Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 214 of 222
Found at i:67570374 original size:30 final size:29
Alignment explanation
Indices: 67570312--67570374 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
67570302 CACTACCCAA
* *
67570312 AAACAACTTTAACCCAAATCCACTATCCT
1 AAACAACTTTAACCCAAACCCACTAGCCT
*
67570341 AAACAGCTTTAACCCAAACCCAACTAGCCT
1 AAACAACTTTAACCCAAACCC-ACTAGCCT
67570371 AAAC
1 AAAC
67570375 CCAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.19
Consensus pattern (29 bp):
AAACAACTTTAACCCAAACCCACTAGCCT
Found at i:67582026 original size:44 final size:44
Alignment explanation
Indices: 67581976--67582060 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
67581966 AACAGTGAAG
* *
67581976 TAGATT-GAAGATTACAAGTCCTATGTCCCTGACCAGTAGTGGAA
1 TAGATTGGAA-ATTACAAGTCCTATCTCCCTAACCAGTAGTGGAA
* * *
67582020 TAGATTGGAAATTACGAGTCTTATCTCCCTAAGCAGTAGTG
1 TAGATTGGAAATTACAAGTCCTATCTCCCTAACCAGTAGTG
67582061 TAGTAGACAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.91
45 3 0.09
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TAGATTGGAAATTACAAGTCCTATCTCCCTAACCAGTAGTGGAA
Found at i:67582162 original size:44 final size:44
Alignment explanation
Indices: 67582099--67582528 Score: 221
Period size: 44 Copynumber: 9.3 Consensus size: 44
67582089 CTCTTAGGTC
* * *
67582099 ACAGTAGGGTAGACTGAAGCTAGAAATCTTATCTCCCTGAGATT
1 ACAGTAGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * ** *
67582143 ACAGCAGAGCAGATTGAAGCTTGTGATCCTATCTCCCTGAGATT
1 ACAGTAGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* ** * * *
67582187 ACAGTGGAGTGGATTAAAAC-A-AAGGATCTTATCTCTCTGA-AGTT
1 ACAGTAGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
*
67582231 ACAGTAGAGTAGATCACATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGT--AG-AG-------CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
** *
67582285 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATT
1 ACAGTAGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * * * **
67582329 ACAGTGGAACGGATTAAAAC-A-AAGGATCTTATCTATCTGA-AGTT
1 ACAGTAGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
*
67582373 ACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 AC-----AGTAGA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * * *
67582427 ACAGCAGAACAAATTGAAGCTAGTAATCTTATCTCCCTCAGATT
1 ACAGTAGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * *
67582471 ACAGTGGAGCAGATTAAAGC-A-AATGATCTTATCTCTCTGA-AGTT
1 ACAGTAGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
*
67582515 ACAGTAGAGTAGAT
1 ACAGTAGAGCAGAT
67582529 CGCATCAGAT
Statistics
Matches: 291, Mismatches: 60, Indels: 70
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
44 208 0.71
46 1 0.00
47 2 0.01
49 10 0.03
51 2 0.01
52 1 0.00
54 52 0.18
55 4 0.01
56 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAGTAGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
Found at i:67582331 original size:98 final size:97
Alignment explanation
Indices: 67582152--67582644 Score: 334
Period size: 98 Copynumber: 5.1 Consensus size: 97
67582142 TACAGCAGAG
* * * ** *
67582152 CAGATTGAAGCTTGTGATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAACAAAGGATCTT
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGC-AAGGATCTT
67582217 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
65 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
* * * * * *
67582250 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTT
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAAG-GATCTT
* * *** * * *
67582315 ATCTCCCTG-AGATTACAGTGGAACGGATTAAAA
65 ATCTCTCTGAAG-TTACAGTAGAGTAGATCACAT
* * * * * ** ** * * * * * * * *
67582348 CA-A-AGGATCTTA-TCTATCTGAAGTTACAGTAGAGTAGA-TCGCATCAGATTGAAGCCAGAAA
1 CAGATTGAAGC-TAGT-AATCTTATCTCCCTG-AGATTACAGT-GGAGCAGATTAAAGCAAG-GA
* *
67582409 TCTTATCTCCCTG-AGATTAC-----AGCAGA--ACA-
61 TCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCACAT
* *
67582438 -A-ATTGAAGCTAGTAATCTTATCTCCCTCAGATTACAGTGGAGCAGATTAAAGCAAATGATCTT
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGC-AAGGATCTT
*
67582501 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
* * * *
67582534 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGGTCTT
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGC-AAGGATCTT
** *
67582599 ATCTCTCTGAAGTTACAACAGAGTAGATCGCAT
65 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
67582632 CAGATTGAAGCTA
1 CAGATTGAAGCTA
67582645 CAATAGCAAA
Statistics
Matches: 302, Mismatches: 72, Indels: 42
0.73 0.17 0.10
Matches are distributed among these distances:
88 35 0.12
89 15 0.05
90 4 0.01
91 2 0.01
93 9 0.03
95 2 0.01
96 3 0.01
97 15 0.05
98 217 0.72
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAAGGATCTTA
TCTCTCTGAAGTTACAGTAGAGTAGATCACAT
Found at i:67582538 original size:54 final size:54
Alignment explanation
Indices: 67582480--67582642 Score: 132
Period size: 54 Copynumber: 3.2 Consensus size: 54
67582470 TACAGTGGAG
67582480 CAGATTAAAGCAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
1 CAGATTAAAGCAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * * * *
67582534 CAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGT-G-G-AG--CG---
1 CAGATTAAAGCAAATGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCAT
* * * **
67582580 --GATTAAAACAAAGGGTCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCAT
1 CAGATTAAAGCAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
67582632 CAGATTGAAGC
1 CAGATTAAAGC
67582643 TACAATAGCA
Statistics
Matches: 78, Mismatches: 19, Indels: 24
0.64 0.16 0.20
Matches are distributed among these distances:
44 24 0.31
45 3 0.04
46 1 0.01
47 2 0.03
49 4 0.05
51 2 0.03
52 1 0.01
53 3 0.04
54 38 0.49
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (54 bp):
CAGATTAAAGCAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:67582615 original size:142 final size:142
Alignment explanation
Indices: 67582113--67582572 Score: 758
Period size: 142 Copynumber: 3.2 Consensus size: 142
67582103 TAGGGTAGAC
* * * *
67582113 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTTGTGATCCTATCTC
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTTATCTC
*
67582178 CCTGAGATTACAGTGGAGTGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
*
67582243 ATCACATCAGAT
131 ATCGCATCAGAT
*
67582255 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTC
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTTATCTC
* *
67582320 CCTGAGATTACAGTGGAACGGATTAAAACAAAGGATCTTATCTATCTGAAGTTACAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
67582385 ATCGCATCAGAT
131 ATCGCATCAGAT
* *
67582397 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAACAAATTGAAGCTAGTAATCTTATCTC
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTTATCTC
* * * *
67582462 CCTCAGATTACAGTGGAGCAGATTAAAGCAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
67582527 ATCGCATCAGAT
131 ATCGCATCAGAT
* * *
67582539 TGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAG
67582573 TGGAGCGGAT
Statistics
Matches: 297, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 297 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (142 bp):
TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTTATCTC
CCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
ATCGCATCAGAT
Found at i:67583049 original size:30 final size:29
Alignment explanation
Indices: 67583013--67583074 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
67583003 CTAACGGCCT
*
67583013 AAATCCATTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-AAAACAACTTTAACCC
* * *
67583043 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCAAAACAACTTTAACCC
67583072 AAA
1 AAA
67583075 CTCAACTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (29 bp):
AAATCCACTACCCAAAACAACTTTAACCC
Found at i:67583066 original size:29 final size:30
Alignment explanation
Indices: 67583028--67583090 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
67583018 CATTACCCAA
* *
67583028 AAACAACTTTAACCCAAA-TCCACTATCCT
1 AAACAACTTTAACCCAAACTCAACTAGCCT
*
67583057 AAACAGCTTTAACCCAAACTCAACTAGCCT
1 AAACAACTTTAACCCAAACTCAACTAGCCT
67583087 AAAC
1 AAAC
67583091 CCAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.21
Consensus pattern (30 bp):
AAACAACTTTAACCCAAACTCAACTAGCCT
Found at i:67586226 original size:15 final size:15
Alignment explanation
Indices: 67586203--67586235 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
67586193 AAAGATCTAA
67586203 AAATAAAATAAAATT
1 AAATAAAATAAAATT
*
67586218 AAATTAAATAAAATT
1 AAATAAAATAAAATT
67586233 AAA
1 AAA
67586236 CTTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATAAAATT
Found at i:67586247 original size:7 final size:7
Alignment explanation
Indices: 67586226--67586263 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
67586216 TTAAATTAAA
67586226 TAAAA-T
1 TAAAATT
*
67586232 TAAACTT
1 TAAAATT
67586239 TAAAATT
1 TAAAATT
67586246 TAAAATT
1 TAAAATT
67586253 TAAAATT
1 TAAAATT
67586260 TAAA
1 TAAA
67586264 CTATAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:67586255 original size:21 final size:21
