Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 27 of 135
Found at i:6978949 original size:39 final size:44
Alignment explanation
Indices: 6978894--6978998 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
6978884 TTTCTTATGC
*
6978894 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
6978933 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
6978979 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
6978999 ACAGCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:6978997 original size:46 final size:44
Alignment explanation
Indices: 6978905--6978998 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
6978895 ATTACAGCAT
* *
6978905 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
6978949 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
6978995 CATT
1 CATT
6978999 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:6979001 original size:16 final size:16
Alignment explanation
Indices: 6978980--6979051 Score: 117
Period size: 16 Copynumber: 4.5 Consensus size: 16
6978970 TGAATTACTG
6978980 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
6978996 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
6979012 ATTACAGTTTTATTCC
1 ATTACAGCTCTATTCC
*
6979028 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
6979044 ATTACAGC
1 ATTACAGC
6979052 GAACCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6982070 original size:25 final size:24
Alignment explanation
Indices: 6982013--6982071 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
6982003 TAAAGTAGGT
* *
6982013 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
6982036 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
6982060 TATTTTAATAAT
1 TATATT-ATAAT
6982072 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:6982093 original size:58 final size:58
Alignment explanation
Indices: 6982039--6982199 Score: 168
Period size: 58 Copynumber: 2.8 Consensus size: 58
6982029 AATATTATAT
6982039 ATTATAATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATGTTATTAAATTA
1 ATTATAA-TTTTACTAAATT-ATA-TTTAATAATAATTATATTAAAAATGTTATTAAATTA
* * * * * *
6982099 ATTATTATTTTATTAAATTGTATTTAATAATAATTATGTT-AAAATATAATTAAATTA
1 ATTATAATTTTACTAAATTATATTTAATAATAATTATATTAAAAATGTTATTAAATTA
* * *
6982156 TTTATTATTTTTATTAAATTATA-TTAATAATAATCT-TATTAAAA
1 ATTA-TAATTTTACTAAATTATATTTAATAATAAT-TATATTAAAA
6982200 TTTAATAACA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
57 32 0.37
58 36 0.42
59 8 0.09
60 10 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (58 bp):
ATTATAATTTTACTAAATTATATTTAATAATAATTATATTAAAAATGTTATTAAATTA
Found at i:6982163 original size:57 final size:59
Alignment explanation
Indices: 6982039--6982199 Score: 197
Period size: 57 Copynumber: 2.8 Consensus size: 59
6982029 AATATTATAT
* * * *
6982039 ATTATAATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATGTTATTAAATTA
1 ATTATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAAATATAATTAAATTA
* *
6982099 ATTATTA-TTTTATTAAATTGTATTTAATAATAATTATGTT-AAAATATAATTAAATTA
1 ATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAAATTA
*
6982156 TTTATTATTTTTATTAAATTATA-TTAATAATAATCT-TATTAAAA
1 ATTATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAA
6982200 TTTAATAACA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
57 35 0.40
58 35 0.40
59 8 0.09
60 10 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
ATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAAATTA
Found at i:6982341 original size:44 final size:46
Alignment explanation
Indices: 6982283--6982376 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 46
6982273 TGCTATTACA
6982283 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTAATTACAGCTCTATTC
* * *
6982327 CATTCCATTTAACCAAACAATTGAATTACTAATTACAGCTCTATTT
1 CATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTATTC
6982373 CATT
1 CATT
6982377 ATAGTTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 4 0.09
46 18 0.41
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTATTC
Found at i:6982401 original size:16 final size:16
Alignment explanation
Indices: 6982358--6982411 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
6982348 TGAATTACTA
6982358 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTTC
* * *
6982374 ATTATAGTTCTATTTT
1 ATTACAGCTCTATTTC
* *
6982390 ATTACAACTCTATTCC
1 ATTACAGCTCTATTTC
6982406 ATTACA
1 ATTACA
6982412 TCGAACCAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:6993000 original size:19 final size:16
Alignment explanation
Indices: 6992961--6992994 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6992951 TAAAAAATAG
6992961 TAAAA-TAATTAAAAT
1 TAAAATTAATTAAAAT
6992976 TAAAATTAATATAAAAT
1 TAAAATTAAT-TAAAAT
6992993 TA
1 TA
6992995 TAAAATCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTAATTAAAAT
Found at i:6994814 original size:21 final size:21
Alignment explanation
Indices: 6994786--6994830 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
6994776 TCTTAAAAAA
*
6994786 AAATTT-AAAAATTATATTAT
1 AAATTTAAAAAATTACATTAT
6994806 AAATCTTAAAAAATTACATTAT
1 AAAT-TTAAAAAATTACATTAT
6994828 AAA
1 AAA
6994831 AAAATTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 2 0.09
22 16 0.73
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTAAAAAATTACATTAT
Found at i:7002250 original size:6 final size:6
Alignment explanation
Indices: 7002241--7002281 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
7002231 TCAATTCCAA
*
7002241 TTTCAC TTTCTC TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
1 TTTCAC TTTCAC TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
7002282 ATTTTGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.32, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTCAC
Found at i:7010731 original size:2 final size:2
Alignment explanation
Indices: 7010724--7010757 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7010714 ATCAGGATAA
7010724 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
7010758 TGTAGTTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7010890 original size:4 final size:4
Alignment explanation
Indices: 7010881--7010908 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7010871 TGAGTATATT
7010881 GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA
7010909 TGATGTACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
GATA
Found at i:7020028 original size:93 final size:93
Alignment explanation
Indices: 7019917--7020126 Score: 411
Period size: 93 Copynumber: 2.2 Consensus size: 93
7019907 AACAGTCATT
7019917 AAATAATTTAATTTCAAAAAATTTAATAAAAAAATACCAGAATAACGGTCATTAAAAGATATAAA
1 AAAT-ATTTAATTTCAAAAAATTTAATAAAAAAATACCAGAATAACGGTCATTAAAAGATATAAA
7019982 CTTCTTCAACTTAAAAGATATGGTGACTA
65 CTTCTTCAACTTAAAAGATATGGTGACTA
7020011 AAATATTTAATTTCAAAAAATTTAATAAAAAAATACCAGAATAACGGTCATTAAAAGATATAAAC
1 AAATATTTAATTTCAAAAAATTTAATAAAAAAATACCAGAATAACGGTCATTAAAAGATATAAAC
7020076 TTCTTCAACTTAAAAGATATGGTGACTA
66 TTCTTCAACTTAAAAGATATGGTGACTA
7020104 AAATATTTAATTTCAAAAAATTT
1 AAATATTTAATTTCAAAAAATTT
7020127 CAACCATTAA
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 112 0.97
94 4 0.03
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (93 bp):
AAATATTTAATTTCAAAAAATTTAATAAAAAAATACCAGAATAACGGTCATTAAAAGATATAAAC
TTCTTCAACTTAAAAGATATGGTGACTA
Found at i:7020970 original size:6 final size:6
Alignment explanation
Indices: 7020961--7021018 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
7020951 TAAAATTAGG
* ** *
7020961 TTTAAA TTT-AT TTTAAA TTTAAA TTT-GC TTTAAA TTTGAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7021006 -TTAAA TTTAAA TT
1 TTTAAA TTTAAA TT
7021019 GATTTAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
4 2 0.05
5 11 0.27
6 28 0.68
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:7020983 original size:17 final size:17
Alignment explanation
Indices: 7020961--7021023 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
7020951 TAAAATTAGG
7020961 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
7020978 TTTAAATTTGCTTTAAA
1 TTTAAATTTATTTTAAA
* *
7020995 TTTGAATTTA-ATTAAA
1 TTTAAATTTATTTTAAA
*
7021011 TTTAAATTGATTT
1 TTTAAATTTATTT
7021024 AAAAACTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
16 13 0.35
17 24 0.65
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:7021023 original size:10 final size:11
Alignment explanation
Indices: 7020977--7021026 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
7020967 TTTATTTTAA
7020977 ATTTAAATTTG
1 ATTTAAATTTG
*
7020988 CTTTAAATTTG
1 ATTTAAATTTG
**
7020999 AATTT-AATTAA
1 -ATTTAAATTTG
7021010 ATTTAAA-TTG
1 ATTTAAATTTG
7021020 ATTTAAA
1 ATTTAAA
7021027 AACTTGATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 12 0.39
11 16 0.52
12 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (11 bp):
ATTTAAATTTG
Found at i:7023038 original size:29 final size:30
Alignment explanation
Indices: 7022990--7023180 Score: 137
Period size: 29 Copynumber: 6.5 Consensus size: 30
7022980 CTAAACTATT
* *
7022990 CAAAAATTATA-TTTTAACCCCGAAACATC
1 CAAAAATTACATTTTTAACCCCGAAACTTC
* *
7023019 CAAAAATTACATTATT-ACCCCTAAACTTC
1 CAAAAATTACATTTTTAACCCCGAAACTTC
* * * ** *
