Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 21 of 113
Found at i:7323877 original size:116 final size:118
Alignment explanation
Indices: 7323728--7323942 Score: 264
Period size: 116 Copynumber: 1.8 Consensus size: 118
7323718 CGAATTTTAA
* *
7323728 AGGTTTGGATTTAAGTTTTGAGGGTTTTAGGGTTCGGTTTTAAG-GTATGAAAGGTTT-AAGATT
1 AGGTTTGGATTTAAGTTTTGA-GATTTTAGGGTTCGGATTTAAGAGT-TGAAAGGTTTGAA-ATT
7323791 TT-GATTTTA-GAGTTTGAGGA-TTTT-GGGGTTTTGATTTTAAAATTTGAGGTTTG
63 TTGGATTTTAGGAGTTT-AGGATTTTTAGGGGTTTTGATTTTAAAATTTGAGGTTTG
* * *
7323844 AGGTTTTGATTTAAGTGTTTGA-ATTTTAGGGGTTTGGATTTAAGAGTTTAAAGGTTTGAAATTT
1 AGGTTTGGATTTAAGT-TTTGAGATTTTA-GGGTTCGGATTTAAGAGTTGAAAGGTTTGAAATTT
*
7323908 TGGATTTTATGGGGTTTAGGATTTTTAGGGGTTTT
64 TGGATTTTA-GGAGTTTAGGATTTTTAGGGGTTTT
7323943 AGAAACTTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
115 5 0.06
116 42 0.50
117 16 0.19
118 4 0.05
119 9 0.11
120 8 0.10
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.47
Consensus pattern (118 bp):
AGGTTTGGATTTAAGTTTTGAGATTTTAGGGTTCGGATTTAAGAGTTGAAAGGTTTGAAATTTTG
GATTTTAGGAGTTTAGGATTTTTAGGGGTTTTGATTTTAAAATTTGAGGTTTG
Found at i:7323899 original size:58 final size:59
Alignment explanation
Indices: 7323728--7323902 Score: 157
Period size: 58 Copynumber: 3.0 Consensus size: 59
7323718 CGAATTTTAA
* * * * * *
7323728 AGGTTTGGATTTAAGT-TTTGAGGGTTTTA-GGGTTCGGTTTTAAG-GTATGAAAGGTTTA
1 AGGTTTTGATTTAAGTGTTTGA-GATTTTAGGGGTTTGGATTTAAGAGT-TTAAAGGTTTG
* * * * * *
7323786 AGATTTTGATTTTAGAGTTTGAGGATTTT-GGGGTTTTGATTTTAA-AATTT-GAGGTTTG
1 AGGTTTTGATTTAAGTGTTTGA-GATTTTAGGGGTTTGGA-TTTAAGAGTTTAAAGGTTTG
7323844 AGGTTTTGATTTAAGTGTTTGA-ATTTTAGGGGTTTGGATTTAAGAGTTTAAAGGTTTG
1 AGGTTTTGATTTAAGTGTTTGAGATTTTAGGGGTTTGGATTTAAGAGTTTAAAGGTTTG
7323902 A
1 A
7323903 AATTTTGGAT
Statistics
Matches: 92, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
56 10 0.11
57 13 0.14
58 45 0.49
59 18 0.20
60 6 0.07
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (59 bp):
AGGTTTTGATTTAAGTGTTTGAGATTTTAGGGGTTTGGATTTAAGAGTTTAAAGGTTTG
Found at i:7324264 original size:17 final size:15
Alignment explanation
Indices: 7324230--7324282 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
7324220 ATTTTTGAGC
*
7324230 ATTTTTAA-TATA-T
1 ATTTTTAATTTTATT
7324243 ATTTTTAATTATTACTT
1 ATTTTTAATT-TTA-TT
7324260 ATTTTTAATTTTATT
1 ATTTTTAATTTTATT
*
7324275 ATTATTAA
1 ATTTTTAA
7324283 AATAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
15 11 0.32
16 3 0.09
17 11 0.32
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTTAATTTTATT
Found at i:7324397 original size:38 final size:35
Alignment explanation
Indices: 7324327--7324396 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
7324317 TTTATCATGC
* *
7324327 ATAAATATATAAAAATACTTAAAATAACAAAAATA
1 ATAAATATATAAAAATAATTAAAATAAAAAAAATA
7324362 ATAATATATATAAAAA-AATTAGAAAATAAAAAAAA
1 ATAA-ATATATAAAAATAATT--AAAATAAAAAAAA
7324397 AATTTTACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 7 0.23
36 11 0.37
37 12 0.40
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.24
Consensus pattern (35 bp):
ATAAATATATAAAAATAATTAAAATAAAAAAAATA
Found at i:7324573 original size:21 final size:22
Alignment explanation
Indices: 7324536--7324576 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7324526 TGTTGGAAGA
*
7324536 GCGGATCCACGGGTCAGATTGC
1 GCGGATCCACAGGTCAGATTGC
7324558 GCGGATCC-CAGGTCAGATT
1 GCGGATCCACAGGTCAGATT
7324577 CGGGTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.20
Consensus pattern (22 bp):
GCGGATCCACAGGTCAGATTGC
Found at i:7325376 original size:7 final size:8
Alignment explanation
Indices: 7325363--7325395 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
7325353 TGTTATTCTC
7325363 TTTTTTTA
1 TTTTTTTA
7325371 TTTTTTTA
1 TTTTTTTA
7325379 TTTTTTT-
1 TTTTTTTA
7325386 TGTTTTTTA
1 T-TTTTTTA
7325395 T
1 T
7325396 ATAATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:7328868 original size:2 final size:2
Alignment explanation
Indices: 7328857--7328889 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7328847 ATACATATAT
*
7328857 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
7328890 AATATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7331185 original size:18 final size:18
Alignment explanation
Indices: 7331158--7331192 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7331148 AATATGATAT
*
7331158 TATCTCATATTTAATAAA