Alignment explanation
Indices: 67586225--67586272 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
67586215 ATTAAATTAA
*
67586225 ATAAAA-TTAAACTTTAAAAT
1 ATAAAATTTAAAATTTAAAAT
* *
67586245 TTAAAATTTAAAATTTAAACT
1 ATAAAATTTAAAATTTAAAAT
67586266 ATAAAAT
1 ATAAAAT
67586273 AAACTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAATTTAAAATTTAAAAT
Found at i:67586270 original size:14 final size:14
Alignment explanation
Indices: 67586225--67586272 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
67586215 ATTAAATTAA
67586225 ATAAAA-TTAAACT
1 ATAAAATTTAAACT
* *
67586238 TTAAAATTTAAAAT
1 ATAAAATTTAAACT
*
67586252 TTAAAATTTAAACT
1 ATAAAATTTAAACT
67586266 ATAAAAT
1 ATAAAAT
67586273 AAACTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 5 0.17
14 25 0.83
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAAATTTAAACT
Found at i:67594857 original size:51 final size:51
Alignment explanation
Indices: 67594781--67594893 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
67594771 CTAATCAGTA
*
67594781 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
* *
67594832 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACGAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
67594883 ACAAGTGATAA
1 ACAAGTGATAA
67594894 ATGTGATCCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
Found at i:67594957 original size:48 final size:48
Alignment explanation
Indices: 67594905--67595042 Score: 156
Period size: 48 Copynumber: 2.9 Consensus size: 48
67594895 TGTGATCCAT
67594905 GTAAGACCATATCTGGGATATGGCATCGATGTGATATGTGATTT-TCGA
1 GTAAGACCATATCTGGGATATGGCATCGATGTGATATGTGATTTCT-GA
* *
67594953 GTAAGACCATATCTGGGATATGGCATC-AGTGTAATATGTG-TTTCTGT
1 GTAAGACCATATCTGGGATATGGCATCGA-TGTGATATGTGATTTCTGA
* * * * *
67595000 GTAAGATCATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGA
1 GTAAGACCATATCTGGGATATGGCATC-G-ATGTGATATGTGA
67595043 CGATGTGCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
47 28 0.37
48 38 0.50
49 10 0.13
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (48 bp):
GTAAGACCATATCTGGGATATGGCATCGATGTGATATGTGATTTCTGA
Found at i:67600842 original size:68 final size:68
Alignment explanation
Indices: 67600733--67600868 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
67600723 ATAAAACTTT
* * *
67600733 CCCTTGTAAGCTTAGTAGTAAATCCAAGTAGCTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
1 CCCTTGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
67600798 TAG
66 TAG
* *
67600801 CCCTTGTAAGCTTAGCCGTAAAACCAAGTAACTTGTTTGAGTTTTACTTAAAAATGTACTCTAAA
1 CCCTTGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
67600866 TAG
66 TAG
67600869 GCTAAGAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (68 bp):
CCCTTGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
TAG
Found at i:67602832 original size:27 final size:25
Alignment explanation
Indices: 67602781--67602832 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
67602771 AATATTTAAA
*
67602781 AAATGTCTGAATTATTGTATTTTTT
1 AAATGTCTGAATTAATGTATTTTTT
67602806 AAATGTCAATGAATTAAT-TATTGTTTT
1 AAATGTC--TGAATTAATGTATT-TTTT
67602833 TTCCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (25 bp):
AAATGTCTGAATTAATGTATTTTTT
Found at i:67616121 original size:34 final size:34
Alignment explanation
Indices: 67616083--67616150 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
67616073 GTATGAGTAT
67616083 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
1 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
67616117 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
1 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
67616151 GATAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (34 bp):
ATTTAGCTTTTTTAAATGACATAATAATAATTGA
Found at i:67637933 original size:25 final size:28
Alignment explanation
Indices: 67637899--67637960 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
67637889 TATTAAAATT
67637899 AAATTAAATTAT-ATTTTTT-TAATATA
1 AAATTAAATTATAATTTTTTATAATATA
* *
67637925 AAATT-AATTTTAATTTTTTATGATATA
1 AAATTAAATTATAATTTTTTATAATATA
*
67637952 AAAATAAAT
1 AAATTAAAT
67637961 ATTTTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 5 0.17
26 12 0.40
27 10 0.33
28 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AAATTAAATTATAATTTTTTATAATATA
Found at i:67639647 original size:29 final size:32
Alignment explanation
Indices: 67639615--67639674 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
67639605 TTTTTGCTTC
67639615 TTTCTTCAATCTAG-CCC-AATTGT-TTCCTT
1 TTTCTTCAATCTAGCCCCGAATTGTATTCCTT
* *
67639644 TTTCTTCTATTTAGCCCCGAATTGTATTCCT
1 TTTCTTCAATCTAGCCCCGAATTGTATTCCT
67639675 GCACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 6 0.23
32 5 0.19
ACGTcount: A:0.17, C:0.27, G:0.08, T:0.48
Consensus pattern (32 bp):
TTTCTTCAATCTAGCCCCGAATTGTATTCCTT
Found at i:67640740 original size:19 final size:19
Alignment explanation
Indices: 67640716--67640768 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
67640706 GTTTTCCTAC
*
67640716 AAAAATAAAATAAAATAGT
1 AAAAATAAAATAAAATAGG
67640735 AAAAAT-AAATAATAATAGG
1 AAAAATAAAATAA-AATAGG
*
67640754 AAAATTAAAA-AAAAT
1 AAAAATAAAATAAAAT
67640769 TTCTTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 18 0.60
20 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAAATAAAATAAAATAGG
Found at i:67650596 original size:12 final size:12
Alignment explanation
Indices: 67650579--67650606 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
67650569 GTTTTTATTT
67650579 TATAATATAATA
1 TATAATATAATA
67650591 TATAATATAATA
1 TATAATATAATA
67650603 TATA
1 TATA
67650607 TTCTTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATATAATA
Found at i:67651561 original size:45 final size:44
Alignment explanation
Indices: 67651497--67651581 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
67651487 GGTCAATACA
* *
67651497 AAAATATATATTTTTAATTTTAATTTATTTTTTAATTATTTTTACC
1 AAAATATATA-TTTTAAATTTAATTT-TTTATTAATTATTTTTACC
*
67651543 AAAA-ATATATTTTAAATTTAATTTTTTATTATTTATTTT
1 AAAATATATATTTTAAATTTAATTTTTTATTAATTATTTT
67651582 AGATTTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 13 0.36
44 14 0.39
45 5 0.14
46 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (44 bp):
AAAATATATATTTTAAATTTAATTTTTTATTAATTATTTTTACC
Found at i:67658441 original size:42 final size:43
Alignment explanation
Indices: 67658382--67658469 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 43
67658372 TTACACAGTG
67658382 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTG-AGC
1 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
67658424 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
1 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
67658467 TCT
1 TCT
67658470 GATCAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 39 0.87
43 6 0.13
ACGTcount: A:0.15, C:0.22, G:0.14, T:0.50
Consensus pattern (43 bp):
TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
Found at i:67658598 original size:20 final size:21
Alignment explanation
Indices: 67658551--67658598 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
67658541 AATATTAGTT
*
67658551 TTAAT-TAAAATAATATATTT
1 TTAATATAAAATAATATATTA
*
67658571 TTTA-ATAAAATAATA-ATTA
1 TTAATATAAAATAATATATTA
67658590 TTAATATAA
1 TTAATATAA
67658599 TGACATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATATAAAATAATATATTA
Found at i:67661946 original size:16 final size:18
Alignment explanation
Indices: 67661907--67661948 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
67661897 TAAGTTTATA
67661907 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
67661924 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
67661941 A-ATTTATA
1 ATATTTATA
67661949 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:67666070 original size:9 final size:9
Alignment explanation
Indices: 67666056--67666110 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
67666046 TTTGGTTAAA
*
67666056 AATTACCCG
1 AATTAACCG
*
67666065 AATTACCCG
1 AATTAACCG
67666074 AATTAACCG
1 AATTAACCG
67666083 AATTAACCG
1 AATTAACCG
67666092 AATTAACCG
1 AATTAACCG
67666101 AATT-ACCG
1 AATTAACCG
67666109 AA
1 AA
67666111 AAATACCCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
8 6 0.13
9 39 0.87
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:67666838 original size:13 final size:14
Alignment explanation
Indices: 67666805--67666843 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
67666795 ATTGATACAA
67666805 AATTTTAATATTTT
1 AATTTTAATATTTT
*
67666819 AAATTTAAT-TTTT
1 AATTTTAATATTTT
*
67666832 ATTTTTAATATT
1 AATTTTAATATT
67666844 CAAACTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATTTTAATATTTT
Found at i:67668557 original size:16 final size:17
Alignment explanation
Indices: 67668536--67668569 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
67668526 TCTTTAGATA
*
67668536 TTTAAA-TATTTTAATT
1 TTTAAATTATTATAATT
67668552 TTTAAATTATTATAATT
1 TTTAAATTATTATAATT
67668569 T
1 T
67668570 GATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTATTATAATT
Found at i:67669410 original size:9 final size:9
Alignment explanation
Indices: 67669398--67669435 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
67669388 ATTTAATATT
67669398 ATTATAAAA
1 ATTATAAAA
*
67669407 ATTATAACA
1 ATTATAAAA
67669416 ATTATAAAA
1 ATTATAAAA
67669425 ATTATAAAA
1 ATTATAAAA
67669434 AT
1 AT
67669436 ATTTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:67669770 original size:17 final size:17
Alignment explanation
Indices: 67669748--67669786 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
67669738 GTAATAAAAG
67669748 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
67669765 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
67669782 TAAAA
1 TAAAA
67669787 GGTACCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (17 bp):
TAAAACCCTTTGACTTT
Found at i:67670134 original size:29 final size:30
Alignment explanation
Indices: 67670078--67670143 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
67670068 ATTTATAAAA
* * *
67670078 AATTAAATTAAATAAAAAATTTACATATA-
1 AATTACATAAAATAAAAAATTGACATATAT
*
67670107 AAGTTACATAAAAT-AAAAATTGATATATAT
1 AA-TTACATAAAATAAAAAATTGACATATAT
67670137 AATTACA
1 AATTACA
67670144 AAACTCGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (30 bp):
AATTACATAAAATAAAAAATTGACATATAT
Found at i:67674177 original size:22 final size:23
Alignment explanation
Indices: 67674158--67674200 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
67674148 CTTTTTTTAG
*
67674158 GCTTTAATTTGGTAA-CTTTTGT
1 GCTTTAATTTGATAACCTTTTGT
67674180 GCTTTAATTTGATAACCTTTT
1 GCTTTAATTTGATAACCTTTT
67674201 TTTACAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.53
Consensus pattern (23 bp):
GCTTTAATTTGATAACCTTTTGT
Found at i:67675182 original size:114 final size:114
Alignment explanation
Indices: 67675020--67675244 Score: 389
Period size: 114 Copynumber: 2.0 Consensus size: 114
67675010 CTAATTTTTA
*
67675020 ACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAAAATACAAATATGTATTT
1 ACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAAAATACAAACATGTATTT
*
67675085 GAATTTAGGAATTTAAATAATTATAAAATGATATTTTAGATAGAATATG
66 GAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAATATG
* * *
67675134 ACTTAACTGTCTTATAAGCATGACC-AGAGTTTATTAATCATAAATGAAACTGCAAACATGTATT
1 ACTTAACTGTCTTATAAACATGACCGA-AGTTTATTAATCATAAATGAAAATACAAACATGTATT
67675198 TGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
65 TGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
67675245 TTTGTTACTT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
113 1 0.01
114 104 0.99
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (114 bp):
ACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAAAATACAAACATGTATTT
GAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAATATG
Found at i:67680813 original size:25 final size:25
Alignment explanation
Indices: 67680785--67680865 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
67680775 AGCGCTCTCT
*
67680785 TGAGCCATATAATGGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATG
* * *
67680810 TGAGCCATATAACAGAAAGCTCATA
1 TGAGCCATATAATAGGAAGCTCATG
* *
67680835 AGAGCCATA-ATTAGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATG
*
67680859 CGAGCCA
1 TGAGCCA
67680866 ATACTTGGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
24 17 0.37
25 29 0.63
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (25 bp):
TGAGCCATATAATAGGAAGCTCATG
Found at i:67680984 original size:26 final size:25
Alignment explanation
Indices: 67680955--67681013 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
67680945 GAAGCTCCGG
67680955 AGAGCCATTAATCAGGAAACTCACAA
1 AGAGCCATTAATCAGGAAACTC-CAA
* * * *
67680981 AGAGCCTTTAATCGGGAAGCTCCGA
1 AGAGCCATTAATCAGGAAACTCCAA
67681006 AGAGCCAT
1 AGAGCCAT
67681014 ATATCGGGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAACTCCAA
Found at i:67681019 original size:25 final size:25
Alignment explanation
Indices: 67680875--67681027 Score: 95
Period size: 25 Copynumber: 6.2 Consensus size: 25
67680865 AATACTTGGT
* *
67680875 AGCTCCGATGAGCCAT-TAACGGGA
1 AGCTCCGAAGAGCCATATATCGGGA
* * *
67680899 AGCTCCGGATAGCCATATATCTGGA
1 AGCTCCGAAGAGCCATATATCGGGA
* *
67680924 AG-TTC-AAGTG--AGTCATATCGGGA
1 AGCTCCGAAGAGCCA-T-ATATCGGGA
* *
67680947 AGCTCCGGAGAGCCAT-TAATCAGGA
1 AGCTCCGAAGAGCCATAT-ATCGGGA
* * *
67680972 AACTCACAAAGAGCC-TTTAATCGGGA
1 AGCTC-CGAAGAGCCATAT-ATCGGGA
67680998 AGCTCCGAAGAGCCATATATCGGGA
1 AGCTCCGAAGAGCCATATATCGGGA
*
67681023 CGCTC
1 AGCTC
67681028 ATAAGAACTG
Statistics
Matches: 96, Mismatches: 22, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 12 0.12
24 18 0.19
25 41 0.43
26 22 0.23
27 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.20
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATATATCGGGA
Found at i:67685533 original size:30 final size:28
Alignment explanation
Indices: 67685478--67685535 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
67685468 TAATGGTAAG
* *
67685478 ATATATATATTACATTCTCAAATAATAT
1 ATATATATATTAAATTCTAAAATAATAT
*
67685506 ATATATATATTTAAATTTTAAAGATAATAT
1 ATATATATA-TTAAATTCTAAA-ATAATAT
67685536 TATTGAGAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATATATATATTAAATTCTAAAATAATAT
Found at i:67685895 original size:2 final size:2
Alignment explanation
Indices: 67685876--67685914 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
67685866 AAGATACTTT
*
67685876 TA TA TA -A TCA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67685915 TGTGTAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67686550 original size:14 final size:13
Alignment explanation
Indices: 67686522--67686546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67686512 TGTCTATTCT
67686522 TTTTTAATATTTA
1 TTTTTAATATTTA
67686535 TTTTTAATATTT
1 TTTTTAATATTT
67686547 TATTATACCT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:67687502 original size:37 final size:37
Alignment explanation
Indices: 67687458--67687586 Score: 249
Period size: 37 Copynumber: 3.5 Consensus size: 37
67687448 CACTTGTCCC
67687458 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
67687495 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
67687532 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
67687569 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
67687587 TAAAGCTATC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:67687546 original size:74 final size:72
Alignment explanation
Indices: 67687441--67687586 Score: 256
Period size: 74 Copynumber: 2.0 Consensus size: 72
67687431 TACGTATGAT
67687441 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
67687506 GTGTAGC
66 GTGTAGC
* *
67687513 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
67687578 AAGTGTAGC
64 AAGTGTAGC
67687587 TAAAGCTATC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 10 0.14
73 3 0.04
74 57 0.81
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (72 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
GTGTAGC
Found at i:67687635 original size:52 final size:52
Alignment explanation
Indices: 67687567--67687766 Score: 277
Period size: 52 Copynumber: 3.9 Consensus size: 52
67687557 CACTTTGTTT
*
67687567 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
*
67687619 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
* * * *
67687665 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
* *
67687717 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT-TCACTTG
67687767 ATCAGAAGTA
Statistics
Matches: 130, Mismatches: 11, Indels: 13
0.84 0.07 0.08
Matches are distributed among these distances:
46 43 0.33
49 1 0.01
52 80 0.62
53 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (52 bp):
CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
Found at i:67687672 original size:46 final size:46
Alignment explanation
Indices: 67687600--67687772 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
67687590 AGCTATCACT
*
67687600 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
67687645 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
67687691 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
67687743 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
67687773 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:67687691 original size:98 final size:98
Alignment explanation
Indices: 67687549--67687772 Score: 349
Period size: 98 Copynumber: 2.3 Consensus size: 98
67687539 ATAAGTGTAG
* ** * * *
67687549 CCACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
67687614 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
67687647 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
67687712 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
67687745 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
67687773 AGTACTCAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:67690524 original size:8 final size:9
Alignment explanation
Indices: 67690500--67690524 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67690490 ACCTTTTTGA
67690500 AAATTTTTC
1 AAATTTTTC
67690509 AAATTTTTC
1 AAATTTTTC
67690518 AAATTTT
1 AAATTTT