7023048 TAAAAATTCCATTTTTGACCTTGAAACTTT
1 CAAAAATTACATTTTTAACCCCGAAACTTC
*
7023078 CAAAAATTACATTTTTACCCCCG-AACTTC
1 CAAAAATTACATTTTTAACCCCGAAACTTC
* * ** *
7023107 C-AAAATTCCATTTTTGACCTTGAAACTTT
1 CAAAAATTACATTTTTAACCCCGAAACTTC
* *
7023136 AAAAAATTAC-TCTTTTACCCCCGAATA-TT-
1 CAAAAATTACAT-TTTTAACCCCGAA-ACTTC
7023165 CAAAAATT-CTATTTTT
1 CAAAAATTAC-ATTTTT
7023181 GATCCTGATT
Statistics
Matches: 123, Mismatches: 31, Indels: 16
0.72 0.18 0.09
Matches are distributed among these distances:
28 17 0.14
29 57 0.46
30 48 0.39
31 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
CAAAAATTACATTTTTAACCCCGAAACTTC
Found at i:7023074 original size:59 final size:58
Alignment explanation
Indices: 7023011--7023182 Score: 195
Period size: 59 Copynumber: 2.9 Consensus size: 58
7023001 TTTTAACCCC
*
7023011 GAAACATCCAAAAATTACATTATTACCCCTAAACTTCTAAAAATTCCATTTTTGACCTT
1 GAAACATCCAAAAATTACATTATTACCCCCAAACTTC-AAAAATTCCATTTTTGACCTT
* * * * *
7023070 GAAACTTTCAAAAATTACATTTTTACCCCCGAACTTCCAAAATTCCATTTTTGACCTT
1 GAAACATCCAAAAATTACATTATTACCCCCAAACTTCAAAAATTCCATTTTTGACCTT
* ** * *
7023128 GAAACTTTAAAAAATTAC-TCTTTTACCCCCGAATA-TTCAAAAATTCTATTTTTGA
1 GAAACATCCAAAAATTACAT-TATTACCCCC-AA-ACTTCAAAAATTCCATTTTTGA
7023183 TCCTGATTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
57 1 0.01
58 47 0.47
59 51 0.51
60 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (58 bp):
GAAACATCCAAAAATTACATTATTACCCCCAAACTTCAAAAATTCCATTTTTGACCTT
Found at i:7023083 original size:30 final size:29
Alignment explanation
Indices: 7023041--7023140 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 29
7023031 TATTACCCCT
7023041 AAACTTCTAAAAATTCCATTTTTGACCTTG
1 AAACTTC-AAAAATTCCATTTTTGACCTTG
* **
7023071 AAACTTTCAAAAATTACATTTTT-ACCCCCG
1 AAAC-TTCAAAAATTCCATTTTTGA-CCTTG
*
7023101 -AACTTCCAAAATTCCATTTTTGACCTTG
1 AAACTTCAAAAATTCCATTTTTGACCTTG
*
7023129 AAACTTTAAAAA
1 AAACTTCAAAAA
7023141 ATTACTCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
28 19 0.33
29 14 0.25
30 21 0.37
31 3 0.05
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (29 bp):
AAACTTCAAAAATTCCATTTTTGACCTTG
Found at i:7023133 original size:58 final size:58
Alignment explanation
Indices: 7023019--7023182 Score: 231
Period size: 58 Copynumber: 2.8 Consensus size: 58
7023009 CCGAAACATC
* **
7023019 CAAAAATTACATTATTACCCCTAAACTTCTAAAAATTCCATTTTTGACCTTGAAACTTT
1 CAAAAATTACATTTTTACCCCCGAACTTC-AAAAATTCCATTTTTGACCTTGAAACTTT
*
7023078 CAAAAATTACATTTTTACCCCCGAACTTCCAAAATTCCATTTTTGACCTTGAAACTTT
1 CAAAAATTACATTTTTACCCCCGAACTTCAAAAATTCCATTTTTGACCTTGAAACTTT
* * *
7023136 AAAAAATTAC-TCTTTTACCCCCGAATATTCAAAAATTCTATTTTTGA
1 CAAAAATTACAT-TTTTACCCCCGAA-CTTCAAAAATTCCATTTTTGA
7023183 TCCTGATTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 1 0.01
58 50 0.53
59 44 0.46
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTACATTTTTACCCCCGAACTTCAAAAATTCCATTTTTGACCTTGAAACTTT
Found at i:7023253 original size:28 final size:29
Alignment explanation
Indices: 7023197--7023257 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
7023187 GATTTTTCTA
* *
7023197 AAAATTACCGTTTTGCCCCTCGAGAGTCC
1 AAAATTACCATTTTGACCCTCGAGAGTCC
* *
7023226 AAAATTACCATTTT-ACCCTCGGGTGTCC
1 AAAATTACCATTTTGACCCTCGAGAGTCC
7023254 AAAA
1 AAAA
7023258 AGTCTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
AAAATTACCATTTTGACCCTCGAGAGTCC
Found at i:7023258 original size:29 final size:30
Alignment explanation
Indices: 7023196--7023258 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
7023186 TGATTTTTCT
* *
7023196 AAAAATTACCGTTTTGCCCCTCGAGAGTCC
1 AAAAATTACCATTTTGACCCTCGAGAGTCC
* *
7023226 -AAAATTACCATTTT-ACCCTCGGGTGTCC
1 AAAAATTACCATTTTGACCCTCGAGAGTCC
7023254 AAAAA
1 AAAAA
7023259 GTCTCATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (30 bp):
AAAAATTACCATTTTGACCCTCGAGAGTCC
Found at i:7025616 original size:120 final size:120
Alignment explanation
Indices: 7025403--7025643 Score: 437
Period size: 120 Copynumber: 2.0 Consensus size: 120
7025393 CATGAAAATT
* * *
7025403 ATTGAATTATAGCTTATAACTTATATGTGTTTATGTGAAATTGAAGAGAAAGAGATGAGAGGCAA
1 ATTGAATTATAGCTTATAACTTATATGTGTTTATGTGAAATTGAAGAAAAAGAGAAGAGAGACAA
*
7025468 GGATCAAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGAGTGGAAAGAGAAGAAA
66 GGATCAAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGAGTGCAAAGAGAAGAAA
*
7025523 ATTGAATTATAGCTTATAGCTTATATGTGTTTATGTGAAATTGAAGAAAAAGAGAAGAGAGACAA
1 ATTGAATTATAGCTTATAACTTATATGTGTTTATGTGAAATTGAAGAAAAAGAGAAGAGAGACAA
7025588 GGATCAAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGAGTGCAAAGAGAAGAAA
66 GGATCAAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGAGTGCAAAGAGAAGAAA
7025643 A
1 A
7025644 CCAGCTTTTT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.49, C:0.05, G:0.27, T:0.20
Consensus pattern (120 bp):
ATTGAATTATAGCTTATAACTTATATGTGTTTATGTGAAATTGAAGAAAAAGAGAAGAGAGACAA
GGATCAAATTGAAGAGAAAGGAAAAGAGAAGAGCAAAGAGTGCAAAGAGAAGAAA
Found at i:7030769 original size:11 final size:10
Alignment explanation
Indices: 7030753--7030807 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
7030743 AAATATAATG
7030753 AAGAAAAAATA
1 AAGAAAAAA-A
*
7030764 AAGAAAAAAG
1 AAGAAAAAAA
7030774 AAGAAAAGAAA
1 AAGAAAA-AAA
*
7030785 AAG-AGAAAA
1 AAGAAAAAAA
7030794 AAGAAAAAGAA
1 AAGAAAAA-AA
7030805 AAG
1 AAG
7030808 GAGAGGTCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 6 0.16
10 12 0.32
11 19 0.51
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:7030775 original size:7 final size:7
Alignment explanation
Indices: 7030763--7030806 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
7030753 AAGAAAAAAT
7030763 AAAGAAA
1 AAAGAAA
7030770 AAAGAAGA
1 AAAGAA-A
7030778 AAAGAAA
1 AAAGAAA
7030785 AAGAGAAA
1 AA-AGAAA
7030793 AAAG-AA
1 AAAGAAA
7030799 AAAGAAA
1 AAAGAAA
7030806 A
1 A
7030807 GGAGAGGTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.18
7 14 0.41
8 14 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:7030777 original size:21 final size:20
Alignment explanation
Indices: 7030752--7030807 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
7030742 CAAATATAAT
7030752 GAAGAAAAAATAAAGAAAAAA
1 GAAGAAAAAA-AAAGAAAAAA
*
7030773 GAAGAAAAGAAAAAGAGAAAA
1 GAAGAAAA-AAAAAGAAAAAA
7030794 -AAGAAAAAGAAAAG
1 GAAGAAAAA-AAAAG
7030808 GAGAGGTCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.03
20 12 0.38
21 17 0.53
22 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
GAAGAAAAAAAAAGAAAAAA
Found at i:7030783 original size:15 final size:15
Alignment explanation
Indices: 7030763--7030803 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
7030753 AAGAAAAAAT
7030763 AAAGAAAAA-AGAAGA
1 AAAGAAAAAGAGAA-A
7030778 AAAGAAAAAGAGAAA
1 AAAGAAAAAGAGAAA
7030793 AAAGAAAAAGA
1 AAAGAAAAAGA
7030804 AAAGGAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAGAAA
Found at i:7030803 original size:26 final size:26
Alignment explanation
Indices: 7030753--7030807 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
7030743 AAATATAATG
*
7030753 AAGAAAAAATAAAGAAAAAAGAAGAA
1 AAGAAAAAAGAAAGAAAAAAGAAGAA
7030779 AAGAAAAAGAGAAA-AAAGAAA-AAGAA
1 AAGAAAAA-AGAAAGAAA-AAAGAAGAA
7030805 AAG
1 AAG
7030808 GAGAGGTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (26 bp):
AAGAAAAAAGAAAGAAAAAAGAAGAA
Found at i:7030811 original size:21 final size:23
Alignment explanation
Indices: 7030765--7030811 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
7030755 GAAAAAATAA
7030765 AGAAAAAAGAAGAAAAGAAAAAG
1 AGAAAAAAGAAGAAAAGAAAAAG
*
7030788 AGAAAAAAG-A-AAAAGAAAAGG
1 AGAAAAAAGAAGAAAAGAAAAAG
7030809 AGA
1 AGA
7030812 GGTCGAGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 1 0.04
23 9 0.39
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AGAAAAAAGAAGAAAAGAAAAAG
Found at i:7032153 original size:51 final size:51
Alignment explanation
Indices: 7031959--7032220 Score: 243
Period size: 51 Copynumber: 5.3 Consensus size: 51
7031949 CAGGTTTGAC
* * * *
7031959 AGGGAAAAATCTAAG-CCTCGACGACGGATCCAGTACCACAAA-A-ACACGA
1 AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACAAAGATACA-GA
* * * * * * **
7032008 AGGGAAAGATCTAAGACCATAACGGCGGATCCAGTATCGCGAAG--ACACC
1 AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACAAAGATACAGA
* * * * * *
7032057 AGGGAAAAATCTAAG-CCTCGACGGCGGATCCAGTACCACAAAGATATAGA
1 AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACAAAGATACAGA
* * * *
7032107 AGGGAAAGATCTAAGACCGCAACGACAGATCCAATACCACACAGATACAGG
1 AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACAAAGATACAGA
* *
7032158 AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACGAAG--ACACA
1 AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACAAAGATACAGA
7032207 AGGGAAAGATCTAA
1 AGGGAAAGATCTAA
7032221 ATCGCGACGG
Statistics
Matches: 173, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
48 22 0.13
49 45 0.26
50 39 0.23
51 67 0.39
ACGTcount: A:0.42, C:0.24, G:0.23, T:0.11
Consensus pattern (51 bp):
AGGGAAAGATCTAAGACCACAACGACGGATCCAATACCACAAAGATACAGA
Found at i:7032257 original size:28 final size:28
Alignment explanation
Indices: 7032225--7032283 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
7032215 ATCTAAATCG
*
7032225 CGACGGCGGATCCAGTACCTTAAAAACA