1 TATCTAATATTTAATAAA
*
7331176 TATCTAATATTTTATAA
1 TATCTAATATTTAATAA
7331193 GTGGAAGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TATCTAATATTTAATAAA
Found at i:7335072 original size:21 final size:21
Alignment explanation
Indices: 7335048--7335087 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7335038 TTAAAAATTC
*
7335048 AAAAAAAAAATAAGCAAAAGG
1 AAAAAAAAAATAAACAAAAGG
*
7335069 AAAAGAAAAATAAACAAAA
1 AAAAAAAAAATAAACAAAA
7335088 AAAGAAGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAATAAACAAAAGG
Found at i:7335095 original size:21 final size:21
Alignment explanation
Indices: 7335048--7335096 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7335038 TTAAAAATTC
*
7335048 AAAAA-AAAAATAAGCAAAAG
1 AAAAAGAAAAATAAACAAAAG
*
7335068 GAAAAGAAAAATAAACAAAA-
1 AAAAAGAAAAATAAACAAAAG
7335088 AAAGAAGAA
1 AAA-AAGAA
7335097 GGAAATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAAAGAAAAATAAACAAAAG
Found at i:7335682 original size:17 final size:16
Alignment explanation
Indices: 7335662--7335693 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
7335652 AATAGTTGAA
7335662 AAAAACAAAAAAAAAGT
1 AAAAA-AAAAAAAAAGT
7335679 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
7335694 AAATCACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGT
Found at i:7336506 original size:16 final size:16
Alignment explanation
Indices: 7336482--7336516 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7336472 TGTGAACCAT
7336482 AAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
* *
7336498 AAAAGAAAAAACAAAC
1 AAAAAAAAAAAAAAAC
7336514 AAA
1 AAA
7336517 GGACATGTGA
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:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:7349716 original size:19 final size:21
Alignment explanation
Indices: 7349680--7349724 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7349670 TCTCTAATAT
7349680 AAAAAATATTTTGAATTTTT-A
1 AAAAAATATTTT-AATTTTTGA
*
7349701 AAAAAATGTTTT-ATTTTTGA
1 AAAAAATATTTTAATTTTTGA
7349721 AAAA
1 AAAA
7349725 TTGCAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
AAAAAATATTTTAATTTTTGA
Found at i:7350383 original size:21 final size:21
Alignment explanation
Indices: 7350358--7350404 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7350348 TTTTATGATA
7350358 TTATTTATTAT-ACTTTTAAAC
1 TTATTTATT-TGACTTTTAAAC
* *
7350379 TTATTTATTTGACTTTTGAAG
1 TTATTTATTTGACTTTTAAAC
7350400 TTATT
1 TTATT
7350405 GCTTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (21 bp):
TTATTTATTTGACTTTTAAAC
Found at i:7352999 original size:20 final size:20
Alignment explanation
Indices: 7352961--7353000 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7352951 GAAGCTCAAT
* *
7352961 AAAAATAAATTGAACTATCA
1 AAAAATAAATTCAAATATCA
*
7352981 AAAAATAACTTCAAATATCA
1 AAAAATAAATTCAAATATCA
7353001 TCATCAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAATAAATTCAAATATCA
Found at i:7353174 original size:42 final size:42
Alignment explanation
Indices: 7353084--7353176 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
7353074 AAGAAAACTT
*
7353084 GAATATCACCATCGAAAAAATATAATTCAACATTTAACACTC
1 GAATATCACCATCGAAAAAATATAATTCAACATTTAACACTA
* * * **
7353126 GAATATCACCGTCGAAAAAATGTAATTCTAGTTTTAACACTTA
1 GAATATCACCATCGAAAAAATATAATTCAACATTTAACAC-TA
7353169 G-ATATCAC
1 GAATATCAC
7353177 TGCCGAGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (42 bp):
GAATATCACCATCGAAAAAATATAATTCAACATTTAACACTA
Found at i:7353313 original size:41 final size:40
Alignment explanation
Indices: 7353157--7353315 Score: 128
Period size: 38 Copynumber: 4.0 Consensus size: 40
7353147 GTAATTCTAG
** * * *
7353157 TTTTAACACTTAGATATCACTGCC-GAGAATATACAAATGAC
1 TTTTAACACTTAGATATCACCACCAAAGAATGT--AAATGAT
* * * * *
7353198 TTTTAATAC-TCGATATCATCACTGAAAAAATGTAAATGAT
1 TTTTAACACTTAGATATCACCAC-CAAAGAATGTAAATGAT
* *
7353238 TTTTAACACTTAGATATCACCACTAAAGGA--TAAATGAT
1 TTTTAACACTTAGATATCACCACCAAAGAATGTAAATGAT
* *
7353276 TTTTATCACTTGGATATCACCACCAAGAGAATGTAAATGA
1 TTTTAACACTTAGATATCACCACCAA-AGAATGTAAATGA
7353316 CTTTAGTTAT
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
38 31 0.34
39 3 0.03
40 27 0.29
41 26 0.28
42 5 0.05
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (40 bp):
TTTTAACACTTAGATATCACCACCAAAGAATGTAAATGAT
Found at i:7353501 original size:42 final size:43
Alignment explanation