67690525 AAAAATATAT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTC
Found at i:67691039 original size:31 final size:30
Alignment explanation
Indices: 67691004--67691073 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
67690994 GTTATAAAAT
67691004 AGTCACTAA-TCGATTCAGAAA-TTTTTATTTA
1 AGTCACTAACT-G-TTCA-AAAGTTTTTATTTA
* *
67691035 AGTCAGTGAACTGTTCAAAAGTTTTTATTTT
1 AGTCACT-AACTGTTCAAAAGTTTTTATTTA
67691066 AGTCACTA
1 AGTCACTA
67691074 GGTTGTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
30 4 0.12
31 25 0.76
32 3 0.09
33 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (30 bp):
AGTCACTAACTGTTCAAAAGTTTTTATTTA
Found at i:67692235 original size:12 final size:13
Alignment explanation
Indices: 67692210--67692234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67692200 AAATTATTTA
67692210 AAAATGATTTTTT
1 AAAATGATTTTTT
67692223 AAAATGATTTTT
1 AAAATGATTTTT
67692235 ATTTTTTAAC
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AAAATGATTTTTT
Found at i:67697711 original size:17 final size:17
Alignment explanation
Indices: 67697689--67697725 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
67697679 CAATATTTGT
67697689 AATTTACCTATTTCTAA
1 AATTTACCTATTTCTAA
67697706 AATTTACCTATTTCTAA
1 AATTTACCTATTTCTAA
67697723 AAT
1 AAT
67697726 AAATTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTACCTATTTCTAA
Found at i:67701833 original size:21 final size:21
Alignment explanation
Indices: 67701809--67701848 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
67701799 ACGCGTCTGA
**
67701809 CACCAGCTGCCACCGCCCAAG
1 CACCAGCCACCACCGCCCAAG
*
67701830 CACCTGCCACCACCGCCCA
1 CACCAGCCACCACCGCCCA
67701849 TGCCCACTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.57, G:0.15, T:0.05
Consensus pattern (21 bp):
CACCAGCCACCACCGCCCAAG
Found at i:67713786 original size:27 final size:28
Alignment explanation
Indices: 67713734--67713796 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
67713724 TCGGTCAGGG
*
67713734 TCGGTTAATAATTTTTTGAAAGTTCGGT
1 TCGGTTAATAATTTTTTGAAAGTTCGAT
* * *
67713762 TCGGTTAAT-TTTTTTTTAAATTTCGAT
1 TCGGTTAATAATTTTTTGAAAGTTCGAT
*
67713789 TTGGTTAA
1 TCGGTTAA
67713797 CAGTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.24, C:0.06, G:0.17, T:0.52
Consensus pattern (28 bp):
TCGGTTAATAATTTTTTGAAAGTTCGAT
Found at i:67714435 original size:6 final size:6
Alignment explanation
Indices: 67714424--67714450 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
67714414 AGAAATTGAT
67714424 GCTCAA GCTCAA GCTCAA GCTCAA GCT
1 GCTCAA GCTCAA GCTCAA GCTCAA GCT
67714451 TATCACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (6 bp):
GCTCAA
Found at i:67719358 original size:30 final size:31
Alignment explanation
Indices: 67719324--67719383 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
67719314 AAAAATCCGA
*
67719324 AAGCTCTAACTA-AATTTTTAAAACTTTTGG
1 AAGCTCTAACTAGAAATTTTAAAACTTTTGG
* * *
67719354 AAGCTTTAATTAGAAATTTTAAAAGTTTTG
1 AAGCTCTAACTAGAAATTTTAAAACTTTTG
67719384 AAGGACCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (31 bp):
AAGCTCTAACTAGAAATTTTAAAACTTTTGG
Found at i:67721710 original size:23 final size:24
Alignment explanation
Indices: 67721669--67721717 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
67721659 GGTCCACGTG
67721669 TATTAATAATTATATATTTTTATAA
1 TATTAATAA-TATATATTTTTATAA
*
67721694 TATTAATAA-ATATATTTTTTTAA
1 TATTAATAATATATATTTTTATAA
67721717 T
1 T
67721718 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
25 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTAATAATATATATTTTTATAA
Found at i:67727193 original size:19 final size:20
Alignment explanation
Indices: 67727150--67727195 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
67727140 AAAATTTCAT
*
67727150 TTATAAAATTATATATTAAA
1 TTATAAAATTATATATAAAA
67727170 -T-TAAAATT-TATATAAAA
1 TTATAAAATTATATATAAAA
67727187 TTATAAAAT
1 TTATAAAAT
67727196 AATGAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTATAAAATTATATATAAAA
Found at i:67733976 original size:31 final size:31
Alignment explanation
Indices: 67733941--67734005 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
67733931 AATAGCTCAA
* *
67733941 TGACTTAGATAAAAACTTTTGTATAGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
* *
67733972 TGACTTAAATGAAAACTTTTGAATGGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
67734003 TGA
1 TGA
67734006 TCAATTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTTAG
Found at i:67738769 original size:25 final size:25
Alignment explanation
Indices: 67738741--67738793 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
67738731 GTTTATATAG
67738741 TATAAATTAT-TATTATTATTTAA-AT
1 TATAAATTATATA-TATT-TTTAACAT
*
67738766 TATATATTATATATATTTTTAACAT
1 TATAAATTATATATATTTTTAACAT
67738791 TAT
1 TAT
67738794 TCGGGCTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 18 0.72
26 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TATAAATTATATATATTTTTAACAT
Found at i:67738773 original size:22 final size:25
Alignment explanation
Indices: 67738748--67738793 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 25
67738738 TAGTATAAAT
67738748 TATTAT-TAT-TATTTAA-ATTATA
1 TATTATATATATATTTAACATTATA
*
67738770 TATTATATATATTTTTAACATTAT
1 TATTATATATATATTTAACATTAT
67738794 TCGGGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 6 0.30
25 5 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTATATATATATTTAACATTATA
Found at i:67752761 original size:8 final size:8
Alignment explanation
Indices: 67752745--67752780 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
67752735 CAGACTCAAA
*
67752745 AAAAAATC
1 AAAATATC
67752753 AAAATATC
1 AAAATATC
67752761 AAAATATC
1 AAAATATC
67752769 AAAATATC
1 AAAATATC
67752777 AAAA
1 AAAA
67752781 GAAAAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAATATC
Found at i:67755138 original size:86 final size:86
Alignment explanation
Indices: 67754902--67755665 Score: 1223
Period size: 86 Copynumber: 8.9 Consensus size: 86
67754892 CAGATCAGTG
67754902 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
67754967 TGGTTGCAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
*
67754988 AAGAA--AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
67755051 TGGTTGCAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* *
67755072 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCATGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
67755137 TGGTTGCAGTGTAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
*
67755158 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
* *
67755223 TGGTTACAGTGGAGCTAGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* *
67755244 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTG--AA-AAAGCCTTGCCTTTAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
67755306 TGGTTACAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* * * *
67755327 AAGAATCAGATCTTGTCTTACTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
67755392 TGGTTGCAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* *
67755413 AAGAAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
67755478 TGGTTGCAGTGGAGCTGGTCA
66 TGGTTGCAGTGGAGCTGGTTA
* * * *
67755499 AAGATAGCATATCTTGCCTTTCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
1 AAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
* * * *
67755564 TTGGCTGCAATGGAGCTAGTTG
65 TTGGTTGCAGTGGAGCTGGTTA
* *
67755586 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
*
67755651 TCGGTTGCAGTGGAG
65 TTGGTTGCAGTGGAG
67755666 TAGATTGAAG
Statistics
Matches: 631, Mismatches: 41, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
83 73 0.12
84 85 0.13
85 2 0.00
86 323 0.51
87 148 0.23
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (86 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
TGGTTGCAGTGGAGCTGGTTA
Found at i:67755392 original size:255 final size:257
Alignment explanation
Indices: 67754902--67755665 Score: 1221
Period size: 255 Copynumber: 3.0 Consensus size: 257
67754892 CAGATCAGTG
67754902 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
67754967 TGGTTGCAGTGGAGCTGGTTAAAGAA--AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
66 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
67755030 AAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTG
131 -AAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTG
* * *
67755095 CGTTAACAGCGAAGCAGATCAAAAACAAAGCCATGCCTTCATTGGTTGCAGTGTAGCTGGTTA
195 CGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
*
67755158 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
* * * *
67755223 TGGTTACAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTG
66 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
* * * * *
67755288 -AA-AAAGCCTTGCCTTTATTGGTTACAGTGGAGCTGGTTAAAGAATCAGATCTTGTCTTACTGC
131 AAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGC
*
67755351 ATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
196 GTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
* *
67755413 AAGAAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