1 CGACGGCGGATCCAGTACCTCAAAAACA
7032253 CGACGGCGGATCCAGTACCTCAAAAACA
1 CGACGGCGGATCCAGTACCTCAAAAACA
7032281 CGA
1 CGA
7032284 TGGGAAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.12
Consensus pattern (28 bp):
CGACGGCGGATCCAGTACCTCAAAAACA
Found at i:7032342 original size:49 final size:48
Alignment explanation
Indices: 7032261--7032394 Score: 126
Period size: 48 Copynumber: 2.8 Consensus size: 48
7032251 CACGACGGCG
* * * * *
7032261 GATCCAGTACCTCAAAAACACGATGGGAAAGATCTAAAAC-CGTAATAGA
1 GATCCAGTACCACGAAGACAC-AAGGGAAAGATCTAAAACGCG-AAGAGA
* * * ** * *
7032310 GGATCCAGTATCGCGAAGACATAAGGGAAAGATCTAAGTCGCGACGATA
1 -GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAAACGCGAAGAGA
7032359 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAA
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAA
7032395 GCCGCAACGG
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
48 33 0.48
49 18 0.26
50 18 0.26
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (48 bp):
GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAAACGCGAAGAGA
Found at i:7032375 original size:48 final size:47
Alignment explanation
Indices: 7032311--7032450 Score: 145
Period size: 48 Copynumber: 2.9 Consensus size: 47
7032301 CGTAATAGAG
* * * *
7032311 GATCCAGTATCGCGAAGACATAAGGGAAAGATCTAAGTCGCGACGATA
1 GATCCAGTACCACGAAGACATAAGGGAAAGATCTAAGTCGCAACG-GA
* * *
7032359 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGC
1 GATCCAGTACCACGAAGACATAAGGGAAAGATCTAAGTCGCAACGGA
* ** * *
7032406 GAATCCAGTACCATGAAGATTTGAAGGGAAAGGTTTAAGTCGCAA
1 G-ATCCAGTACCACGAAGACAT-AAGGGAAAGATCTAAGTCGCAA
7032451 TGGTGAACCC
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 56 0.74
49 19 0.25
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (47 bp):
GATCCAGTACCACGAAGACATAAGGGAAAGATCTAAGTCGCAACGGA
Found at i:7033449 original size:206 final size:206
Alignment explanation
Indices: 7033081--7033525 Score: 746
Period size: 206 Copynumber: 2.2 Consensus size: 206
7033071 GGTCGAAGCA
* * *
7033081 AAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAATGCGGTCA
1 AAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGCAATGCGGTCA
7033146 TCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
66 TCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
* ** *
7033211 AACCCCAGCTTCCTAATGAGATACTAAGAAGCAAGTTGAAGCAATAAAATGGTTAGCTTCCTGAT
131 AACCCCAGCTTCCTAATAAGATACTAAGAAGCAAGTCAAAGCAATAAAATGGTTAGCTTCCTGAC
*
7033276 GAGATACTGAG
196 GAGATACTAAG
7033287 AAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGCAATGCGGTCA
1 AAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGCAATGCGGTCA
* *
7033352 TCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACTCTCGATGTGAGCAAATCTTCG
66 TCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
* * * *
7033417 AACCCCAGCTTCCTGATAAGGTACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGAC
131 AACCCCAGCTTCCTAATAAGATACTAAGAAGCAAGTCAAAGCAATAAAATGGTTAGCTTCCTGAC
7033482 GAGATACTAAG
196 GAGATACTAAG
* *
7033493 AAGTGGACCAAATTCATCTTCTTGATGAGATAC
1 AAGTGGACCAAATTCGTCTTCCTGATGAGATAC
7033526 TGAGAAGCAG
Statistics
Matches: 223, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
206 223 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (206 bp):
AAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGCAATGCGGTCA
TCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
AACCCCAGCTTCCTAATAAGATACTAAGAAGCAAGTCAAAGCAATAAAATGGTTAGCTTCCTGAC
GAGATACTAAG
Found at i:7033617 original size:85 final size:85
Alignment explanation
Indices: 7033425--7033605 Score: 263
Period size: 85 Copynumber: 2.1 Consensus size: 85
7033415 CGAACCCCAG
* * *
7033425 CTTCCTGATAAGGTACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGACGAGATACT
1 CTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGACGAGATACG
* *
7033490 AAGAAGTGGACCAAATTCAT
66 AAGAAGTGAACCAAATCCAT
* * * *
7033510 CTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACG
1 CTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGACGAGATACG
* *
7033575 GAGAAGTGAACCAAATCCGT
66 AAGAAGTGAACCAAATCCAT
7033595 CTTCCTGATGA
1 CTTCCTGATGA
7033606 AACATAGAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (85 bp):
CTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGACGAGATACG
AAGAAGTGAACCAAATCCAT
Found at i:7034061 original size:11 final size:11
Alignment explanation
Indices: 7034020--7034062 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
7034010 AGCTTTTAAT
*
7034020 TTTAAAATTAGG
1 TTTAAATTTA-G
7034032 TTTAAA-TTAG
1 TTTAAATTTAG
*
7034042 TTTAAATTTAT
1 TTTAAATTTAG
7034053 TTTAAATTTA
1 TTTAAATTTA
7034063 AATTTATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 7 0.24
11 16 0.55
12 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAG
Found at i:7034062 original size:6 final size:6
Alignment explanation
Indices: 7034042--7034136 Score: 58
Period size: 6 Copynumber: 16.3 Consensus size: 6
7034032 TTTAAATTAG
* * **
7034042 TTTAAA TTT-AT TTTAAA TTTAAA TTT--A TCTTAAA TTGAAA TTTATCCT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA
** *
7034090 TTTAAA TTTAAA TTT-GC TTTAAA TTTGAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7034135 TT
1 TT
7034137 GATTTAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
4 4 0.06
5 13 0.19
6 44 0.66
7 2 0.03
8 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:7034064 original size:17 final size:17
Alignment explanation
Indices: 7034042--7034141 Score: 103
Period size: 17 Copynumber: 5.8 Consensus size: 17
7034032 TTTAAATTAG
7034042 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
7034059 TTTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
*
7034076 TTGAAATTTATCCTTTTAAA
1 TTTAAATTTA---TTTTAAA
**
7034096 TTTAAATTTGCTTTAAA
1 TTTAAATTTATTTTAAA
* *
7034113 TTTGAATTTA-ATTAAA
1 TTTAAATTTATTTTAAA
*
7034129 TTTAAATTGATTT
1 TTTAAATTTATTT
7034142 AAAAACTTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.19
17 40 0.60
20 14 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:7034112 original size:37 final size:37
Alignment explanation
Indices: 7034052--7034122 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
7034042 TTTAAATTTA
7034052 TTTTAAATTTAAATTTATCTTAAA-TTGAAATTTATCC
1 TTTTAAATTTAAATTTATCTTAAATTTG-AATTTATCC
*
7034089 TTTTAAATTTAAATTT-GCTTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTATC-TTAAATTTGAATTTA
7034123 ATTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 1 0.03
37 27 0.87
38 3 0.10
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (37 bp):
TTTTAAATTTAAATTTATCTTAAATTTGAATTTATCC
Found at i:7034141 original size:10 final size:11
Alignment explanation
Indices: 7034095--7034144 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
7034085 ATCCTTTTAA
7034095 ATTTAAATTTG
1 ATTTAAATTTG
*
7034106 CTTTAAATTTG
1 ATTTAAATTTG
**
7034117 AATTT-AATTAA
1 -ATTTAAATTTG
7034128 ATTTAAA-TTG
1 ATTTAAATTTG
7034138 ATTTAAA
1 ATTTAAA
7034145 AACTTGATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 12 0.39
11 16 0.52
12 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (11 bp):
ATTTAAATTTG
Found at i:7036126 original size:30 final size:29
Alignment explanation
Indices: 7036025--7036187 Score: 152
Period size: 29 Copynumber: 5.5 Consensus size: 29
7036015 GGAGGTCCCT
*
7036025 AAACTATCCAAAAATTAT-ATTTTGACCTCG
1 AAACT-TCCAAAAATT-TCATTTTTACCTCG
* * *
7036055 AAACTTCTAAAAATTACATTTTTACCCCTG
1 AAACTTCCAAAAATTTCATTTTTACCTC-G
* *
7036085 -AACTGCCAAAAATTTCATTTTTAACCTCA
1 AAACTTCCAAAAATTTCATTTTT-ACCTCG
* *
7036114 AAACTTCCAAAAATTACATTTTTACCCCCG
1 AAACTTCCAAAAATTTCATTTTTA-CCTCG
*
7036144 -AACTTCCAAAAATTTCATTTATGACCTCG
1 AAACTTCCAAAAATTTCATTT-TTACCTCG
**
7036173 AAACTTTTAAAAATT
1 AAACTTCCAAAAATT
7036188 ACCCTTTTAC
Statistics
Matches: 108, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
29 61 0.56
30 47 0.44
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTTCATTTTTACCTCG
Found at i:7036126 original size:59 final size:59
Alignment explanation
Indices: 7036032--7036319 Score: 252
Period size: 59 Copynumber: 4.9 Consensus size: 59
7036022 CCTAAACTAT
7036032 CCAAAAA-TT-ATATTTTGACCTCGAAACTTCTAAAAATTACATTTTTACCCCTGAACTG
1 CCAAAAATTTCAT-TTTTGACCTCGAAACTTCTAAAAATTACATTTTTACCCCTGAACTG
* * * * *
7036090 CCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACATTTTTACCCCCGAACTT
1 CCAAAAATTTCATTTTTGACCTCGAAACTTCTAAAAATTACATTTTTACCCCTGAACTG
* * **
7036149 CCAAAAATTTCATTTATGACCTCGAAACTTTTAAAAATTACCCTTTTA-CCCTCGAA-TG
1 CCAAAAATTTCATTTTTGACCTCGAAACTTCTAAAAATTACATTTTTACCCCT-GAACTG
* * *** *
7036207 TCCAAAAATTCCGTTTTTGATCCT-GATTTTTCTAAAAATTAC-TATTTTACCGCC-GGA-TG
1 -CCAAAAATTTCATTTTTGA-CCTCGAAACTTCTAAAAATTACAT-TTTTACC-CCTGAACTG
* *** * *
7036266 TCCAAAAATTTCATTTTTGTTCC-CGATTTTTCTAAAAATTACAGTTTTGCCCCT
1 -CCAAAAATTTCATTTTTG-ACCTCGAAACTTCTAAAAATTACATTTTTACCCCT
7036320 TGAGAGTCTA
Statistics
Matches: 190, Mismatches: 28, Indels: 23
0.79 0.12 0.10
Matches are distributed among these distances:
58 13 0.07
59 169 0.89
60 6 0.03
61 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (59 bp):
CCAAAAATTTCATTTTTGACCTCGAAACTTCTAAAAATTACATTTTTACCCCTGAACTG
Found at i:7038494 original size:26 final size:25