Indices: 7353436--7353541 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
7353426 TTGAAAATGT
7353436 CTTGGATATCACCATCAATAAAATGAAATT-CATACTTTAATA
1 CTTGGATATCACCATCAATAAAATGAAATTACATACTTTAATA
* * *
7353478 CTTGGTTATCACTATCGAA-AAAATGTAATTACATACTTTAATA
1 CTTGGATATCACCATC-AATAAAATGAAATTACATACTTTAATA
* * *
7353521 CTCGAATATCATCATCTAATA
1 CTTGGATATCACCATC-AATA
7353542 CTTTGAAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 24 0.46
43 27 0.52
44 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.35
Consensus pattern (43 bp):
CTTGGATATCACCATCAATAAAATGAAATTACATACTTTAATA
Found at i:7356968 original size:15 final size:16
Alignment explanation
Indices: 7356930--7356968 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
7356920 AAATTTAAAA
7356930 TTTTGTTTTATCACCT
1 TTTTGTTTTATCACCT
*
7356946 TTTT-TTTTATCA-TT
1 TTTTGTTTTATCACCT
7356960 TTTTGTTTT
1 TTTTGTTTT
7356969 GTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTGTTTTATCACCT
Found at i:7362526 original size:17 final size:18
Alignment explanation
Indices: 7362496--7362557 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 18
7362486 TTTAATTTTA
7362496 ATTTTAATTT-TTATCA-T
1 ATTTT-ATTTATTATCAGT
*
7362513 ATTTTATTTATTATTAGT
1 ATTTTATTTATTATCAGT
*
7362531 ATTTT-TTTA--ATCATT
1 ATTTTATTTATTATCAGT
*
7362546 ATTTTACTTATT
1 ATTTTATTTATT
7362558 TCTACATACC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
15 9 0.25
16 7 0.19
17 14 0.39
18 6 0.17
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTATTTATTATCAGT
Found at i:7364698 original size:17 final size:18
Alignment explanation
Indices: 7364676--7364709 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7364666 TCGCAAGTGA
7364676 AAAATA-TCGTTAGCTTC
1 AAAATATTCGTTAGCTTC
*
7364693 AAAATATTTGTTAGCTT
1 AAAATATTCGTTAGCTT
7364710 TGTCTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
AAAATATTCGTTAGCTTC
Found at i:7365429 original size:106 final size:105
Alignment explanation
Indices: 7365241--7365497 Score: 307
Period size: 106 Copynumber: 2.4 Consensus size: 105
7365231 TTTTGGACTT
* * * * * *
7365241 TATAATAATTATTGTATTAAATCAATTCTAGTCATTAATTAATGGTCATTGTATTAAGTAAATCT
1 TATAATAACTATTGTATTAAGTCAATCCTA-TCATTGATTAATGGTCATTGTATTAAGCAAATCC
* * *
7365306 TGACCATTGATTCATGGGGATCATATTGTTATCTTGAATTC
65 TAACCATTGATTCATGGGGATCATATTGTAATCTTGAACTC
* * * * * *
7365347 TATAATAACTATTGTATTAAGTCAATCCTGACCATTGATTCATGTTTATTGTATTTAGCCAATCC
1 TATAATAACTATTGTATTAAGTCAATCCT-ATCATTGATTAATGGTCATTGTATTAAGCAAATCC
* ** *
7365412 TAACCATTGATTTATGGGGATTTTGTTGTAATCTTGAACTC
65 TAACCATTGATTCATGGGGATCATATTGTAATCTTGAACTC
*
7365453 TATAATAACTATTGTATTAAGTCAATCCTAATCATTGATTTATGG
1 TATAATAACTATTGTATTAAGTCAATCCT-ATCATTGATTAATGG
7365498 GGATCTTGTT
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
106 126 0.99
107 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (105 bp):
TATAATAACTATTGTATTAAGTCAATCCTATCATTGATTAATGGTCATTGTATTAAGCAAATCCT
AACCATTGATTCATGGGGATCATATTGTAATCTTGAACTC
Found at i:7365507 original size:69 final size:69
Alignment explanation
Indices: 7365393--7365561 Score: 284
Period size: 69 Copynumber: 2.4 Consensus size: 69
7365383 GATTCATGTT
* * *
7365393 TATTGTATTTAGCCAATCCTAACCATTGATTTATGGGGATTTTGTTGTAATCTTGAACTCTATAA
1 TATTGTATTAAGTCAATCCTAACCATTGATTTATGGGGATCTTGTTGTAATCTTGAACTCTATAA
7365458 TAAC
66 TAAC
* *
7365462 TATTGTATTAAGTCAATCCTAATCATTGATTTATGGGGATCTTGTTGTAATCTTGGACTCTATAA
1 TATTGTATTAAGTCAATCCTAACCATTGATTTATGGGGATCTTGTTGTAATCTTGAACTCTATAA
7365527 TAAC
66 TAAC
*
7365531 TATTGTATTAAGTCAATCCTAACCTTTGATT
1 TATTGTATTAAGTCAATCCTAACCATTGATT
7365562 CATGAAAATT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 93 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (69 bp):
TATTGTATTAAGTCAATCCTAACCATTGATTTATGGGGATCTTGTTGTAATCTTGAACTCTATAA
TAAC
Found at i:7365668 original size:93 final size:93
Alignment explanation
Indices: 7365503--7365688 Score: 300
Period size: 93 Copynumber: 2.0 Consensus size: 93
7365493 TATGGGGATC
* * *
7365503 TTGTTGTAATCTTGGACTCTATAATAACTATTGTATTAAGTCAATCCTAACCTTTGATTCATGAA
1 TTGTTGTAATCTTGGACTCTATAATAACTATTGTATTAAGTCAATACTAACATTTAATTCATGAA
* *
7365568 AATTTTAATTATAAATAAATGGTCTCTA
66 AACTTTAACTATAAATAAATGGTCTCTA
* *
7365596 TTGTTGTAATCTTGGACTCTATAATAACTATTGTATTAAGTCAATACTAATATTTAATTCATGAG
1 TTGTTGTAATCTTGGACTCTATAATAACTATTGTATTAAGTCAATACTAACATTTAATTCATGAA
*
7365661 AACTTTAACTATAAATAAATGGTTTCTA
66 AACTTTAACTATAAATAAATGGTCTCTA