* * * *
67755478 TGGTTGCAGTGGAGCTGGTCAAAGATAGCATATCTTGCCTTTCTGCATTAACAACGAAGCAGATC
66 TGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* * * *
67755543 GAAAACAAAGCCTTGCCTTCATTGGCTGCAATGGAGCTAGTTGAAGATAGCAGATCTTGCCTTCC
130 G-AAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCC
* * *
67755608 TGCGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
193 TGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAG
67755666 TAGATTGAAG
Statistics
Matches: 463, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
255 198 0.43
256 125 0.27
258 37 0.08
259 35 0.08
260 68 0.15
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (257 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
AAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGC
GTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
Found at i:67755787 original size:44 final size:44
Alignment explanation
Indices: 67755681--67756248 Score: 238
Period size: 44 Copynumber: 12.8 Consensus size: 44
67755671 TGAAGCCAGA
* * * *
67755681 GATCTTATCTCCCTG-AGATTGCAGCGGAGCAGATT-AAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACAG
* * * ** *
67755724 TATCCTATCTCCCTAAAGTTACAGTGGAGTGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG
* ** * ***
67755768 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-CAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG
* * * ** *
67755810 G-TCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TACAG
* * **
67755855 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG
* * * *
67755898 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCAAAGACAC
1 -GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACAG
* * * * * *
67755942 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAAAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG
* * *
67755986 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGATTAAAA-CCAAG
1 GATCTTATCTCCCTGAAGTT--A-C--AGT-G---G-AGCAGATTAAAATAC-AG
* * *** *
67756040 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCGCA-CCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG
* * * *
67756082 G-TCTTATTTCCCT-AAGATTACAGTGGAACAGACTGAAGAATTTCA-
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTAA-AA-TACAG
* * *
67756127 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATT-GAA-GCTAG
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAC-AG
* * * *
67756170 TAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACAG
* * *
67756215 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
67756249 CGCATCAGGT
Statistics
Matches: 394, Mismatches: 92, Indels: 77
0.70 0.16 0.14
Matches are distributed among these distances:
40 3 0.01
41 50 0.13
42 9 0.02
43 64 0.16
44 155 0.39
45 11 0.03
46 61 0.15
47 1 0.00
49 6 0.02
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 30 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG
Found at i:67755863 original size:87 final size:88
Alignment explanation
Indices: 67755766--67756284 Score: 306
Period size: 87 Copynumber: 5.8 Consensus size: 88
67755756 ATTAAAATAA
* * * * * *
67755766 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTAC
1 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGATTAC
*
67755831 AGTGGAGTAGACCGAAGAATTTC
66 AGTGGAGCAGACCGAAGAATTTC
* * * *
67755854 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
1 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAA-TCAG-G-TCTTATCTCCCTGAGAT
* * *
67755918 TACAGCGGAGCAGATCAAAG-A---C
63 TACAGTGGAGCAGACCGAAGAATTTC
** * * * * * * *
67755940 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGA-AG
1 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG-AAT--CAGGTCTTATCTCCCTGAGA-
** * * *
67756004 TTACAGCAGAGTAGATCGCATCAG-ATTAAAACC
62 TTACAGTGGAGCAGACCG-A--AGAATT----TC
* * * * *
67756037 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTAAGATTA
1 -AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGATTA
* *
67756102 CAGTGGAACAGACTGAAGAATTTC
65 CAGTGGAGCAGACCGAAGAATTTC
** * * * *
67756126 A-GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 AGGATCTTATCTCCCTGAAG-TTACAGTAGAGCAGATCGAATC-AG--GTCTTATCTCCCTGAGA
* ** **
67756189 TTACAGTGGAGCGGA-TTAA-AA-TAA
62 TTACAGTGGAGCAGACCGAAGAATTTC
* * * * * * *
67756213 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGTGGTTAC
1 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGATTAC
67756278 AGTGGAG
66 AGTGGAG
67756285 TACATAGAAG
Statistics
Matches: 330, Mismatches: 74, Indels: 57
0.72 0.16 0.12
Matches are distributed among these distances:
85 22 0.07
86 5 0.02
87 126 0.38
88 42 0.13
89 10 0.03
90 60 0.18
92 2 0.01
93 3 0.01
94 1 0.00
95 25 0.08
96 1 0.00
97 2 0.01
98 31 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (88 bp):
AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGATTAC
AGTGGAGCAGACCGAAGAATTTC
Found at i:67756150 original size:46 final size:44
Alignment explanation
Indices: 67756083--67756198 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 44
67756073 TCGCACCAGG
* * *
67756083 TCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATA-GT-A-A
* * * *
67756129 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATAGTAA
*
67756173 TCCTATCTCCCTGAGATTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
67756199 GCGGATTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 25 0.42
45 1 0.02
46 33 0.55
47 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATAGTAA
Found at i:67757963 original size:18 final size:18
Alignment explanation
Indices: 67757942--67757990 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
67757932 TTATTATAAC
67757942 TATTTATATATATCATCT
1 TATTTATATATATCATCT
*
67757960 TATTATATATTTAT-ATCT
1 TATT-TATATATATCATCT
67757978 TA-TTATATATATC
1 TATTTATATATATC
67757991 TATATATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATATATATCATCT
Found at i:67760334 original size:9 final size:9
Alignment explanation
Indices: 67760320--67760359 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
67760310 GTAGGGATTC
67760320 AATTCGGTT
1 AATTCGGTT
*
67760329 AATTCGGAT
1 AATTCGGTT
67760338 AATTCGGTT
1 AATTCGGTT
67760347 AATTCGGTT
1 AATTCGGTT
67760356 AATT
1 AATT
67760360 GACCGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:67762477 original size:38 final size:37
Alignment explanation
Indices: 67762435--67762545 Score: 141
Period size: 38 Copynumber: 2.9 Consensus size: 37
67762425 TCTACAGAGG
*
67762435 ACATGATAAGCATGTCTACTGTTAATGATGAATTGAGA
1 ACATGTTAA-CATGTCTACTGTTAATGATGAATTGAGA
* *
67762473 ACATGTTAAACTTGTCTACTGTTAATGATGAATTGAGT
1 ACATGTT-AACATGTCTACTGTTAATGATGAATTGAGA
* * *
67762511 ACATGTTACACATGTCTACTGCTAGTGTTGAATTG
1 ACATGTTA-ACATGTCTACTGTTAATGATGAATTG
67762546 TTCCATTACA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
37 1 0.02
38 61 0.95
39 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (37 bp):
ACATGTTAACATGTCTACTGTTAATGATGAATTGAGA
Found at i:67762685 original size:44 final size:42
Alignment explanation
Indices: 67762624--67762772 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 42
67762614 TTTATCTGCA
* * *
67762624 AATTTTGTTTTGAATCCACAACATAGTGGCAGATTTTATCTATG
1 AATTTTGTTGTGCATCCACAAC-CAGTGGCAGATTTTATCTA-G
*
67762668 AATTTTGTTGTGCATCCACAGCCCAGTGGCAGATTTTATCTACG
1 AATTTTGTTGTGCATCCACA-ACCAGTGGCAGATTTTATCTA-G
* * * * *
67762712 GATTTTGTTGTGTATCCACAGTCCAGTGGCAAATTTTATCTGCAA
1 AATTTTGTTGTGCATCCACA-ACCAGTGGCAGATTTTATCT--AG
67762757 AATTTTGTTGTGCATC
1 AATTTTGTTGTGCATC
67762773 TACAGCCCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
44 74 0.82
45 15 0.17
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (42 bp):
AATTTTGTTGTGCATCCACAACCAGTGGCAGATTTTATCTAG
Found at i:67763919 original size:12 final size:11
Alignment explanation
Indices: 67763899--67763931 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
67763889 CGGCCCAAAT
67763899 TAAATAATAAA
1 TAAATAATAAA
67763910 TAAATAAATAAA
1 TAAAT-AATAAA
67763922 T-AATAATAAA
1 TAAATAATAAA
67763932 AATAATAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 8 0.38
12 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:67763938 original size:19 final size:19
Alignment explanation
Indices: 67763899--67763936 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
67763889 CGGCCCAAAT
*
67763899 TAAATAATAAATAAATAAA
1 TAAATAATAAAAAAATAAA
67763918 TAAATAATAATAAAAATAA
1 TAAATAATAA-AAAAATAA
67763937 TAGTCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAATAATAAAAAAATAAA
Found at i:67768430 original size:22 final size:20
Alignment explanation
Indices: 67768394--67768452 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
67768384 GGCCTTGCCC
67768394 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
67768416 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
67768437 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
67768453 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:67768454 original size:11 final size:11
Alignment explanation
Indices: 67768434--67768532 Score: 54
Period size: 12 Copynumber: 9.4 Consensus size: 11
67768424 TAAAAATTAA