Alignment explanation
Indices: 7038444--7038583 Score: 143
Period size: 22 Copynumber: 5.8 Consensus size: 25
7038434 CCTACTGTTT
*
7038444 AGCACTATGTGTGCTTCTG-TT--C
1 AGCACTGTGTGTGCTTCTGTTTCCC
*
7038466 AGCACTGTGTGTGCTTCTATTTCCCC
1 AGCACTGTGTGTGCTTCTGTTT-CCC
7038492 AGCACTGTGTGTGCTTCTG-TT--C
1 AGCACTGTGTGTGCTTCTGTTTCCC
*
7038514 AGCACTGTGTGTGCCTACTGTTTCCC
1 AGCACTGTGTGTG-CTTCTGTTTCCC
**
7038540 AGCACT-TACGTGCTTCTGTTTCCC
1 AGCACTGTGTGTGCTTCTGTTTCCC
* *
7038564 TGCACT-TATGTGCTTCTGTT
1 AGCACTGTGTGTGCTTCTGTT
7038584 AAGTACTTCG
Statistics
Matches: 101, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
22 31 0.31
23 7 0.07
24 31 0.31
25 6 0.06
26 26 0.26
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.40
Consensus pattern (25 bp):
AGCACTGTGTGTGCTTCTGTTTCCC
Found at i:7038515 original size:48 final size:47
Alignment explanation
Indices: 7038444--7038559 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 47
7038434 CCTACTGTTT
*
7038444 AGCACTATGTGTGCTTCTGTTCAGCACTGTGTGTG-CTTCTATTTCCCC
1 AGCACT-TGTGTGCTTCTGTTCAGCACTGTGTGTGCCTACTATTT-CCC
*
7038492 AGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCCTACTGTTTCCC
1 AGCACT-TGTGTGCTTCTGTTCAGCACTGTGTGTGCCTACTATTTCCC
**
7038540 AGCACTTACGTGCTTCTGTT
1 AGCACTTGTGTGCTTCTGTT
7038560 TCCCTGCACT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 12 0.19
48 43 0.69
49 7 0.11
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (47 bp):
AGCACTTGTGTGCTTCTGTTCAGCACTGTGTGTGCCTACTATTTCCC
Found at i:7038561 original size:24 final size:24
Alignment explanation
Indices: 7038531--7038583 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
7038521 TGTGTGCCTA
7038531 CTGTTTCCCAGCACTTACGTGCTT
1 CTGTTTCCCAGCACTTACGTGCTT
* *
7038555 CTGTTTCCCTGCACTTATGTGCTT
1 CTGTTTCCCAGCACTTACGTGCTT
7038579 CTGTT
1 CTGTT
7038584 AAGTACTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.09, C:0.30, G:0.17, T:0.43
Consensus pattern (24 bp):
CTGTTTCCCAGCACTTACGTGCTT
Found at i:7038583 original size:48 final size:48
Alignment explanation
Indices: 7038454--7038583 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 48
7038444 AGCACTATGT
* * **
7038454 GTGCTTCTGTTCAGCACTGTGTGTGCTTCTATTTCCCCAGCACTGTGT
1 GTGCTTCTGTTCAGCACTGTATGTGCTTCTGTTTCCCCAGCACTGTAC
* *
7038502 GTGCTTCTGTTCAGCACTGTGTGTGCCTACTGTTT-CCCAGCACT-TAC
1 GTGCTTCTGTTCAGCACTGTATGTG-CTTCTGTTTCCCCAGCACTGTAC
*
7038549 GTGCTTCTGTTTCCCTGCACT-TATGTGCTTCTGTT
1 GTGCTTCTG-TT--CAGCACTGTATGTGCTTCTGTT
7038584 AAGTACTTCG
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
47 10 0.14
48 43 0.61
49 12 0.17
50 6 0.08
ACGTcount: A:0.10, C:0.28, G:0.22, T:0.41
Consensus pattern (48 bp):
GTGCTTCTGTTCAGCACTGTATGTGCTTCTGTTTCCCCAGCACTGTAC
Found at i:7041252 original size:22 final size:21
Alignment explanation
Indices: 7041206--7041256 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7041196 ACAAGTCCTA
7041206 ATTTTTTTATAAATTCAAAAG
1 ATTTTTTTATAAATTCAAAAG
* **
7041227 -TTTTTTTATAATTTTTGAAAG
1 ATTTTTTTATAA-ATTCAAAAG
7041248 ATTTTTTTA
1 ATTTTTTTA
7041257 CAGTTGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 6 0.24
22 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (21 bp):
ATTTTTTTATAAATTCAAAAG
Found at i:7046316 original size:41 final size:41
Alignment explanation
Indices: 7046271--7046351 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
7046261 TTATCAAAAT
* *
7046271 ATCTAATGATTTATCC-AAATTTCTATCCTTTTACCAATATA
1 ATCTAACGATTTA-CCAAAATTTCTATCATTTTACCAATATA
* *
7046312 ATCTAACGATTTACCAAAATTTTTATCATTTTATCAATAT
1 ATCTAACGATTTACCAAAATTTCTATCATTTTACCAATAT
7046352 TTATAAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.44
Consensus pattern (41 bp):
ATCTAACGATTTACCAAAATTTCTATCATTTTACCAATATA
Found at i:7046535 original size:20 final size:20
Alignment explanation
Indices: 7046471--7046674 Score: 98
Period size: 20 Copynumber: 10.2 Consensus size: 20
7046461 GTAAGGATTC
*
7046471 CCAAAATATCTAACGATTTA
1 CCAAAATATTTAACGATTTA
*** * * *
7046491 TTGAAATTTTTAAAGATTTT
1 CCAAAATATTTAACGATTTA
* *
7046511 TCAAAATATTTGACGATTTA
1 CCAAAATATTTAACGATTTA
*
7046531 CCAAAAT-TTCTATC-ATTTTA
1 CCAAAATATT-TAACGA-TTTA
* * *
7046551 CCAATATATCTAACAATTTA
1 CCAAAATATTTAACGATTTA
* *
7046571 CAAAAAT-TTGTAAAGATTTA
1 CCAAAATATT-TAACGATTTA
* *
7046591 TCAAAATATCTAACGATTTA
1 CCAAAATATTTAACGATTTA
* * *
7046611 CCAAAATTTTTATCGTTTTA
1 CCAAAATATTTAACGATTTA
*
7046631 -C-TAATATTTATGA-GACTTTA
1 CCAAAATATTTA--ACGA-TTTA
*
7046651 CCAAAATTTTTAA-GATTTTA
1 CCAAAATATTTAACGA-TTTA
7046671 CCAA
1 CCAA
7046675 CTTTTCTCAA
Statistics
Matches: 133, Mismatches: 40, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
18 7 0.05
19 6 0.05
20 109 0.82
21 4 0.03
22 7 0.05
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (20 bp):
CCAAAATATTTAACGATTTA
Found at i:7046538 original size:40 final size:40
Alignment explanation
Indices: 7046472--7046622 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
7046462 TAAGGATTCC
***
7046472 CAAAATATCTAACGATTTATTGAAATTTTTAAAGATTTTT
1 CAAAATATCTAACGATTTACCAAAATTTTTAAAGATTTTT
* * * ** *
7046512 CAAAATATTTGACGATTTACCAAAATTTCT-ATCATTTTAC
1 CAAAATATCTAACGATTTACCAAAATTTTTAAAGATTTT-T
* * * * *
7046552 CAATATATCTAACAATTTACAAAAATTTGTAAAGATTTAT
1 CAAAATATCTAACGATTTACCAAAATTTTTAAAGATTTTT
7046592 CAAAATATCTAACGATTTACCAAAATTTTTA
1 CAAAATATCTAACGATTTACCAAAATTTTTA
7046623 TCGTTTTACT
Statistics
Matches: 86, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 6 0.07
40 75 0.87
41 5 0.06
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (40 bp):
CAAAATATCTAACGATTTACCAAAATTTTTAAAGATTTTT
Found at i:7046609 original size:80 final size:80
Alignment explanation
Indices: 7046471--7046637 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
7046461 GTAAGGATTC
* * *** * * * *
7046471 CCAAAATATCTAACGATTTATTGAAATTTTTAAAGATTTTTCAAAATATTTGACGATTTACCAAA
1 CCAATATATCTAACAATTTACAAAAATTTGTAAAGATTTATCAAAATATCTAACGATTTACCAAA
7046536 ATTTCTATCATTTTA
66 ATTTCTATCATTTTA
7046551 CCAATATATCTAACAATTTACAAAAATTTGTAAAGATTTATCAAAATATCTAACGATTTACCAAA
1 CCAATATATCTAACAATTTACAAAAATTTGTAAAGATTTATCAAAATATCTAACGATTTACCAAA
* *
7046616 ATTTTTATCGTTTTA
66 ATTTCTATCATTTTA
*
7046631 CTAATAT
1 CCAATAT
7046638 TTATGAGACT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (80 bp):
CCAATATATCTAACAATTTACAAAAATTTGTAAAGATTTATCAAAATATCTAACGATTTACCAAA
ATTTCTATCATTTTA
Found at i:7046651 original size:80 final size:79
Alignment explanation
Indices: 7046498--7046668 Score: 216
Period size: 80 Copynumber: 2.2 Consensus size: 79
7046488 TTATTGAAAT
* * * *
7046498 TTTTAAAGATTTTTCAAAATATTTGACGATTTACCAAAATTTCTATCATTTTACCAATATATCTA
1 TTTTAAAGATTTATCAAAATATCTAACGATTTACCAAAATTTCTATCATTTTACCAATATATATA
7046563 ACAATTTACAAAAA
66 ACAATTTACAAAAA
* * * *
7046577 TTTGTAAAGATTTATCAAAATATCTAACGATTTACCAAAATTTTTATCGTTTTACTAATATTTAT
1 TTT-TAAAGATTTATCAAAATATCTAACGATTTACCAAAATTTCTATCATTTTACCAATATATAT
* * * *
7046642 GAGACTTTACCAAAA
65 AACAATTTACAAAAA
*
7046657 TTTTTAAGATTT
1 TTTTAAAGATTT
7046669 TACCAACTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 11 0.14
80 67 0.86
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (79 bp):
TTTTAAAGATTTATCAAAATATCTAACGATTTACCAAAATTTCTATCATTTTACCAATATATATA
ACAATTTACAAAAA
Found at i:7046864 original size:40 final size:39
Alignment explanation
Indices: 7046815--7046961 Score: 127
Period size: 40 Copynumber: 3.7 Consensus size: 39
7046805 TACCAAGCAG
* *
7046815 TTACTAAAATTTCTATGACTTTACCAAATTATTTAATAAT
1 TTACCAAAATTTCTATGA-TTTACCAAATTATCTAATAAT
* * *
7046855 TTACCAAAATTTTTAAGGATTTATC-AATATATCTAATAAT
1 TTACCAAAATTTCT-ATGATTTACCAAAT-TATCTAATAAT
* * **
7046895 TTACCAAAATTTTTATCGATTTACTAATATT-TCTAAGGAT
1 TTACCAAAATTTCTAT-GATTTACCAA-ATTATCTAATAAT
* *
7046935 TTACCAAAATATCTAACGATTTACCAA
1 TTACCAAAATTTCT-ATGATTTACCAA
7046962 TATTTATGAA
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 4 0.05
40 75 0.86
41 6 0.07
42 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (39 bp):
TTACCAAAATTTCTATGATTTACCAAATTATCTAATAAT
Found at i:7046916 original size:20 final size:19
Alignment explanation
Indices: 7046815--7046944 Score: 73
Period size: 20 Copynumber: 6.5 Consensus size: 19
7046805 TACCAAGCAG
* *
7046815 TTACTAAAATTTCTATGACT
1 TTACCAAAATTTTTATGA-T
*
7046835 TTACC-AAATTATTTAATAAT
1 TTACCAAAATT-TTT-ATGAT
*
7046855 TTACCAAAATTTTTAAGGAT
1 TTACCAAAATTTTT-ATGAT
* * * * *
7046875 TTATCAATATATCTAATAAT
1 TTACCAAAAT-TTTTATGAT
7046895 TTACCAAAATTTTTATCGAT
1 TTACCAAAATTTTTAT-GAT
* * * *
7046915 TTACTAATATTTCTAAGGAT
1 TTACCAAAATTT-TTATGAT
7046935 TTACCAAAAT
1 TTACCAAAAT
7046945 ATCTAACGAT
Statistics
Matches: 82, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
19 9 0.11
20 61 0.74
21 12 0.15
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (19 bp):
TTACCAAAATTTTTATGAT
Found at i:7046917 original size:60 final size:60
Alignment explanation
Indices: 7046853--7046966 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
7046843 TTATTTAATA
* * * *
7046853 ATTTACCAAAATTTTTAAGGATTTATCAATATATCTAATAATTTACCAAAATTTTTATCG
1 ATTTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAATTTACCAAAATTTTTATCG
* * * *
7046913 ATTTACTAATATTTCTAAGGATTTACCAAAATATCTAACGATTTACCAATATTT