7365689 CAACCTATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (93 bp):
TTGTTGTAATCTTGGACTCTATAATAACTATTGTATTAAGTCAATACTAACATTTAATTCATGAA
AACTTTAACTATAAATAAATGGTCTCTA
Found at i:7366346 original size:53 final size:53
Alignment explanation
Indices: 7366266--7366370 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
7366256 TAACCACTAA
7366266 CTCCTTCAATTTTTAACCATTAAAAATACTAACATGGTCGTTAACTTGATGAT
1 CTCCTTCAATTTTTAACCATTAAAAATACTAACATGGTCGTTAACTTGATGAT
* * * * *
7366319 CTCCTTCAATTTTTTATCGTTAAAAATACTAACATGGTTGTTGACTTGATGA
1 CTCCTTCAATTTTTAACCATTAAAAATACTAACATGGTCGTTAACTTGATGA
7366371 CTTGGGCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (53 bp):
CTCCTTCAATTTTTAACCATTAAAAATACTAACATGGTCGTTAACTTGATGAT
Found at i:7368848 original size:68 final size:68
Alignment explanation
Indices: 7368722--7368855 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 68
7368712 AATTATTTTG
* * *
7368722 AATTATAAAATAATGTCTAACCAAATATTCTACAAATTTTACTTTAATTGCTCTCAAATTTAAAA
1 AATTATAAAATAATGTCTAACCAAATATTCTACAAATTTTACTCTAACTCCTCTCAAA-TTAAAA
7368787 ATCC
65 ATCC
* *
7368791 AATTATAAAATAATTTCTAA-CAAATATTCTATTAAA-TTTACTCTAACTCCTCTCAAATTAAAA
1 AATTATAAAATAATGTCTAACCAAATATTCTA-CAAATTTTACTCTAACTCCTCTCAAATTAAAA
7368854 AT
65 AT
7368856 ATAAAGTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
67 8 0.14
68 29 0.49
69 22 0.37
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (68 bp):
AATTATAAAATAATGTCTAACCAAATATTCTACAAATTTTACTCTAACTCCTCTCAAATTAAAAA
TCC
Found at i:7369331 original size:26 final size:25
Alignment explanation
Indices: 7369284--7369332 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
7369274 TTTACATTTT
*
7369284 TTAAAAAATCAATAGATTAATTAAA
1 TTAAAAAATAAATAGATTAATTAAA
7369309 TTAAAAAA-AAATAGCATTGAATTA
1 TTAAAAAATAAATAG-ATT-AATTA
7369333 TATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 11 0.52
26 5 0.24
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAAAAAATAAATAGATTAATTAAA
Found at i:7369463 original size:39 final size:39
Alignment explanation
Indices: 7369406--7369487 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
7369396 CATACATTAT
*
7369406 TAGATCTTTTCGAAAACAGTC-AAAAAATTCTTATCAAAA
1 TAGATCTTTTCGAAAACAGTCAAAAAAATT-TTATAAAAA
*
7369445 TAGATCCTTTT-GATAACAGTCAAAAAAATTTTATAAAAA
1 TAGAT-CTTTTCGAAAACAGTCAAAAAAATTTTATAAAAA
7369484 TAGA
1 TAGA
7369488 ACACGCATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 26 0.67
40 13 0.33
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (39 bp):
TAGATCTTTTCGAAAACAGTCAAAAAAATTTTATAAAAA
Found at i:7374908 original size:54 final size:54
Alignment explanation
Indices: 7374841--7374946 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
7374831 TTGTTGCGAC
7374841 AACTGGGCCGTAGCATGTTAGGCGTCTTGATCTGTTTAAAGCTTCAGCCATATT
1 AACTGGGCCGTAGCATGTTAGGCGTCTTGATCTGTTTAAAGCTTCAGCCATATT
* * *
7374895 AACTGGGCTGTAGCATGTTAGGCGTCTTGATTTGTTTAAAGCTTTAGCCATA
1 AACTGGGCCGTAGCATGTTAGGCGTCTTGATCTGTTTAAAGCTTCAGCCATA
7374947 GTAATGATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (54 bp):
AACTGGGCCGTAGCATGTTAGGCGTCTTGATCTGTTTAAAGCTTCAGCCATATT
Found at i:7384705 original size:125 final size:128
Alignment explanation
Indices: 7384452--7384707 Score: 428
Period size: 128 Copynumber: 2.0 Consensus size: 128
7384442 TAAACATAAG
7384452 TGTTAACCAACTCCAATCAAATTAATTAGACACTGAAGGAAAAAAAAACAAGAACAGACTCACAT
1 TGTTAACCAACTCCAATCAAATTAATTAGACACTGAAGGAAAAAAAAACAAGAACAGACTCACAT
7384517 AAGAACAACATTAAATAATGAAAAAAGATCAAAAAAAACTTGCAATTACAAACATACTGTTATA
66 AAGAACAACATTAAATAATGAAAAAAGA-CAAAAAAAACTTGCAATTACAAACATACTGTTATA
* *
7384581 TGTTAACCAACTCCAATCAAATTAATTAGACACTGAAGG-AAAAAAAACAAGAACAGACTTATAT
1 TGTTAACCAACTCCAATCAAATTAATTAGACACTGAAGGAAAAAAAAACAAGAACAGACTCACAT
* * * *
7384645 AAGAACAACATTAAATATTGAAAGAA-A-AAAAAAACCTTGCAATTGCAAACATACTGTTATA
66 AAGAACAACATTAAATAATGAAAAAAGACAAAAAAAACTTGCAATTACAAACATACTGTTATA
7384706 TG
1 TG
7384708 ACTATATCAC
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
125 34 0.28
127 1 0.01
128 47 0.39
129 39 0.32
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.21
Consensus pattern (128 bp):
TGTTAACCAACTCCAATCAAATTAATTAGACACTGAAGGAAAAAAAAACAAGAACAGACTCACAT
AAGAACAACATTAAATAATGAAAAAAGACAAAAAAAACTTGCAATTACAAACATACTGTTATA
Found at i:7386202 original size:2 final size:2
Alignment explanation
Indices: 7386178--7386234 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