67768434 AAAAAGTATTTT
1 AAAAA-TATTTT
67768446 AAAAATATTTT
1 AAAAATATTTT
67768457 --AAA-A--TT
1 AAAAATATTTT
67768463 AAAAAGTATTTT
1 AAAAA-TATTTT
67768475 AAAAAGTATTTT
1 AAAAA-TATTTT
**
67768487 --AAA-ATTAA
1 AAAAATATTTT
* *
67768495 AAAAATA-ATA
1 AAAAATATTTT
67768505 AAAAATTTATTTT
1 AAAAA--TATTTT
67768518 AAAAATATTTT
1 AAAAATATTTT
67768529 AAAA
1 AAAA
67768533 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 25
0.69 0.06 0.25
Matches are distributed among these distances:
6 2 0.03
8 7 0.10
9 3 0.04
10 13 0.19
11 17 0.25
12 21 0.30
13 6 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:67768466 original size:17 final size:18
Alignment explanation
Indices: 67768444--67768478 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
67768434 AAAAAGTATT
67768444 TTAAAAA-TATTTTAAAA
1 TTAAAAAGTATTTTAAAA
67768461 TTAAAAAGTATTTTAAAA
1 TTAAAAAGTATTTTAAAA
67768479 AGTATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TTAAAAAGTATTTTAAAA
Found at i:67768478 original size:12 final size:12
Alignment explanation
Indices: 67768434--67768490 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
67768424 TAAAAATTAA
67768434 AAAAAGTATTTT
1 AAAAAGTATTTT
67768446 AAAAA-TATTTT
1 AAAAAGTATTTT
67768457 --AAA--A--TT
1 AAAAAGTATTTT
67768463 AAAAAGTATTTT
1 AAAAAGTATTTT
67768475 AAAAAGTATTTT
1 AAAAAGTATTTT
67768487 AAAA
1 AAAA
67768491 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 2 0.05
8 4 0.10
9 3 0.08
10 1 0.03
11 6 0.15
12 23 0.59
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (12 bp):
AAAAAGTATTTT
Found at i:67768485 original size:30 final size:29
Alignment explanation
Indices: 67768419--67768497 Score: 122
Period size: 29 Copynumber: 2.6 Consensus size: 29
67768409 ACCAAAAATT
67768419 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AAAAAGTATTTTAAAAA
67768451 TATTTTAAAATTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAGTATTTTAAAAA
67768480 GTATTTTAAAATTAAAAA
1 -TATTTTAAAATTAAAAA
67768498 AATAATAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
29 17 0.37
30 17 0.37
31 6 0.13
32 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAGTATTTTAAAAA
Found at i:67768516 original size:31 final size:31
Alignment explanation
Indices: 67768412--67768521 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 31
67768402 AATAAATACC
67768412 AAAAATTTATTTTAAAAATTAAAAAAAGTATTTT
1 AAAAA-TTATTTT-AAAATTAAAAAAA-TATTTT
*
67768446 AAAAA-TATTTTAAAATT-AAAAAGTATTTT
1 AAAAATTATTTTAAAATTAAAAAAATATTTT
* * *
67768475 AAAAAGTATTTTAAAATTAAAAAAATA-ATA
1 AAAAATTATTTTAAAATTAAAAAAATATTTT
67768505 AAAAATTTATTTTAAAA
1 AAAAA-TTATTTTAAAA
67768522 ATATTTTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.16
30 23 0.34
31 23 0.34
32 6 0.09
34 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAAATTATTTTAAAATTAAAAAAATATTTT
Found at i:67768528 original size:42 final size:42
Alignment explanation
Indices: 67768469--67768551 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
67768459 AATTAAAAAG
67768469 TATTTTAAAAAGTATTTTAAAATTAAAAAAATAATAAAAAATT
1 TATTTTAAAAAGTATTTTAAAATTAAAAAAAT-ATAAAAAATT
*
67768512 TATTTTAAAAA-TATTTTAAAATTAAAAAAATTTAAAAAAT
1 TATTTTAAAAAGTATTTTAAAATTAAAAAAATATAAAAAAT
67768552 AAATATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 8 0.21
42 20 0.51
43 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (42 bp):
TATTTTAAAAAGTATTTTAAAATTAAAAAAATATAAAAAATT
Found at i:67768538 original size:17 final size:17
Alignment explanation
Indices: 67768516--67768562 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
67768506 AAAATTTATT
*
67768516 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
67768533 TTAAAAAAATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
67768550 ATAAATATATTTA
1 TTAAAAATATTTA
67768563 TTATATCGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:67771942 original size:88 final size:87
Alignment explanation
Indices: 67771832--67772004 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 87
67771822 GGTAAAATTA
* * * * *
67771832 AATTAATTCGGTTAATCGGTCGGTTAAT-TGAATTAATTCAGTCGGGGTTGGTTAATAATTTTTT
1 AATTAATTCGGTTAATCAGTCGGCT-ATCCGAATTAATTCAGTCGGAGTCGGTTAATAATTTTTT
*
67771896 AAAAGTTCAGTTAACGGTTAACC
65 AAAAGTTCAGTTAACAGTTAACC
* *
67771919 AATTGAATTCGGTTAATCAGTCGGCTATCCGAATTAATTCGGTTGGAGTCGGTTAATAATTTTTT
1 AATT-AATTCGGTTAATCAGTCGGCTATCCGAATTAATTCAGTCGGAGTCGGTTAATAATTTTTT
* *
67771984 GAAAGTTCGGTTAACAGTTAA
65 AAAAGTTCAGTTAACAGTTAA
67772005 TTCGATTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
87 6 0.08
88 68 0.92
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (87 bp):
AATTAATTCGGTTAATCAGTCGGCTATCCGAATTAATTCAGTCGGAGTCGGTTAATAATTTTTTA
AAAGTTCAGTTAACAGTTAACC
Found at i:67783390 original size:53 final size:52
Alignment explanation
Indices: 67783326--67783482 Score: 219
Period size: 53 Copynumber: 3.0 Consensus size: 52
67783316 TTCTTATTTA
* *
67783326 TATAATATATTTGAAAATAATAACATATTTATTACCCCCAATTACGACTGAAT
1 TATAA-ATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAAT
*
67783379 TCATAAATATTT-AAATATAATAATATATTTATTACCCCAAATTACGACTCAAT
1 T-ATAAATATTTGAAA-ATAATAATATATTTATTACCCCCAATTACGACTCAAT
* *
67783432 TATTAAATATTTGAATATAATAATATATTTATTA-ACCCAATTACGACTCAA
1 TA-TAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
67783483 GGATCACAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
52 19 0.20
53 69 0.73
54 6 0.06
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (52 bp):
TATAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAAT
Found at i:67789704 original size:15 final size:15
Alignment explanation
Indices: 67789651--67789705 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
67789641 TCCACCACCG
*
67789651 GGATATCCTCCACAA
1 GGATATCCTCCTCAA
67789666 GGATA---TCCTCAA
1 GGATATCCTCCTCAA
*
67789678 GGTTATCCTCCTCAA
1 GGATATCCTCCTCAA
67789693 GGATATCCTCCTC
1 GGATATCCTCCTC
67789706 CTTACGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.29
15 24 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
GGATATCCTCCTCAA
Found at i:67790832 original size:20 final size:21
Alignment explanation
Indices: 67790807--67790857 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
67790797 AAAGGAATAT
67790807 TTAAATTATTTATTTT-ATTA
1 TTAAATTATTTATTTTAATTA
* *
67790827 TTAAATTAATTATTTTAATTT
1 TTAAATTATTTATTTTAATTA
*
67790848 TTATATTATT
1 TTAAATTATT
67790858 AAGAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAAATTATTTATTTTAATTA
Found at i:67795980 original size:15 final size:16
Alignment explanation
Indices: 67795944--67795981 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
67795934 GAGCAGTTGC
67795944 AGAAGCAGAAGCTGCA
1 AGAAGCAGAAGCTGCA
*
67795960 A-TAGCAGAAGCTG-A
1 AGAAGCAGAAGCTGCA
67795974 AGAAGCAG
1 AGAAGCAG
67795982 CAAGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 16 0.84
16 1 0.05
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (16 bp):
AGAAGCAGAAGCTGCA
Found at i:67796027 original size:21 final size:21
Alignment explanation
Indices: 67796003--67796042 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
67795993 GAGGTTGCTG
*
67796003 AAGCTGATGCAGAGGCAGCGC
1 AAGCTGATGCAGAAGCAGCGC
**
67796024 AAGCTTTTGCAGAAGCAGC
1 AAGCTGATGCAGAAGCAGC
67796043 AATGAAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAGCTGATGCAGAAGCAGCGC
Found at i:67796359 original size:29 final size:29
Alignment explanation
Indices: 67796327--67796413 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
67796317 GTGTTGACGA
* *
67796327 TTTTGCAGCAGGCACCCAGTCATCATCGC
1 TTTTGCAGCAGGCACCCAGTAATCATCCC
** **
67796356 TTTTGCAGCAGGCACCTGGTAATTGTCCC
1 TTTTGCAGCAGGCACCCAGTAATCATCCC
* *
67796385 TATTTGTAGCAGGCACCCAGTGATCATCC
1 T-TTTGCAGCAGGCACCCAGTAATCATCC
67796414 TTATTATTTG
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (29 bp):
TTTTGCAGCAGGCACCCAGTAATCATCCC
Found at i:67806802 original size:72 final size:70
Alignment explanation
Indices: 67806650--67806802 Score: 171
Period size: 70 Copynumber: 2.2 Consensus size: 70
67806640 GAACACTAGA
* * ** * * *
67806650 AATAAGATGGACAGAGGACATTGTTTATGTAGAGGTTATTTTTAAGAAATAAAGTTAATGCAAGC
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGGTGATTTTTAAGAAATAAAATTAATGCAAAC
*
67806715 CCAAT
66 CCAAC
* * *
67806720 AATAAGATGGACAAAGAACATTGTTTACATAGAGGCTGCTTTTTAAGAAAATAAAATTAGTTCAA
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGG-TGATTTTTAAG-AAATAAAATTAATGCAA
* *
67806785 ATCCAGC
64 ACCCAAC
67806792 AATAAGATGGA
1 AATAAGATGGA
67806803 GGTGGAAATT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
70 31 0.46
71 9 0.13
72 28 0.41
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (70 bp):
AATAAGATGGACAAAGAACATTGTTTACATAGAGGTGATTTTTAAGAAATAAAATTAATGCAAAC
CCAAC
Found at i:67810283 original size:20 final size:20
Alignment explanation
Indices: 67810258--67810296 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
67810248 CATCAGTCAT
*
67810258 AAATAATATTTTTATTATAA
1 AAATAATATTTTTAATATAA
67810278 AAATAATATTTTTAATATA
1 AAATAATATTTTTAATATA
67810297 TTTTAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATAATATTTTTAATATAA
Found at i:67820349 original size:41 final size:41
Alignment explanation
Indices: 67820296--67820404 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
67820286 GACTTTAAGT
* *
67820296 CTAGCAGACTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
67820337 CTAGTAGGCTACGTGCCGGTGATCTGAATTAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
67820378 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
67820405 TTTAAATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 54 0.92
42 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:67824081 original size:9 final size:9
Alignment explanation
Indices: 67824067--67824106 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
67824057 ACATATCAAA
*
67824067 AATTAACTG
1 AATTAACCG
*
67824076 AATTAACCA
1 AATTAACCG
*
67824085 AACTAACCG
1 AATTAACCG
67824094 AATTAACCG
1 AATTAACCG
67824103 AATT
1 AATT
67824107 TAATATATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:67829685 original size:21 final size:22
Alignment explanation
Indices: 67829660--67829705 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
67829650 AAAACTGTTA
* *
67829660 TTTTTTATTGTTTTCTTGCT-G
1 TTTTTTACTATTTTCTTGCTAG
67829681 TTTTTTACTATTTTCTTGCTAG
1 TTTTTTACTATTTTCTTGCTAG
67829703 TTT
1 TTT
67829706 CTTGTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTTTACTATTTTCTTGCTAG
Found at i:67832693 original size:46 final size:45
Alignment explanation
Indices: 67832587--67832819 Score: 203
Period size: 37 Copynumber: 5.7 Consensus size: 45
67832577 CATATGACCT
* * *
67832587 CTTATCAC-TTGTC-CTTGATTAGATAAGTGTAGCTAGGCTACTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
67832630 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
67832676 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
67832713 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
67832750 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
67832787 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
67832820 ACCACTTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 17
0.88 0.04 0.09
Matches are distributed among these distances:
37 102 0.58
39 2 0.01
40 2 0.01
42 1 0.01
43 9 0.05
44 6 0.03
45 20 0.11
46 33 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:67832714 original size:37 final size:37
Alignment explanation
Indices: 67832672--67832848 Score: 309
Period size: 37 Copynumber: 4.8 Consensus size: 37
67832662 AGCTGAAGCT
* *
67832672 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
67832709 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
67832746 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
67832783 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
67832820 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTCTCTTGATCAGA
67832849 AGTACTCAAA
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:67834781 original size:20 final size:20
Alignment explanation
Indices: 67834753--67834790 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67834743 TTTTAAATAC
*
67834753 CTCTTCTAAAGAAGTTGACA
1 CTCTACTAAAGAAGTTGACA
*
67834773 CTCTACTAAAGGAGTTGA
1 CTCTACTAAAGAAGTTGA
67834791 TCCTCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (20 bp):
CTCTACTAAAGAAGTTGACA
Found at i:67841009 original size:12 final size:12
Alignment explanation
Indices: 67840994--67841033 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
67840984 AATAATAAAT
67840994 TTAAATTTTTTA
1 TTAAATTTTTTA
*
67841006 TTAATATTTATATA
1 TTAA-ATTT-TTTA
67841020 TTAAATTTTTTA
1 TTAAATTTTTTA
67841032 TT
1 TT
67841034 TTTATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 9 0.38
13 8 0.33
14 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:67841041 original size:24 final size:25
Alignment explanation
Indices: 67840994--67841060 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
67840984 AATAATAAAT
67840994 TTAAATTTTTTATTAATATTTATATA
1 TTAAATTTTTTATT-ATATTTATATA
*
67841020 TTAAATTTTTTATT-T-TTATATATT
1 TTAAATTTTTTATTATATT-TATATA
*
67841044 TTAAATTTATTA-TATAT
1 TTAAATTTTTTATTATAT
67841061 CTTTTAACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 3 0.08
24 18 0.50
25 1 0.03
26 14 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTAAATTTTTTATTATATTTATATA
Found at i:67853199 original size:8 final size:8
Alignment explanation
Indices: 67853180--67853235 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
67853170 CTCTTTTTTT
67853180 AAAATTTAA
1 AAAATTT-A
*
67853189 AAAATTCA
1 AAAATTTA
67853197 AAAATTTTA
1 AAAA-TTTA
*
67853206 AAATTTTA
1 AAAATTTA
67853214 AAAA-TTA
1 AAAATTTA
*
67853221 AAAAGTATA
1 AAAA-TTTA
67853230 AAAATT
1 AAAATT
67853236 ACCCAATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
7 7 0.18
8 13 0.34
9 18 0.47
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (8 bp):
AAAATTTA
Found at i:67853202 original size:17 final size:17
Alignment explanation
Indices: 67853180--67853224 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
67853170 CTCTTTTTTT
67853180 AAAATTTAAAAAATTCA
1 AAAATTTAAAAAATTCA
* * *
67853197 AAAATTTTAAAATTTTA
1 AAAATTTAAAAAATTCA
67853214 AAAA-TTAAAAA
1 AAAATTTAAAAA
67853225 GTATAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTTAAAAAATTCA
Found at i:67853208 original size:25 final size:24
Alignment explanation
Indices: 67853176--67853224 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
67853166 TCATCTCTTT
67853176 TTTTAAAATTTAAAAAATTCAAAAA
1 TTTTAAAATTTAAAAAATT-AAAAA
*
67853201 TTTTAAAATTTTAAAAATTAAAAA
1 TTTTAAAATTTAAAAAATTAAAAA
67853225 GTATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTTAAAATTTAAAAAATTAAAAA
Found at i:67853809 original size:18 final size:19
Alignment explanation
Indices: 67853786--67853827 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
67853776 GGATTTCAAG
*
67853786 TTATTCGAATTAA-TCGAA
1 TTATTCGAATCAACTCGAA
*
67853804 TTATTCGAGTCAACTCGAA
1 TTATTCGAATCAACTCGAA
67853823 TTATT
1 TTATT
67853828 TTTTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
TTATTCGAATCAACTCGAA
Found at i:67855516 original size:16 final size:16
Alignment explanation
Indices: 67855497--67855568 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 16
67855487 GATATTTTAG
67855497 TTAATATATATTATAA
1 TTAATATATATTATAA
67855513 TTAAT-TA-A-T-TAA
1 TTAATATATATTATAA
*
67855525 TAAATA-AGTATTAT-A
1 TTAATATA-TATTATAA
*
67855540 TTAAT-TATATTATTA
1 TTAATATATATTATAA
67855555 -TAATATTATATTAT
1 TTAATA-TATATTAT
67855569 TATATATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
12 8 0.18
13 1 0.02
14 12 0.27
15 10 0.22
16 14 0.31
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
TTAATATATATTATAA
Found at i:67855530 original size:28 final size:29
Alignment explanation
Indices: 67855498--67855568 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 29
67855488 ATATTTTAGT
67855498 TAATATATATTATAATTAATTA-ATTAATA
1 TAATATATATTAT-ATTAATTATATTAATA
*
67855527 -AATA-AGTATTATATTAATTATATTATTA
1 TAATATA-TATTATATTAATTATATTAATA
67855555 TAATATTATATTAT
1 TAATA-TATATTAT
67855569 TATATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 9 0.25
28 16 0.44
29 4 0.11
30 6 0.17
31 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
TAATATATATTATATTAATTATATTAATA
Found at i:67855556 original size:8 final size:8
Alignment explanation
Indices: 67855533--67855573 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
67855523 AATAAATAAG
67855533 TATTATAT
1 TATTATAT
67855541 TAATTATAT
1 T-ATTATAT
*
67855550 TATTATAA
1 TATTATAT
67855558 TATTATAT
1 TATTATAT
67855566 TATTATAT
1 TATTATAT
67855574 ATAAAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:67864639 original size:22 final size:22
Alignment explanation
Indices: 67864613--67864659 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
67864603 AAGTATAATG
67864613 TTATCA-T-TTATGAAAATAATAT
1 TTATCATTGTTAT-AAAA-AATAT
67864635 TTATCATTGTTATAAAAAATAT
1 TTATCATTGTTATAAAAAATAT
67864657 TTA
1 TTA
67864660 ATTATAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 14 0.61
23 5 0.22
24 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATCATTGTTATAAAAAATAT
Found at i:67864687 original size:21 final size:23
Alignment explanation
Indices: 67864645--67864687 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
67864635 TTATCATTGT
**
67864645 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
67864668 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
67864688 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:67864953 original size:21 final size:21
Alignment explanation
Indices: 67864929--67864981 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
67864919 CATTGTTTCT
*
67864929 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
67864950 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
67864971 AATCTCACCGC
1 AATCTCACCGC
67864982 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:67868231 original size:29 final size:29
Alignment explanation
Indices: 67868156--67868233 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
67868146 TTAAATTTCA
* *
67868156 AAAAGTATAAAGACTAAAATTGAATAATTT