1 ATTTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAATTTACCAAAATTT
7046967 ATGAAACATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (60 bp):
ATTTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAATTTACCAAAATTTTTATCG
Found at i:7046949 original size:20 final size:20
Alignment explanation
Indices: 7046834--7046961 Score: 94
Period size: 20 Copynumber: 6.4 Consensus size: 20
7046824 TTTCTATGAC
* * **
7046834 TTTACCAAATTATTTAATAA
1 TTTACCAAAATATCTAACGA
* * *
7046854 TTTACCAAAATTTTTAAGGA
1 TTTACCAAAATATCTAACGA
* * **
7046874 TTTATCAATATATCTAATAA
1 TTTACCAAAATATCTAACGA
* * *
7046894 TTTACCAAAATTTTTATCGA
1 TTTACCAAAATATCTAACGA
* * * *
7046914 TTTACTAATATTTCTAAGGA
1 TTTACCAAAATATCTAACGA
7046934 TTTACCAAAATATCTAACGA
1 TTTACCAAAATATCTAACGA
7046954 TTTACCAA
1 TTTACCAA
7046962 TATTTATGAA
Statistics
Matches: 82, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTACCAAAATATCTAACGA
Found at i:7046964 original size:40 final size:40
Alignment explanation
Indices: 7046834--7046966 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
7046824 TTTCTATGAC
* * *
7046834 TTTACCAA-ATTATTTAATAATTTACCAAAATTTTTAAGGA
1 TTTACCAATATT-TCTAAGAATTTACCAAAATTTTTAACGA
* * * *
7046874 TTTATCAATATATCTAATAATTTACCAAAATTTTTATCGA
1 TTTACCAATATTTCTAAGAATTTACCAAAATTTTTAACGA
* * * *
7046914 TTTACTAATATTTCTAAGGATTTACCAAAATATCTAACGA
1 TTTACCAATATTTCTAAGAATTTACCAAAATTTTTAACGA
7046954 TTTACCAATATTT
1 TTTACCAATATTT
7046967 ATGAAACATT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 76 0.97
41 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.43
Consensus pattern (40 bp):
TTTACCAATATTTCTAAGAATTTACCAAAATTTTTAACGA
Found at i:7046979 original size:40 final size:40
Alignment explanation
Indices: 7046853--7046983 Score: 113
Period size: 40 Copynumber: 3.3 Consensus size: 40
7046843 TTATTTAATA
* * * * * *
7046853 ATTTACCAAAATTTTTAAGGATTTATCAATATATCTAATA-
1 ATTTACCAAAATATCTAACGATTTACCAATATTTATAA-AC
* * * * * **
7046893 ATTTACCAAAATTTTTATCGATTTACTAATATTTCTAAGG
1 ATTTACCAAAATATCTAACGATTTACCAATATTTATAAAC
7046933 ATTTACCAAAATATCTAACGATTTACCAATATTTATGAAAC
1 ATTTACCAAAATATCTAACGATTTACCAATATTTAT-AAAC
7046974 A-TTACCAAAA
1 ATTTACCAAAA
7046984 ATTTCTAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 73 0.96
41 3 0.04
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (40 bp):
ATTTACCAAAATATCTAACGATTTACCAATATTTATAAAC
Found at i:7047096 original size:20 final size:20
Alignment explanation
Indices: 7047081--7047251 Score: 76
Period size: 20 Copynumber: 8.6 Consensus size: 20
7047071 AAATCTAAGT
*
7047081 ATTTACCAATGTATCTAACG
1 ATTTACCAATATATCTAACG
*
7047101 ATTTACTAATATATCTAACG
1 ATTTACCAATATATCTAACG
* * * *
7047121 -TTTTCCAATATTTGTAAGG
1 ATTTACCAATATATCTAACG
** * * * * *
7047140 ACGTATCAAAATTTTTAAGG
1 ATTTACCAATATATCTAACG
* * *
7047160 ATTTACTAATACATTTAACG
1 ATTTACCAATATATCTAACG
* * * *
7047180 ATTCACCAAAATTTTTAA-G
1 ATTTACCAATATATCTAACG
* * *
7047199 AATTTATCAAAATATCTTACG
1 -ATTTACCAATATATCTAACG
* * **
7047220 ATTTACCAATATTTTTAAAA
1 ATTTACCAATATATCTAACG
7047240 ATTTACCAATAT
1 ATTTACCAATAT
7047252 TTCCAAAATT
Statistics
Matches: 110, Mismatches: 38, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
19 15 0.14
20 94 0.85
21 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTTACCAATATATCTAACG
Found at i:7047204 original size:40 final size:40
Alignment explanation
Indices: 7047146--7047250 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
7047136 AAGGACGTAT
*
7047146 CAAAATTTTTAAGGATTTACTAATACAT-TTAACGATTCAC
1 CAAAATTTTTAAGAATTTACTAATACATCTT-ACGATTCAC
* * *
7047186 CAAAATTTTTAAGAATTTA-TCAAAATATCTTACGATTTAC
1 CAAAATTTTTAAGAATTTACT-AATACATCTTACGATTCAC
* * *
7047226 CAATATTTTTAAAAATTTACCAATA
1 CAAAATTTTTAAGAATTTACTAATA
7047251 TTTCCAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 51 0.94
41 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (40 bp):
CAAAATTTTTAAGAATTTACTAATACATCTTACGATTCAC
Found at i:7047259 original size:20 final size:20
Alignment explanation
Indices: 7047220--7047259 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7047210 ATATCTTACG
**
7047220 ATTTACCAATATTTTTAAAA
1 ATTTACCAATATTTCCAAAA
7047240 ATTTACCAATATTTCCAAAA
1 ATTTACCAATATTTCCAAAA
7047260 TTTCTAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTACCAATATTTCCAAAA
Found at i:7047370 original size:20 final size:21
Alignment explanation
Indices: 7047326--7047373 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7047316 TTTTTGTGGC
* *
7047326 TTTACCAATATTTCTAATAAA
1 TTTACCAAAATTTATAATAAA
*
7047347 TTTACCAAAATTTAT-ATGAA
1 TTTACCAAAATTTATAATAAA
7047367 TTTACCA
1 TTTACCA
7047374 TCATTTCTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTACCAAAATTTATAATAAA
Found at i:7047631 original size:106 final size:106
Alignment explanation
Indices: 7047388--7047615 Score: 456
Period size: 106 Copynumber: 2.2 Consensus size: 106
7047378 TTCTCCAAAT
7047388 TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
1 TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
7047453 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
66 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
7047494 TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
1 TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
7047559 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
66 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
7047600 TTATCAAAATATCTAA
1 TTATCAAAATATCTAA
7047616 GACCCTTCAA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 122 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (106 bp):
TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
Found at i:7047642 original size:106 final size:106
Alignment explanation
Indices: 7047388--7047659 Score: 413
Period size: 106 Copynumber: 2.6 Consensus size: 106
7047378 TTCTCCAAAT
** * *
7047388 TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
1 TTATCAAAATATCTAACACCCTATCAATATTTTATTCAATTTACCAATTTTTATATGGATATACT
7047453 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
66 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
** * *
7047494 TTATCAAAATATCTAACACTTTATCAATATTTTTTTCCATTTACCAATTTTTATATGGATATACT
1 TTATCAAAATATCTAACACCCTATCAATATTTTATTCAATTTACCAATTTTTATATGGATATACT
7047559 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
66 AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
* * *
7047600 TTATCAAAATATCTAAGACCCT-TCAAATATTTCTATT-AATTTACAAATGTTTATATGGAT
1 TTATCAAAATATCTAACACCCTATC-AATATTT-TATTCAATTTACCAATTTTTATATGGAT
7047660 TTATCGAATA
Statistics
Matches: 157, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
105 2 0.01
106 152 0.97
107 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (106 bp):
TTATCAAAATATCTAACACCCTATCAATATTTTATTCAATTTACCAATTTTTATATGGATATACT
AAAATATATAATATTTTATCAAAATAATTAACAATTTGGAC
Found at i:7049539 original size:67 final size:67
Alignment explanation
Indices: 7049431--7049564 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
7049421 TTTTTTTAGT
* *
7049431 GAATTACAAAAGGAGAATAAAACCTTAACAGCAATATCACTAGTGTGATTTGAATCCAGGCCACA
1 GAATTACAAAAGGAGAACAAAACCTTAACAGCAATATCACTAGTGTGATTTGAACCCAGGCCACA
7049496 TC
66 TC
*
7049498 GAATTACAAAAGGAGAACAAAATCTTAACAGCAATATCACTAGTGTGATTTGAACCCAGGCCACA
1 GAATTACAAAAGGAGAACAAAACCTTAACAGCAATATCACTAGTGTGATTTGAACCCAGGCCACA
7049563 TC
66 TC
7049565 TGGGACAATG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (67 bp):
GAATTACAAAAGGAGAACAAAACCTTAACAGCAATATCACTAGTGTGATTTGAACCCAGGCCACA
TC
Found at i:7053179 original size:11 final size:11
Alignment explanation
Indices: 7053165--7053196 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
7053155 TTATATTTTT
7053165 AAAAATATTTA
1 AAAAATATTTA
7053176 AAAAATA-TTA
1 AAAAATATTTA
7053186 AAAAA-ATTTA
1 AAAAATATTTA
7053196 A
1 A
7053197 CAAGTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.05
10 12 0.60
11 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATATTTA
Found at i:7056694 original size:16 final size:16
Alignment explanation
Indices: 7056669--7056703 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7056659 GCAAAAAGAA
*
7056669 GGTTTTTTTTTTGTTT
1 GGTTTATTTTTTGTTT
*
7056685 GGTTTATTTTTTTTTT
1 GGTTTATTTTTTGTTT
7056701 GGT
1 GGT
7056704 GAAGTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (16 bp):
GGTTTATTTTTTGTTT
Found at i:7064209 original size:57 final size:58
Alignment explanation
Indices: 7064126--7064234 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
7064116 TTAATATAAC
* * *
7064126 ATTTGGTACTTGAACTTGACACTTTTT-CTAATTTGGTACCTAAAATTTTTTGACCTA
1 ATTTAGTACATGAACTTGAAACTTTTTCCTAATTTGGTACCTAAAATTTTTTGACCTA
* *
7064183 ATTTAGTACATGAACTTGAAATTTTTTCCTAATTTGGTATCTAAAATTTTTT
1 ATTTAGTACATGAACTTGAAACTTTTTCCTAATTTGGTACCTAAAATTTTTT
7064235 TGGACCAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (58 bp):
ATTTAGTACATGAACTTGAAACTTTTTCCTAATTTGGTACCTAAAATTTTTTGACCTA
Found at i:7064227 original size:58 final size:57
Alignment explanation
Indices: 7064126--7064287 Score: 166
Period size: 61 Copynumber: 2.7 Consensus size: 57
7064116 TTAATATAAC
* * * *
7064126 ATTTGGTACTTGAACTTGACACTTTTTCTAATTTGGTACCTAAAA-TTTTTT-GACCTA