7386168 GCCCAGATAG
* * * * *
7386178 AT AT AT CT AT AT CT AT TT CT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7386220 AT GT AT AT GT AT AT A
1 AT AT AT AT AT AT AT A
7386235 ATTACACATC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7387127 original size:2 final size:2
Alignment explanation
Indices: 7387120--7387150 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7387110 ACCATTCCAA
7387120 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
7387151 AAAAGAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7387282 original size:2 final size:2
Alignment explanation
Indices: 7387275--7387300 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7387265 GTCACCCAAA
7387275 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
7387301 CTTGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7390850 original size:36 final size:34
Alignment explanation
Indices: 7390810--7390884 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
7390800 TGTTTATTAA
* * * *
7390810 ATTTAATAAATAATTTTAAATATCATTTATATATTT
1 ATTTAATAAATAA-ATTAAATATAAATAAT-TATTT
*
7390846 ATTTATTAAATAAATTAAATATAAATAATTATTT
1 ATTTAATAAATAAATTAAATATAAATAATTATTT
7390880 ATTTA
1 ATTTA
7390885 TTTATATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 10 0.29
35 12 0.35
36 12 0.35
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
ATTTAATAAATAAATTAAATATAAATAATTATTT
Found at i:7391014 original size:10 final size:10
Alignment explanation
Indices: 7390999--7391024 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7390989 TTTTATTTTA
7390999 ATATTTATTT
1 ATATTTATTT
7391009 ATATTTATTT
1 ATATTTATTT
7391019 ATATTT
1 ATATTT
7391025 GTTCATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATATTTATTT
Found at i:7392555 original size:17 final size:17
Alignment explanation
Indices: 7392533--7392575 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
7392523 ATGTTAAGGC
7392533 ATATATTTATTTATGAA
1 ATATATTTATTTATGAA
7392550 ATATATTTATTTATGAA
1 ATATATTTATTTATGAA
7392567 ATATATTTA
1 ATATATTTA
7392576 AAAGTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
ATATATTTATTTATGAA
Found at i:7393252 original size:17 final size:16
Alignment explanation
Indices: 7393230--7393268 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
7393220 AAAAATATTT
*
7393230 ATTAAAAATATTATTAA
1 ATTAAAAAAATTA-TAA
7393247 ATTAAAAAAATTATAA
1 ATTAAAAAAATTATAA
7393263 A-TAAAA
1 ATTAAAA
7393269 TAATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAAAAAATTATAA
Found at i:7396661 original size:2 final size:2
Alignment explanation
Indices: 7396611--7396645 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7396601 TAATAGCTTT
*
7396611 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7396646 TGTTCATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7396982 original size:36 final size:36
Alignment explanation
Indices: 7396940--7397020 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
7396930 TCTGCTTTCT
* *
7396940 GGGAAGCACTCATCTGGGTTTCATTATGGGTCGAGG
1 GGGAAGCACTCATCTGGGTTTCATCATGGGTCGAAG
* *
7396976 GGGAAGCACTCGTCTTGGTTTCATCATGGGTCGAAG
1 GGGAAGCACTCATCTGGGTTTCATCATGGGTCGAAG
7397012 GGGAAGCAC
1 GGGAAGCAC
7397021 CTACAATACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.25
Consensus pattern (36 bp):
GGGAAGCACTCATCTGGGTTTCATCATGGGTCGAAG
Found at i:7400234 original size:16 final size:16
Alignment explanation
Indices: 7400213--7400244 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7400203 TGATAATTAT
7400213 TTTATATTAAATTTAA
1 TTTATATTAAATTTAA
*
7400229 TTTATATTTAATTTAA
1 TTTATATTAAATTTAA
7400245 AGAGATATAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATATTAAATTTAA
Found at i:7401168 original size:16 final size:16
Alignment explanation
Indices: 7401136--7401178 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
7401126 TTAAAAGTTA
*
7401136 TTATTTGTTTTTTATTT
1 TTATTT-TTTCTTATTT
7401153 TTATTTTTTCTTATTT
1 TTATTTTTTCTTATTT
*
7401169 GT-TTTTTTCT
1 TTATTTTTTCT
7401179 AAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (16 bp):
TTATTTTTTCTTATTT
Found at i:7401173 original size:14 final size:14
Alignment explanation
Indices: 7401133--7401175 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
7401123 ATTTTAAAAG
7401133 TTATTATTTGTTTT
1 TTATTATTTGTTTT
*
7401147 TTATT-TTTATTTT
1 TTATTATTTGTTTT
*
7401160 TTCTTATTTGTTTT