1 AAAA-TATAAAGACTAAAATTGAACAAATT
* *
67868186 AAAAAATACAAGTACTAAAATTGACCAAATT
1 AAAATATA-AAG-ACTAAAATTGAACAAATT
67868217 AAAATATAAAGACTAAA
1 AAAATATAAAGACTAAA
67868234 TTCAAAATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.22
30 10 0.24
31 22 0.54
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (29 bp):
AAAATATAAAGACTAAAATTGAACAAATT
Found at i:67878976 original size:110 final size:106
Alignment explanation
Indices: 67878841--67879055 Score: 292
Period size: 110 Copynumber: 2.0 Consensus size: 106
67878831 GGTACATGTG
* * *
67878841 TTATGTTTTGGTCCAATGTGATATTTCTATTTGATAAAAGTTATACACTTTTGTACTCGAAGGTA
1 TTATGTTTTGGTCCAATGTGATATTTCTATTTGACAAAAGTTATACAC--TTATACTCGAAGATA
*
67878906 ACAATGCTAATTTTTTAATTGTT-ACTTTTTTAGTATTTACCTCGGA
64 AC-A-G-TAACTTTTTAATTGTTAAC-TTTTTAGTATTTACCTCGGA
*
67878952 TTATG-TTTGGTCCAATGT-AGTATTTCTATTTGACAAAAGTTATACACTTATACTTGAAGATAA
1 TTATGTTTTGGTCCAATGTGA-TATTTCTATTTGACAAAAGTTATACACTTATACTCGAAGATAA
*
67879015 CAGTAACTTTTTAATTGTTAACTTTTTAGTGTTTACCTCGG
65 CAGTAACTTTTTAATTGTTAACTTTTTAGTATTTACCTCGG
67879056 GTTTTAGAGT
Statistics
Matches: 96, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
105 33 0.34
106 3 0.03
107 1 0.01
108 14 0.15
109 1 0.01
110 39 0.41
111 5 0.05
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (106 bp):
TTATGTTTTGGTCCAATGTGATATTTCTATTTGACAAAAGTTATACACTTATACTCGAAGATAAC
AGTAACTTTTTAATTGTTAACTTTTTAGTATTTACCTCGGA
Found at i:67883508 original size:23 final size:23
Alignment explanation
Indices: 67883460--67883509 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
67883450 TATAAAGTTA
* * *
67883460 TAAAATTTATTTGATATATTATT
1 TAAAATTAATTTGAAATATTAAT
67883483 TAAAATTAATTGTGAAATA-TAAT
1 TAAAATTAATT-TGAAATATTAAT
67883506 TAAA
1 TAAA
67883510 TTGTTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (23 bp):
TAAAATTAATTTGAAATATTAAT
Found at i:67890517 original size:3 final size:3
Alignment explanation
Indices: 67890503--67890576 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
67890493 CAAACATTTA
* * * * *
67890503 TAT TAT TCAT TAT TAA TAT TAT TAA TGT TAT TGT TAT TAT CAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
67890549 TAT TGT TAT CAT T-T TCAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
67890577 GTTTATGCAT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
2 2 0.04
3 46 0.88
4 4 0.08
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:67904852 original size:16 final size:17
Alignment explanation
Indices: 67904820--67904852 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67904810 AAAGGAGTAA
67904820 AATACAATATTGACTCTT
1 AATACAATA-TGACTCTT
67904838 AATACAATA-GACTCT
1 AATACAATATGACTCT
67904853 ATAGAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (17 bp):
AATACAATATGACTCTT
Found at i:67906052 original size:27 final size:28
Alignment explanation
Indices: 67906016--67906081 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
67906006 AAATTAAAAA
*
67906016 TTACCAAAAT-GCTATAATTTTTTTTAT
1 TTACCAAAATAGATATAATTTTTTTTAT
*
67906043 TTACCAAAATATATATAATTTTTTTTAT
1 TTACCAAAATAGATATAATTTTTTTTAT
67906071 TTACCAAAATA
1 TTACCAAAATA
67906082 TATCAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 10 0.28
28 26 0.72
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (28 bp):
TTACCAAAATAGATATAATTTTTTTTAT
Found at i:67906059 original size:28 final size:28
Alignment explanation
Indices: 67906028--67906084 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
67906018 ACCAAAATGC
67906028 TATAATTTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
67906056 TATAATTTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
67906084 T
1 T
67906085 CAAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
TATAATTTTTTTTATTTACCAAAATATA
Found at i:67906301 original size:4 final size:4
Alignment explanation
Indices: 67906292--67906361 Score: 67
Period size: 4 Copynumber: 17.5 Consensus size: 4
67906282 GGGGAAGAAG
*
67906292 AAGA AAGA AAGG AAGA AAG- AA-A AAGA AAGAA AAGGA AAGA AGAGGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AAGA A-A-GA
67906338 AAGA AAG- AA-A AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
67906362 AGGAAAGGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
3 8 0.14
4 36 0.64
5 8 0.14
6 4 0.07
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:67906317 original size:10 final size:10
Alignment explanation
Indices: 67906286--67906368 Score: 73
Period size: 10 Copynumber: 8.3 Consensus size: 10
67906276 AGGAGAGGGG
*
67906286 AAGAAGAAGA
1 AAGAAAAAGA
67906296 AAGAAAGGAAGA
1 AAGAAA--AAGA
67906308 AAGAAAAAGA
1 AAGAAAAAGA
*
67906318 AAGAAAAGGA
1 AAGAAAAAGA
* *
67906328 AAGAAGAGGA
1 AAGAAAAAGA
67906338 AAG--AAAGA
1 AAGAAAAAGA
67906346 AA-AAGAAAGA
1 AAGAA-AAAGA
*
67906356 AAGAAAAGGA
1 AAGAAAAAGA
67906366 AAG
1 AAG
67906369 GGGAAGAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 5 0.08
10 44 0.72
11 2 0.03
12 10 0.16
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:67906321 original size:14 final size:14
Alignment explanation
Indices: 67906292--67906368 Score: 75
Period size: 14 Copynumber: 5.2 Consensus size: 14
67906282 GGGGAAGAAG
67906292 AAGAAAGAAAGGAAGA
1 AAGAAAGAAA--AAGA
67906308 AAGAAA-AAGAAAGAA
1 AAGAAAGAA-AAAG-A
* *
67906323 AAGGAAAGAAGAGGA
1 AA-GAAAGAAAAAGA
67906338 AAGAAAGAAAAAGA
1 AAGAAAGAAAAAGA
*
67906352 AAGAAAGAAAAGGA
1 AAGAAAGAAAAAGA
67906366 AAG
1 AAG
67906369 GGGAAGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
14 29 0.56
15 8 0.15
16 13 0.25
17 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAAAGA
Found at i:67907263 original size:27 final size:25
Alignment explanation
Indices: 67907225--67907367 Score: 125
Period size: 27 Copynumber: 5.6 Consensus size: 25
67907215 ATATACAAAA
67907225 TTACCAAAATATTATAATTTTTTTTAT
1 TTACCAAAATA-TATAA-TTTTTTTAT
* *
67907252 TTACCGAAATATAT-A-TATTTTAT
1 TTACCAAAATATATAATTTTTTTAT
**
67907275 TTACCAAAATATTATAAAAATTTTTAT
1 TTACCAAAATA-TAT-AATTTTTTTAT
** *
67907302 TTA-CGGAA-ATAT-ATTTTTTTAA
1 TTACCAAAATATATAATTTTTTTAT
67907324 TTACCAAAATATATATAATTTTGTTTAT
1 TTACC-AAA-ATATATAATTTT-TTTAT
67907352 TTACCAAAATATATAA
1 TTACCAAAATATATAA
67907368 AAAAACTAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
22 10 0.11
23 18 0.19
24 7 0.08
25 3 0.03
26 19 0.20
27 27 0.29
28 9 0.10
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.48
Consensus pattern (25 bp):
TTACCAAAATATATAATTTTTTTAT
Found at i:67907279 original size:50 final size:50
Alignment explanation
Indices: 67907223--67907366 Score: 200
Period size: 50 Copynumber: 2.9 Consensus size: 50
67907213 AAATATACAA
67907223 AATTACCAAAATATTATAATTTTTTTTATTTACCGAAATATATATATTTT
1 AATTACCAAAATATTATAATTTTTTTTATTTACCGAAATATATATATTTT
* *** * *
67907273 ATTTACCAAAATATTATAAAAATTTTTATTTACGGAAATATAT-TTTTTT
1 AATTACCAAAATATTATAATTTTTTTTATTTACCGAAATATATATATTTT
* *
67907322 AATTACCAAAATATATATAATTTTGTTTATTTACCAAAATATATA
1 AATTACCAAAATAT-TATAATTTTTTTTATTTACCGAAATATATA
67907367 AAAAAACTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 18 0.23
50 61 0.77
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (50 bp):
AATTACCAAAATATTATAATTTTTTTTATTTACCGAAATATATATATTTT
Found at i:67907327 original size:22 final size:22
Alignment explanation
Indices: 67907243--67907337 Score: 64
Period size: 22 Copynumber: 4.0 Consensus size: 22
67907233 ATATTATAAT
* *
67907243 TTTTTTTATTTACCGAAATATA
1 TTTTTTTAATTACCAAAATATA
* *
67907265 TATATTTTATTTACCAAAATATTA
1 T-TTTTTTAATTACCAAAATA-TA
* * **
67907289 TAAAAATTTTTATTTACGGAAATATA
1 T----TTTTTTAATTACCAAAATATA
67907315 TTTTTTTAATTACCAAAATATA
1 TTTTTTTAATTACCAAAATATA
67907337 T
1 T
67907338 ATAATTTTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
22 19 0.33
23 17 0.29
24 3 0.05
26 3 0.05
27 16 0.28
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTTTTAATTACCAAAATATA
Found at i:67907389 original size:17 final size:17
Alignment explanation
Indices: 67907367--67907399 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
67907357 AAAATATATA
67907367 AAAAAACTA-AAAAAAAT
1 AAAAAAC-AGAAAAAAAT
67907384 AAAAAACAGAAAAAAA
1 AAAAAACAGAAAAAAA
67907400 ACACATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (17 bp):
AAAAAACAGAAAAAAAT
Found at i:67911950 original size:23 final size:23
Alignment explanation
Indices: 67911924--67911996 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
67911914 AGTGCCACAT
67911924 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
67911947 TGATATGTAGTCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
67911970 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
67911993 TGAT
1 TGAT
67911997 CAATAACACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:67912256 original size:18 final size:17
Alignment explanation
Indices: 67912230--67912268 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
67912220 ATTTTCCTTC
67912230 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
67912247 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
67912265 CACA
1 CACA
67912269 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Done.