1 ATTT-GTAC-TGAACTTGAAATTTTTTCTAATTTGGTATCTAAAATTTTTTTGGACCAA
7064183 ATTTAGTACATGAACTTGAAATTTTTTCCTAATTTGGTATCTAAAATTTTTTTGGACCAA
1 ATTT-GTAC-TGAACTTGAAATTTTTT-CTAATTTGGTATCTAAAATTTTTTTGGACCAA
* * *
7064243 ATTTGATATCTGAAATTGGTATTTTTTTACTAATTTGGTATCTAA
1 ATTTG-TA-CTGAACTT-GAAATTTTTT-CTAATTTGGTATCTAA
7064288 GCTTCTTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
57 23 0.26
58 17 0.19
59 7 0.08
60 17 0.19
61 25 0.28
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (57 bp):
ATTTGTACTGAACTTGAAATTTTTTCTAATTTGGTATCTAAAATTTTTTTGGACCAA
Found at i:7064315 original size:62 final size:60
Alignment explanation
Indices: 7064204--7064320 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
7064194 GAACTTGAAA
* *
7064204 TTTTTTCCTAATTTGGTATCTAAAATTTTTTTGGACCAAATTTGATATCTGAAATTGGTAT
1 TTTTTTACTAATTTGGTATCTAAAATTTTTTTAGACCAAATTTGATATCT-AAATTGGTAT
** *** *
7064265 TTTTTTACTAATTTGGTATCTAAGCTTCTTTTTAGATTTAATTTGGTATCTAAATT
1 TTTTTTACTAATTTGGTATCTAAAATT-TTTTTAGACCAAATTTGATATCTAAATT
7064321 TATTAAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 29 0.62
62 18 0.38
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.52
Consensus pattern (60 bp):
TTTTTTACTAATTTGGTATCTAAAATTTTTTTAGACCAAATTTGATATCTAAATTGGTAT
Found at i:7064810 original size:18 final size:18
Alignment explanation
Indices: 7064782--7064816 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
7064772 AAATTCACTC
7064782 AATATTTTAATCAAAATAA
1 AATATTTTAAT-AAAATAA
7064801 AATA-TTTAATAAAATA
1 AATATTTTAATAAAATA
7064817 TTTAAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATTTTAATAAAATAA
Found at i:7064811 original size:12 final size:12
Alignment explanation
Indices: 7064796--7064821 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7064786 TTTTAATCAA
7064796 AATAAAATATTT
1 AATAAAATATTT
7064808 AATAAAATATTT
1 AATAAAATATTT
7064820 AA
1 AA
7064822 ACTAACTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAAAATATTT
Found at i:7067473 original size:27 final size:25
Alignment explanation
Indices: 7067414--7067474 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
7067404 GAAAAAAATC
7067414 TAAAATTAATTTTAAAAAGAGAAAA
1 TAAAATTAATTTTAAAAAGAGAAAA
*
7067439 TAAAATTAATTTTTAAAAAGATAAAA
1 TAAAATTAA-TTTTAAAAAGAGAAAA
*
7067465 TGAAGATTAA
1 T-AAAATTAA
7067475 AATGAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 9 0.28
26 16 0.50
27 7 0.22
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (25 bp):
TAAAATTAATTTTAAAAAGAGAAAA
Found at i:7067569 original size:30 final size:32
Alignment explanation
Indices: 7067535--7067593 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
7067525 AAATTAACTA
7067535 TGAGTGACCAAAATG-AAAAT-TTATTAAAGC
1 TGAGTGACCAAAATGAAAAATGTTATTAAAGC
*
7067565 TGAGTGACTAAAATGAAAAATGTTATTAA
1 TGAGTGACCAAAATGAAAAATGTTATTAA
7067594 CAACAGTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.54
31 5 0.19
32 7 0.27
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (32 bp):
TGAGTGACCAAAATGAAAAATGTTATTAAAGC
Found at i:7093461 original size:31 final size:31
Alignment explanation
Indices: 7093417--7093494 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
7093407 CGGATAAGTC
* * *
7093417 TACAATTTGATCACTCACTTATTAGTAAATT
1 TACAATTTAATCACTCAATTATTAATAAATT
*
7093448 TATAATTTAATCACTCAATTATTAATAAATT
1 TACAATTTAATCACTCAATTATTAATAAATT
7093479 TACAATTTAATCACTC
1 TACAATTTAATCACTC
7093495 TTGGCATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (31 bp):
TACAATTTAATCACTCAATTATTAATAAATT
Found at i:7101530 original size:3 final size:3
Alignment explanation
Indices: 7101522--7101555 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7101512 ATAAAACTCG
7101522 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
7101556 GCCCTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:7107850 original size:3 final size:3
Alignment explanation
Indices: 7107842--7107875 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7107832 ATAAAACTCG
7107842 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
7107876 GCCCTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:7122690 original size:14 final size:14
Alignment explanation
Indices: 7122671--7122697 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7122661 AGGGAAAGAG
7122671 GAAAGGGAAGGGGA
1 GAAAGGGAAGGGGA
7122685 GAAAGGGAAGGGG
1 GAAAGGGAAGGGG
7122698 GAAGGTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (14 bp):
GAAAGGGAAGGGGA
Found at i:7122802 original size:28 final size:26
Alignment explanation
Indices: 7122739--7122808 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
7122729 ATGATGATGA
* *
7122739 TTTAATATTTTTATATTTTAAATTAAT
1 TTTAATA-TTTTATATTTAAAAATAAT
7122766 TTTAAAATATTTTATATTTAAAAAAATAAT
1 TTT--AATATTTTATATTT--AAAAATAAT
7122796 TTTAATAATTTTA
1 TTTAAT-ATTTTA
7122809 AAATTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 3 0.08
28 13 0.36
29 10 0.28
30 10 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTAATATTTTATATTTAAAAATAAT
Found at i:7122806 original size:29 final size:27
Alignment explanation
Indices: 7122739--7122808 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 27
7122729 ATGATGATGA
* * *
7122739 TTTAATATTTTTATATTTTAAATTAAT
1 TTTAATAATTTTATATTTAAAAATAAT
*
7122766 TTTAAAATATTTTATATTTAAAAAAATAAT
1 TTTAATA-ATTTTATATTT--AAAAATAAT
7122796 TTTAATAATTTTA
1 TTTAATAATTTTA
7122809 AAATTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.17
28 10 0.29
29 6 0.17
30 13 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAATAATTTTATATTTAAAAATAAT
Found at i:7134675 original size:23 final size:22
Alignment explanation
Indices: 7134647--7134701 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
7134637 ACCTTAGTGC
*
7134647 GCTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACGTT-TGT
*
7134670 GCTCTCCGTTTAGCACGTTTGT
1 GCTCTCTGTTTAGCACGTTTGT
*
7134692 ACTCTCTGTT
1 GCTCTCTGTT
7134702 CATTTGTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.09, C:0.25, G:0.20, T:0.45
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACGTTTGT
Found at i:7146047 original size:29 final size:30
Alignment explanation
Indices: 7145989--7146117 Score: 109
Period size: 31 Copynumber: 4.2 Consensus size: 30
7145979 ATATCAAAAT
* * *
7145989 TATACATGAAA-TTTGATTTAATGTGTAATTA
1 TATACATGAAACTTTAATTTGAT-T-CAATTA
*
7146020 TATACATG-AACTTTAATTTGATGCAATTA
1 TATACATGAAACTTTAATTTGATTCAATTA
* * * *
7146049 TATACATGAAACTCTAATTGTGGTTCAAATG
1 TATACATGAAACTTTAATT-TGATTCAATTA
* * *
7146080 TATACTTGAAACTTTAATTTTGATTTAATCA
1 TATACATGAAACTTTAA-TTTGATTCAATTA
7146111 TATACAT
1 TATACAT
7146118 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
29 13 0.17
30 11 0.14
31 51 0.66
32 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (30 bp):
TATACATGAAACTTTAATTTGATTCAATTA
Found at i:7146285 original size:29 final size:30
Alignment explanation
Indices: 7146253--7146319 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
7146243 TCAAAATTTT
*
7146253 ATGTATAAAATTACACA-AAATCAAAGTTC
1 ATGTATAAAATTACACATAAACCAAAGTTC
* * *
7146282 ATGTATATAATTGCACATTAAACCATAGTTC
1 ATGTATAAAATTACACA-TAAACCAAAGTTC
7146313 ATGTATA
1 ATGTATA
7146320 GTTTTGATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 15 0.47
31 17 0.53
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (30 bp):
ATGTATAAAATTACACATAAACCAAAGTTC
Found at i:7157201 original size:18 final size:19
Alignment explanation
Indices: 7157180--7157215 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7157170 AGATTCAATA
7157180 TCAAATTAAGA-ATAAATG
1 TCAAATTAAGATATAAATG
*
7157198 TCAAATTTAGATATAAAT
1 TCAAATTAAGATATAAAT
7157216 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (19 bp):
TCAAATTAAGATATAAATG
Found at i:7157301 original size:26 final size:27
Alignment explanation
Indices: 7157249--7157302 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
7157239 TATATTAAAC
* *
7157249 AAAAAAAATCTAGATATCAAATTACAA
1 AAAAAAAATATAGATATCAAATGACAA
* *
7157276 AAAAAAAATATA-ATTTCAAGTGACAA
1 AAAAAAAATATAGATATCAAATGACAA
7157302 A
1 A
7157303 TGTTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.22
Consensus pattern (27 bp):
AAAAAAAATATAGATATCAAATGACAA
Found at i:7158629 original size:17 final size:17
Alignment explanation
Indices: 7158607--7158688 Score: 87
Period size: 17 Copynumber: 4.8 Consensus size: 17
7158597 AACTTTTAAT
7158607 TTTTAAATCTT-AATTTA
1 TTTTAAAT-TTAAATTTA
*
7158624 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
7158641 -TTTAGAATTTAAATTTA
1 TTTTA-AATTTAAATTTA
* *
7158658 TGTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
* *
7158675 TTTTGAATTAAAAT
1 TTTTAAATTTAAAT
7158689 GATTTAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.11
17 45 0.83
18 3 0.06
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:7158656 original size:34 final size:34
Alignment explanation
Indices: 7158618--7158688 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
7158608 TTTAAATCTT
* *
7158618 AATTTATTTTAAATTTAAATTCATTTAGAATTTA
1 AATTTATGTTAAATTTAAATTCATTTAGAATTAA
* * *
7158652 AATTTATGTTAAATTTGAATTTATTTTGAATTAA
1 AATTTATGTTAAATTTAAATTCATTTAGAATTAA
7158686 AAT
1 AAT
7158689 GATTTAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (34 bp):
