTAAAAATAAAATTATCAAA
Done.