1 TTATTATTTGTTTT
7401174 TT
1 TT
7401176 TCTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (14 bp):
TTATTATTTGTTTT
Found at i:7411473 original size:14 final size:14
Alignment explanation
Indices: 7411447--7411480 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7411437 TAAATGATGC
7411447 ATAT-TACAAATAT
1 ATATATACAAATAT
*
7411460 ATATATACATATAT
1 ATATATACAAATAT
7411474 ATATATA
1 ATATATA
7411481 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATACAAATAT
Found at i:7416941 original size:17 final size:18
Alignment explanation
Indices: 7416910--7416944 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7416900 CAATTCAATA
*
7416910 AAAAAGGGCTTAAAAAAG
1 AAAAAGGGCTAAAAAAAG
7416928 AAAAAGGGC-AAAAAAAG
1 AAAAAGGGCTAAAAAAAG
7416945 CCGACACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.06, G:0.23, T:0.06
Consensus pattern (18 bp):
AAAAAGGGCTAAAAAAAG
Found at i:7417245 original size:36 final size:37
Alignment explanation
Indices: 7417162--7417256 Score: 156
Period size: 39 Copynumber: 2.5 Consensus size: 37
7417152 ATCTTAAATT
7417162 TTAAATTATTATTTTTAATACATTAAAATTTATGAAA
1 TTAAATTATTATTTTTAATACATTAAAATTTATGAAA
7417199 TTAATTATTATTATTTTTAATACATTAAAATTTATGAAA
1 TTAA--ATTATTATTTTTAATACATTAAAATTTATGAAA
*
7417238 TT-AATTATTATATTTAATA
1 TTAAATTATTATTTTTAATA
7417257 TAAAATATTA
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
36 15 0.27
37 4 0.07
38 1 0.02
39 35 0.64
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (37 bp):
TTAAATTATTATTTTTAATACATTAAAATTTATGAAA
Found at i:7423098 original size:2 final size:2
Alignment explanation
Indices: 7423091--7423124 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7423081 CAAATTTTGT
7423091 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7423125 GTTTTTGATA
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):
TA
Found at i:7426106 original size:20 final size:21
Alignment explanation
Indices: 7426069--7426107 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7426059 AAATAAAAAA
*
7426069 AAAAAATTATCACTTCAATAT
1 AAAAAATTATCACATCAATAT
*
7426090 AAAAGATTAT-ACATCAAT
1 AAAAAATTATCACATCAAT
7426108 TATTGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAAAATTATCACATCAATAT
Found at i:7430085 original size:14 final size:15
Alignment explanation
Indices: 7430060--7430089 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7430050 ACTTGTTAGT
7430060 ATTAATTAAAAAATA
1 ATTAATTAAAAAATA
7430075 ATTAA-TAAAAAATA
1 ATTAATTAAAAAATA
7430089 A
1 A
7430090 AAAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAATTAAAAAATA
Found at i:7430162 original size:18 final size:19
Alignment explanation
Indices: 7430125--7430163 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7430115 TATGAAATTA
*
7430125 TTTGAATTGGATTGTAAAG
1 TTTGAATTGAATTGTAAAG
*
7430144 TTTGAGTTGAATT-TAAAG
1 TTTGAATTGAATTGTAAAG
7430162 TT
1 TT
7430164 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (19 bp):
TTTGAATTGAATTGTAAAG
Found at i:7430942 original size:25 final size:24
Alignment explanation
Indices: 7430918--7430961 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7430908 TTATCCAATG
7430918 ATGA-AAATTTTA-AAAATTTCAA
1 ATGATAAATTTTATAAAATTTCAA
7430940 ATGATAAATTTTATAAAATTTC
1 ATGATAAATTTTATAAAATTTC
7430962 TAGGTGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (24 bp):
ATGATAAATTTTATAAAATTTCAA
Found at i:7431232 original size:172 final size:170
Alignment explanation
Indices: 7430906--7431241 Score: 407
Period size: 172 Copynumber: 2.0 Consensus size: 170
7430896 AATAAATAAT
7430906 AATTATCCAATGATGAAAATTTTAAAAATTTCAAATGATAAATTTTATAAAATTTCTAGGTGAGA
1 AATTATCCAATGATGAAAATTTTAAAAATTTCAAATGATAAATTTTATAAAATTTCTAGGTGAGA
** *
7430971 AAATTTTTTAAATTTATCTTAAATGGTGGAATAATTTAGAAAAAATTTTAATAAAAATAATTAAT
66 AAATTTTTTAAATTTATCTTAAATGGTAAAATAATTTAGAAAAAATCTTAATAAAAATAATTAAT
*
7431036 ATTTATTTTTAAATTTTTAAAAAATAAAAAAAAATATTTGAC
131 ATTTATTTTTAAA--TTAAAAAAATAAAAAAAAATATTTGAC
* * * * *
7431078 AATTATCCAATGATTAGATTTTTAAAAATTTCAAATGATAAATTTCTA-AGAAGTTTCTATGTGA
1 AATTATCCAATGATGAAAATTTTAAAAATTTCAAATGATAAATTT-TATA-AAATTTCTAGGTGA
* * *
7431142 G-AAATTTCTTTAAATTTGTCTTAAATGGTAAAATAATTTA-AATGAAA-CTTCA-AAAAATAAT
64 GAAAATTT-TTTAAATTTATCTTAAATGGTAAAATAATTTAGAA-AAAATCTTAATAAAAATAA-
*
7431203 TGTCATATTATTT-TTTTTAGA-TAAAAAAATAAAAAAAAA
126 T-T-A-A-TATTTATTTTTAAATTAAAAAAATAAAAAAAAA
7431242 AATAATTTCT