AATTTATGTTAAATTTAAATTCATTTAGAATTAA
Found at i:7159127 original size:26 final size:28
Alignment explanation
Indices: 7159098--7159170 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 28
7159088 AAAAACCCTA
7159098 TTTGAAATCAATACAAAAAAAACT-TT-
1 TTTGAAATCAATACAAAAAAAACTCTTC
*
7159124 TTTGAAA--AAT-CAATATACAAACTCTTC
1 TTTGAAATCAATACAA-A-AAAAACTCTTC
7159151 TTTGAGAATCAATACAAAAA
1 TTTGA-AATCAATACAAAAA
7159171 TCAGACTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
23 3 0.08
24 4 0.11
25 6 0.16
26 9 0.24
27 5 0.14
28 2 0.05
29 1 0.03
30 4 0.11
31 3 0.08
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (28 bp):
TTTGAAATCAATACAAAAAAAACTCTTC
Found at i:7160797 original size:30 final size:28
Alignment explanation
Indices: 7160763--7161031 Score: 172
Period size: 29 Copynumber: 9.3 Consensus size: 28
7160753 AAAAATAGTG
*
7160763 TTTTGACCTCCAAACTTCTCCAAAATTATA
1 TTTTGACC-CCAAACTT-TCCAAAATTACA
* *
7160793 TTTTGACCCTAAAACTTTCTAAAAATTACA
1 TTTTGACCC-CAAACTTTC-CAAAATTACA
** * *
7160823 TTTTGACCCCCAAGTTTTACAAAATTCCA
1 TTTTGA-CCCCAAACTTTCCAAAATTACA
*
7160852 TTTT-ACCCCTAA-TTTCACCAAAATTACA
1 TTTTGACCCCAAACTTT--CCAAAATTACA
* *
7160880 TTTTGACCCCTAAACTTTCTAAAATTCCA
1 TTTTGACCCC-AAACTTTCCAAAATTACA
* * * *
7160909 TTTT-AACCCTAATTTTACCAAAAGTACCA
1 TTTTGACCCCAAACTTT-CCAAAATTA-CA
* *
7160938 -TTTGACCCCTAAACTTTCTAAAATTTCA
1 TTTTGACCCC-AAACTTTCCAAAATTACA
** *
7160966 TTTTGA-CCTTAATTTTACCAAAATTATCA
1 TTTTGACCCCAAACTTT-CCAAAATTA-CA
* *
7160995 TTTT-ACCCCTAAACTTTCTAAAATTTCA
1 TTTTGACCCC-AAACTTTCCAAAATTACA
7161023 TTTTTGACC
1 -TTTTGACC
7161032 TCGATTTTTA
Statistics
Matches: 182, Mismatches: 38, Indels: 38
0.71 0.15 0.15
Matches are distributed among these distances:
26 3 0.02
27 15 0.08
28 41 0.23
29 69 0.38
30 48 0.26
31 6 0.03
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (28 bp):
TTTTGACCCCAAACTTTCCAAAATTACA
Found at i:7160853 original size:29 final size:28
Alignment explanation
Indices: 7160814--7161064 Score: 149
Period size: 29 Copynumber: 8.7 Consensus size: 28
7160804 AAACTTTCTA
* *
7160814 AAAATTACATTTTGACCCCCAAGTTTTAC
1 AAAATTCCATTTTGACCCCTAA-TTTTAC
*
7160843 AAAATTCCATTTT-ACCCCTAATTTCACC
1 AAAATTCCATTTTGACCCCTAATTTTA-C
* *
7160871 AAAATTACATTTTGACCCCTAAACTTT-C
1 AAAATTCCATTTTGACCCCT-AATTTTAC
*
7160899 TAAAATTCCATTTT-AACCCTAATTTTACC
1 -AAAATTCCATTTTGACCCCTAATTTTA-C
* *
7160928 AAAAGTACCA-TTTGACCCCTAAACTTT-C
1 AAAA-TTCCATTTTGACCCCT-AATTTTAC
* *
7160956 TAAAATTTCATTTTGA-CCTTAATTTTACC
1 -AAAATTCCATTTTGACCCCTAATTTTA-C
* *
7160985 AAAATTATCATTTT-ACCCCTAAACTTT-C
1 AAAATT-CCATTTTGACCCCT-AATTTTAC
* * * *
7161013 TAAAATTTCATTTTTGACCTCGATTTTTACC
1 -AAAATTCCA-TTTTGACCCCTAATTTTA-C
*
7161044 AAAAATTACCATTTTGCCCCC
1 -AAAATT-CCATTTTGACCCC
7161065 GAAAGTCCAA
Statistics
Matches: 174, Mismatches: 26, Indels: 42
0.72 0.11 0.17
Matches are distributed among these distances:
27 14 0.08
28 51 0.29
29 74 0.43
30 18 0.10
31 15 0.09
32 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATTCCATTTTGACCCCTAATTTTAC
Found at i:7160888 original size:57 final size:57
Alignment explanation
Indices: 7160814--7161064 Score: 287
Period size: 57 Copynumber: 4.4 Consensus size: 57
7160804 AAACTTTCTA
* ** *
7160814 AAAATTA-CATTTTGACCCCCAAGTTTTAC-AAAATTCCATTTTACCCCTAATTTCACC
1 AAAATTACCATTTTGACCCCTAAACTTT-CTAAAATTCCATTTTA-CCCTAATTTTACC
7160871 AAAATTA-CATTTTGACCCCTAAACTTTCTAAAATTCCATTTTAACCCTAATTTTACC
1 AAAATTACCATTTTGACCCCTAAACTTTCTAAAATTCCATTTT-ACCCTAATTTTACC
* * *
7160928 AAAAGTACCA-TTTGACCCCTAAACTTTCTAAAATTTCATTTTGACCTTAATTTTACC
1 AAAATTACCATTTTGACCCCTAAACTTTCTAAAATTCCATTTT-ACCCTAATTTTACC
* * * *
7160985 AAAATTATCATTTT-ACCCCTAAACTTTCTAAAATTTCATTTTTGACCTCGATTTTTACC
1 AAAATTACCATTTTGACCCCTAAACTTTCTAAAATTCCA-TTTT-ACC-CTAATTTTACC
*
7161044 AAAAATTACCATTTTGCCCCC
1 -AAAATTACCATTTTGACCCC
7161065 GAAAGTCCAA
Statistics
Matches: 171, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.01
57 131 0.77
58 14 0.08
59 8 0.05
60 13 0.08
61 4 0.02
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (57 bp):
AAAATTACCATTTTGACCCCTAAACTTTCTAAAATTCCATTTTACCCTAATTTTACC
Found at i:7160962 original size:86 final size:88
Alignment explanation
Indices: 7160764--7160973 Score: 238
Period size: 86 Copynumber: 2.4 Consensus size: 88
7160754 AAAATAGTGT
*
7160764 TTTGACCTCC-AAACTTCTCCAAAATTATATTTTGA-CCCTAAAACTTTCTAAAAATTACATTTT
1 TTTGACC-CCTAAACTT-TCCAAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTT
* *
7160827 GACCCCCAAGTTTTACAAAATTCCA
64 GAACCCCAAGTTTTACAAAATACCA
* *
7160852 TTTTACCCCT-AA-TTTCACCAAAATTACATTTTGACCCCT-AAACTTTCT-AAAATTCCATTTT
1 TTTGACCCCTAAACTTT--CCAAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTT
*
7160913 -AACCCTAA-TTTTACCAAAAGTACCA
64 GAACCCCAAGTTTTA-CAAAA-TACCA
* *
7160938 TTTGACCCCTAAACTTTCTAAAATTTCATTTTGACC
1 TTTGACCCCTAAACTTTCCAAAATTACATTTTGACC
7160974 TTAATTTTAC
Statistics
Matches: 105, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
84 5 0.05
85 12 0.11
86 44 0.42
87 31 0.30
88 13 0.12
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.37
Consensus pattern (88 bp):
TTTGACCCCTAAACTTTCCAAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTTGA
ACCCCAAGTTTTACAAAATACCA
Found at i:7161226 original size:16 final size:16
Alignment explanation
Indices: 7161205--7161236 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7161195 CGTATTCGTT
*
7161205 TCGTTTTTTTTGCTTA
1 TCGTTTTATTTGCTTA
7161221 TCGTTTTATTTGCTTA
1 TCGTTTTATTTGCTTA
7161237 GTTATTTTAC
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:0.12, G:0.12, T:0.66
Consensus pattern (16 bp):
TCGTTTTATTTGCTTA
Found at i:7181710 original size:7 final size:8
Alignment explanation
Indices: 7181683--7181713 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
7181673 TTCACTAAAA
7181683 AAAAATTT
1 AAAAATTT
7181691 AAAAATTT
1 AAAAATTT
*
7181699 AAAAATTA
1 AAAAATTT
7181707 AAAAATT
1 AAAAATT
7181714 CTATCATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAATTT
Found at i:7186740 original size:12 final size:13
Alignment explanation
Indices: 7186722--7186751 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
7186712 ATCAATATAC
7186722 TCAAACACAAACA
1 TCAAACACAAACA
7186735 -CAAACACAAACA
1 TCAAACACAAACA
7186747 TCAAA
1 TCAAA
7186752 ATCATCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (13 bp):
TCAAACACAAACA
Found at i:7193031 original size:27 final size:28
Alignment explanation
Indices: 7192989--7193046 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
7192979 ACAGCTTAAT
7192989 TAATTTTTTAAAAAATTAAAAAATATAA
1 TAATTTTTTAAAAAATTAAAAAATATAA
*
7193017 TAATTTTTT-TAAAATTAAAAAATATAA
1 TAATTTTTTAAAAAATTAAAAAATATAA
7193044 TAA
1 TAA
7193047 AAATTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TAATTTTTTAAAAAATTAAAAAATATAA
Found at i:7193053 original size:27 final size:28
Alignment explanation
Indices: 7193000--7193060 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
7192990 AATTTTTTAA
** *
7193000 AAAATTAAAAAATATAAT-AATTTTTTT
1 AAAATTAAAAAATATAATAAAAATTTTC
7193027 AAAATTAAAAAATATAATAAAAATTTTC
1 AAAATTAAAAAATATAATAAAAATTTTC
7193055 AAAATT
1 AAAATT
7193061 TTGAAAGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATTAAAAAATATAATAAAAATTTTC
Found at i:7193777 original size:13 final size:13
Alignment explanation
Indices: 7193759--7193783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7193749 AACTCAACCC
7193759 ATATTTTAAATTA
1 ATATTTTAAATTA
7193772 ATATTTTAAATT
1 ATATTTTAAATT
7193784 TTAAAAAAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTAAATTA
Found at i:7193990 original size:16 final size:16
Alignment explanation
Indices: 7193968--7194005 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7193958 CTCTATATTA
7193968 AAAATTA-CCAAAACC
1 AAAATTATCCAAAACC
*
7193983 ATAAATTATCCAAATCC
1 A-AAATTATCCAAAACC
7194000 AAAATT
1 AAAATT
7194006 GAATGGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTATCCAAAACC
Found at i:7209507 original size:18 final size:17
Alignment explanation
Indices: 7209484--7209518 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7209474 CGTTAGTGTA
*
7209484 TTTAATAATAATTTATTT
1 TTTAATAA-AATTGATTT
7209502 TTTAATAAAATTGATTT
1 TTTAATAAAATTGATTT
7209519 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAATAAAATTGATTT
Found at i:7219088 original size:32 final size:33
Alignment explanation
Indices: 7219052--7219126 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
7219042 AATAATTTTT
*
7219052 ATAAAATATTTT-CAAGAAATTTAT-CAAACAAC
1 ATAAAATATTTTAC-AGAAATTCATCCAAACAAC
* * *
7219084 ATAAAATACTTTACATAAATTCATCCAAACACC
1 ATAAAATATTTTACAGAAATTCATCCAAACAAC
*
7219117 AAAAAATATT
1 ATAAAATATT
7219127 AAACTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (33 bp):
ATAAAATATTTTACAGAAATTCATCCAAACAAC
Found at i:7220075 original size:20 final size:21
Alignment explanation
Indices: 7220045--7220089 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
7220035 TAATATAATA
7220045 ATATATATATTAATTATTATC
1 ATATATATATTAATTATTATC
** *
7220066 ATATAT-TATTGTTTATTATT
1 ATATATATATTAATTATTATC
7220086 ATAT
1 ATAT
7220090 TGTTTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATATATATTAATTATTATC
Found at i:7222558 original size:31 final size:32
Alignment explanation
Indices: 7222520--7222580 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
7222510 TCAATAAGAG
*
7222520 ATATAAAAATTA-TTAAATTTTAATAAAAAAA
1 ATATAAAAAATATTTAAATTTTAATAAAAAAA
*
7222551 ATATAAAAAATATTTAAATTTTATTAAAAA
1 ATATAAAAAATATTTAAATTTTAATAAAAA
7222581 TTAGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
ATATAAAAAATATTTAAATTTTAATAAAAAAA
Found at i:7222645 original size:21 final size:21
Alignment explanation
Indices: 7222621--7222673 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
7222611 AAAATTTTAT
* *
7222621 AAAATTTTACAAAATTGT-AAG
1 AAAATTATA-AAAAATGTAAAG
*
7222642 AAAAATATAAAAAATGTAAAG
1 AAAATTATAAAAAATGTAAAG
7222663 AAAA-TATAAAA
1 AAAATTATAAAA
7222674 TTCATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (21 bp):
AAAATTATAAAAAATGTAAAG
Found at i:7224636 original size:24 final size:22
Alignment explanation
Indices: 7224570--7224642 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
7224560 TTTAAAACTC
7224570 ACAATTA-AATTATATATTTTT
1 ACAATTATAATTATATATTTTT
* ** *
7224591 ACAATAATAAAAATATAATTTT
1 ACAATTATAATTATATATTTTT
7224613 ACAATTATAATTATTTATATTTTT
1 ACAATTATAATTA--TATATTTTT
*
7224637 ATAATT
1 ACAATT
7224643 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 6 0.15
22 21 0.52
24 13 0.32
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
ACAATTATAATTATATATTTTT
Found at i:7227740 original size:14 final size:14
Alignment explanation
Indices: 7227721--7227747 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7227711 GAACATTGAA
7227721 CTTAAACCCTAAAT
1 CTTAAACCCTAAAT
7227735 CTTAAACCCTAAA
1 CTTAAACCCTAAA
7227748 CTCCAAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (14 bp):
CTTAAACCCTAAAT
Found at i:7229024 original size:31 final size:32
Alignment explanation
Indices: 7228986--7229046 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
7228976 TCAATAAGAG
*
7228986 ATATAAAAATTA-TTAAATTTTAATAAAAAAA
1 ATATAAAAAATATTTAAATTTTAATAAAAAAA
*
7229017 ATATAAAAAATATTTAAATTTTATTAAAAA
1 ATATAAAAAATATTTAAATTTTAATAAAAA
7229047 TTAGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
ATATAAAAAATATTTAAATTTTAATAAAAAAA
Found at i:7229087 original size:25 final size:22
Alignment explanation
Indices: 7229032--7229087 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
7229022 AAAAATATTT
7229032 AAATTT-TATTAAAAATTAGAA
1 AAATTTATATTAAAAATTAGAA
*
7229053 AAATTATATATATAGAAATATAGAAA
1 AAATT-TATAT-TAAAAAT-TAG-AA
7229079 AAATTTATA
1 AAATTTATA
7229088 AAATTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 3 0.10
24 6 0.21
25 7 0.24
26 7 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
AAATTTATATTAAAAATTAGAA
Found at i:7229111 original size:21 final size:21
Alignment explanation
Indices: 7229087--7229139 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
7229077 AAAAATTTAT
* *
7229087 AAAATTTTACAAAATTGT-AAG
1 AAAATTATA-AAAAATGTAAAG
*
7229108 AAAAATATAAAAAATGTAAAG
1 AAAATTATAAAAAATGTAAAG
7229129 AAAA-TATAAAA
1 AAAATTATAAAA
7229140 TTCATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (21 bp):
AAAATTATAAAAAATGTAAAG
Found at i:7239692 original size:23 final size:23
Alignment explanation
Indices: 7239666--7239786 Score: 147
Period size: 23 Copynumber: 5.2 Consensus size: 23
7239656 ACACTAGCGC
7239666 GCTCTCTGATTAGCACTCTGTGT
1 GCTCTCTGATTAGCACTCTGTGT
*
7239689 GCTCTCTG-TTCAGCACTGTGTGT
1 GCTCTCTGATT-AGCACTCTGTGT
* *
7239712 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGATTAGCAC-TCTGTGT
*
7239735 GCTCTCTGTTATTAGCACTTTGTGT
1 GCTCTCTG--ATTAGCACTCTGTGT
*
7239760 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTCTGTGT
7239783 GCTC
1 GCTC
7239787 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 2 0.02
23 61 0.71
24 6 0.07
25 17 0.20
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTCTGTGT
Found at i:7239737 original size:46 final size:48
Alignment explanation
Indices: 7239666--7239786 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
7239656 ACACTAGCGC
*
7239666 GCTCTCTGATTAGCACTCTGTGTGCTCTCTG-T-TCAGCACTGTGTGT
1 GCTCTCTGATTAGCACTCTGCGTGCTCTCTGTTATCAGCACTGTGTGT
* * *
7239712 GCTCTCTGTTTAGCACGTCT-CGTGCTCTCTGTTATTAGCACTTTGTGT
1 GCTCTCTGATTAGCAC-TCTGCGTGCTCTCTGTTATCAGCACTGTGTGT
* *
7239760 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTCTGCGTGCTC
7239787 AGTACTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 25 0.39
47 6 0.09
48 33 0.52
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (48 bp):
GCTCTCTGATTAGCACTCTGCGTGCTCTCTGTTATCAGCACTGTGTGT
Found at i:7239805 original size:39 final size:39
Alignment explanation
Indices: 7239751--7239825 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
7239741 TGTTATTAGC
*
7239751 ACTTTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTTGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
*
7239790 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTTGTGTACTCTCTGATTAGCACTTTGTGTGCTC
7239826 TCTGTTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.45
Consensus pattern (39 bp):
ACTTTGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:7242327 original size:12 final size:12
Alignment explanation
Indices: 7242310--7242338 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7242300 TTTTAATTTT
7242310 AATTATTATTAA
1 AATTATTATTAA
7242322 AATTATTATTAA
1 AATTATTATTAA
7242334 AATTA
1 AATTA
7242339 AATAGCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTATTATTAA
Found at i:7249746 original size:18 final size:18
Alignment explanation
Indices: 7249703--7249749 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
7249693 ATAGCAAAAT
7249703 ATATTTTGAAAAGAGAAGA
1 ATATTTTG-AAAGAGAAGA
**
7249722 GGA-TTTGAAAGAGAAGA
1 ATATTTTGAAAGAGAAGA
7249739 ATATTTTGAAA
1 ATATTTTGAAA
7249750 CACAAGCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 11 0.48
18 11 0.48
19 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (18 bp):
ATATTTTGAAAGAGAAGA
Found at i:7258219 original size:145 final size:145
Alignment explanation
Indices: 7258031--7258323 Score: 419
Period size: 146 Copynumber: 2.0 Consensus size: 145
7258021 TATTCCAATG
* ** * *
7258031 CCAACTTAGTAATATAATTAATAATAACGGTTATTTTTATCAATTTAAAA-TTTTTTCAAACTCA
1 CCAACTTAGTAATATAATTAATAATAAAGGGCATATTTATCAATTTAAAAGTTTTATCAAACTCA
*** * *
7258095 GGCTTTTATATAAGGATAATGTAAC-TTTTGACCCTTGAACTTGGTAAGTAAGTTCACGTTGGCC
66 GGCTTTTATATAAGGATAATGTAACTTTTTG-CCCTTGAACTTACCAAGTAAGTCCACATTGGCC
*
7258159 CCTGAACTTTTTTTTAT
130 CCTAAAC-TTTTTTTAT
* *
7258176 CCAATTTAGTAATATAATTAATAATAAAGGGCATATTTGTCAATTTAAAAGTTTTATCAAACTCA
1 CCAACTTAGTAATATAATTAATAATAAAGGGCATATTTATCAATTTAAAAGTTTTATCAAACTCA
* *
7258241 GGCTTTTATATAGGGATAATGTAACTTTTTGCCCTTGAACTTACCAAGTAAGTCCACATTGGCTC
66 GGCTTTTATATAAGGATAATGTAACTTTTTGCCCTTGAACTTACCAAGTAAGTCCACATTGGCCC
7258306 CTAAACTTTTTTTAT
131 CTAAACTTTTTTTAT
7258321 CCA
1 CCA
7258324 CTTTGACACT
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
145 56 0.43
146 70 0.53
147 5 0.04
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (145 bp):
CCAACTTAGTAATATAATTAATAATAAAGGGCATATTTATCAATTTAAAAGTTTTATCAAACTCA
GGCTTTTATATAAGGATAATGTAACTTTTTGCCCTTGAACTTACCAAGTAAGTCCACATTGGCCC
CTAAACTTTTTTTAT
Found at i:7260647 original size:31 final size:30
Alignment explanation
Indices: 7260587--7260648 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
7260577 AAAAATAAAC
* * *
7260587 CTTGATTTTTATCTAAATTTATTTTTATTT
1 CTTGATTTTTATCCAAATTTACTTATATTT
7260617 CTTGTATTTTTATCCAAACTTT-CTTATATTT
1 CTTG-ATTTTTATCCAAA-TTTACTTATATTT
7260648 C
1 C
7260649 AAACGGTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.15
31 20 0.74
32 3 0.11
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (30 bp):
CTTGATTTTTATCCAAATTTACTTATATTT
Found at i:7296545 original size:23 final size:23
Alignment explanation
Indices: 7296472--7296576 Score: 95
Period size: 23 Copynumber: 4.5 Consensus size: 23
7296462 ACATTATTCG
* *
7296472 TGAACTTGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
* * * * **
7296496 TTAACATGTTCGTTTACTATTTG
1 TGAACATGTTCGATTAATGTTCA
7296519 TGAACATGTTCGATTAATGTTCA
1 TGAACATGTTCGATTAATGTTCA
* *
7296542 TGAACATGTTTGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
7296565 TGAACATGTTCG
1 TGAACATGTTCG
7296577 TGAACATTAA
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
22 3 0.05
23 48 0.76
24 12 0.19
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:7299494 original size:12 final size:12
Alignment explanation
Indices: 7299477--7299501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7299467 TTTCAAACGA
7299477 AAATTTTAGGTT
1 AAATTTTAGGTT
7299489 AAATTTTAGGTT
1 AAATTTTAGGTT
7299501 A
1 A
7299502 CACATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
AAATTTTAGGTT
Found at i:7299856 original size:17 final size:18
Alignment explanation
Indices: 7299834--7299877 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
7299824 TTTAAATTTA
*
7299834 TATAAAATATTA-GTTAT
1 TATAAAATATTATATTAT
7299851 TATAAAATATTATATTAT
1 TATAAAATATTATATTAT
7299869 TATAAAATA
1 TATAAAATA
7299878 AATTTCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TATAAAATATTATATTAT
Done.