Statistics
Matches: 142, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
171 8 0.06
172 72 0.51
173 48 0.34
174 1 0.01
175 8 0.06
176 5 0.04
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (170 bp):
AATTATCCAATGATGAAAATTTTAAAAATTTCAAATGATAAATTTTATAAAATTTCTAGGTGAGA
AAATTTTTTAAATTTATCTTAAATGGTAAAATAATTTAGAAAAAATCTTAATAAAAATAATTAAT
ATTTATTTTTAAATTAAAAAAATAAAAAAAAATATTTGAC
Found at i:7431297 original size:44 final size:44
Alignment explanation
Indices: 7431249--7431336 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
7431239 AAAAATAATT
7431249 TCTAAAT-AGAACAAAATGGTGAAAAATTTACAAA-TAAAAAAAAA
1 TCTAAATAAG-ACAAAATGGTGAAAAA-TTACAAATTAAAAAAAAA
* * *
7431293 TCTAAATAAGCCCAAATGGTGAAAAATTAGAAATTAAAAAAAAA
1 TCTAAATAAGACAAAATGGTGAAAAATTACAAATTAAAAAAAAA
7431337 AATTTTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 6 0.15
44 31 0.79
45 2 0.05
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (44 bp):
TCTAAATAAGACAAAATGGTGAAAAATTACAAATTAAAAAAAAA
Found at i:7436454 original size:2 final size:2
Alignment explanation
Indices: 7436447--7436474 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7436437 CTCATTATGT
7436447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7436475 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7437701 original size:18 final size:19
Alignment explanation
Indices: 7437678--7437717 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
7437668 CATAATTCAA
7437678 ATTTAATTAAATTAA-TCG
1 ATTTAATTAAATTAATTCG
* *
7437696 ATTTAATTGATTTAATTCG
1 ATTTAATTAAATTAATTCG
7437715 ATT
1 ATT
7437718 AATCGATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTTAATTAAATTAATTCG
Found at i:7439383 original size:13 final size:13
Alignment explanation
Indices: 7439360--7439394 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
7439350 ACGGTTTCAA
7439360 CTTTGCTTTGCTCT
1 CTTT-CTTTGCTCT
*
7439374 CTTTCTTTGCTTT
1 CTTTCTTTGCTCT
7439387 CTTTCTTT
1 CTTTCTTT
7439395 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.66
Consensus pattern (13 bp):
CTTTCTTTGCTCT
Found at i:7458332 original size:71 final size:70
Alignment explanation
Indices: 7458231--7458374 Score: 245
Period size: 71 Copynumber: 2.0 Consensus size: 70
7458221 TGTGAGAAAG
7458231 AAAGGGGCAAAACATAAAGCAAGAGAAAAAGCATCAGTAACTATAAGCCTCAA-TGCTCCACTCA
1 AAAGGGGCAAAACATAAAGCAAGAGAAAAAGCATCAGTAACTATAAGCCT-AATTGCTCCACTC-
7458295 AAGTATA
64 AAGTATA
* *
7458302 AAAGGGGCAAAATATAAAGCAAGAGGAAAAGCATCAGTAACTATAAGCCTAATTGCTCCACTCAA
1 AAAGGGGCAAAACATAAAGCAAGAGAAAAAGCATCAGTAACTATAAGCCTAATTGCTCCACTCAA
7458367 GTATA
66 GTATA
7458372 AAA
1 AAA
7458375 TTACGATATT
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
70 12 0.17
71 58 0.83
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (70 bp):
AAAGGGGCAAAACATAAAGCAAGAGAAAAAGCATCAGTAACTATAAGCCTAATTGCTCCACTCAA
GTATA
Found at i:7462389 original size:3 final size:3
Alignment explanation
Indices: 7462381--7462423 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7462371 TTTGAAAACG
7462381 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7462424 TACTCATGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7462777 original size:18 final size:17
Alignment explanation
Indices: 7462751--7462794 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7462741 TTTGTGTTAC
*
7462751 ATTTAAATAAATTTTTA
1 ATTTTAATAAATTTTTA
7462768 TATTTTAATAAATTTTTA
1 -ATTTTAATAAATTTTTA
7462786 ATCTTTAAT
1 AT-TTTAAT
7462795 TTATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTAATAAATTTTTA
Found at i:7468621 original size:2 final size:2
Alignment explanation
Indices: 7468616--7468641 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7468606 AGATGCTCCT
7468616 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7468642 CACACACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7471229 original size:2 final size:2
Alignment explanation
Indices: 7471193--7471217 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7471183 ACATGCATAA
7471193 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7471218 CATACTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7472404 original size:3 final size:3
Alignment explanation
Indices: 7472398--7472426 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7472388 ATGGAATAAT
7472398 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
7472427 AATGTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7472603 original size:2 final size:2
Alignment explanation
Indices: 7472596--7472622 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7472586 CAGACCCGTC
7472596 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7472623 ACTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7479237 original size:2 final size:2
Alignment explanation
Indices: 7479230--7479254 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7479220 ACCACCCAAA
7479230 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7479255 GAATCTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7483735 original size:14 final size:14
Alignment explanation
Indices: 7483716--7483752 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
7483706 TAATTTGATG
7483716 GAAACCAAATAGGT
1 GAAACCAAATAGGT
7483730 GAAACCAAATAGGT
1 GAAACCAAATAGGT
7483744 GAAACCAAA
1 GAAACCAAA
7483753 AGTTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.54, C:0.16, G:0.19, T:0.11
Consensus pattern (14 bp):
GAAACCAAATAGGT
Found at i:7502737 original size:14 final size:13
Alignment explanation
Indices: 7502680--7502731 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
7502670 TTAAAATTAT
7502680 TTAAAATATTTAA
1 TTAAAATATTTAA
* **
7502693 ATAAAATGATTATTT
1 TTAAAAT-ATT-TAA
7502708 TTAAAATATTTAA
1 TTAAAATATTTAA
7502721 TTAAAA-ATTTA
1 TTAAAATATTTA
7502732 CGATTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
12 5 0.16
13 13 0.42
14 6 0.19
15 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
TTAAAATATTTAA
Found at i:7502860 original size:80 final size:81
Alignment explanation
Indices: 7502767--7502968 Score: 232
Period size: 80 Copynumber: 2.5 Consensus size: 81
7502757 AATTATTTTA
*
7502767 TTTAAAACGTTTCTATACAAAAAACGCTTCAAATAATTTTTTAATTTTTATGAT-ACTTTAATTA
1 TTTAAGACGTTTCTATACAAAAAACGCTTCAAATAATTTTTT-ATTTTTATGATCACTTTAATTA
7502831 AAAAAATTAAA-AAAAT
65 AAAAAATTAAAGAAAAT
* * * *
7502847 TTTAAGACGTTTCTATAC-AGAAACACTTTAAATAAATTTTTTATTTTTATGATCATTTTAATTA
1 TTTAAGACGTTTCTATACAAAAAACGCTTCAAAT-AATTTTTTATTTTTATGATCACTTTAATTA
* ***
7502911 ATAAAATTAAAGTTTAT
65 AAAAAATTAAAGAAAAT
* * * * *
7502928 TTAAAG-TGTTTCTGTTCAAAAAATGCTTCAAATAATTTTTT
1 TTTAAGACGTTTCTATACAAAAAACGCTTCAAATAATTTTTT
7502969 TATTATAACA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
79 23 0.23
80 60 0.59
81 18 0.18
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (81 bp):
TTTAAGACGTTTCTATACAAAAAACGCTTCAAATAATTTTTTATTTTTATGATCACTTTAATTAA
AAAAATTAAAGAAAAT
Found at i:7504480 original size:33 final size:33
Alignment explanation
Indices: 7504419--7504482 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
7504409 AAGCTTTCGA
*
7504419 ATTTGCATTTTTAGTAGTTTTAAAAAGTTTTTT
1 ATTTGCATTTTTAATAGTTTTAAAAAGTTTTTT
* *
7504452 ATTTGCATTTTTGAATA-TTTTTACAAGTTTT
1 ATTTGCATTTTT-AATAGTTTTAAAAAGTTTT
7504483 CAAAAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (33 bp):
ATTTGCATTTTTAATAGTTTTAAAAAGTTTTTT
Found at i:7504610 original size:20 final size:20
Alignment explanation
Indices: 7504559--7504610 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
7504549 CTCAATTTGC
*
7504559 ATTTTCT-AAAACTTTTAAA
1 ATTTTCTAAAAACCTTTAAA
*
7504578 AGTTTT-GAGAAAACCTTTAAA
1 A-TTTTCTA-AAAACCTTTAAA
7504599 ATTTTCTAAAAA
1 ATTTTCTAAAAA
7504611 TACATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 13 0.50
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (20 bp):
ATTTTCTAAAAACCTTTAAA
Found at i:7509834 original size:18 final size:18
Alignment explanation
Indices: 7509813--7509858 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7509803 TTAAATCTAA
*
7509813 AAATATTTTAAAAATATG
1 AAATATTTTAAAAATATC
* *
7509831 AAATATTTAAAAAATTTC
1 AAATATTTTAAAAATATC
7509849 AAA-ATTTTAA
1 AAATATTTTAA
7509859 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATATTTTAAAAATATC
Found at i:7509887 original size:25 final size:25
Alignment explanation
Indices: 7509838--7509907 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
7509828 ATGAAATATT
* *
7509838 TAAAAAATT-TCAAAATTTTAATAAAA
1 TAAAAAATTATTAAAATTTT-A-AAAG
7509864 TAAAAAATTATATAAAATTTTAAAAG
1 TAAAAAATTAT-TAAAATTTTAAAAG
*
7509890 TAAAAATTTATTAAAATT
1 TAAAAAATTATTAAAATT
7509908 CAAAAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 7 0.18
26 22 0.56
27 2 0.05
28 8 0.21
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (25 bp):
TAAAAAATTATTAAAATTTTAAAAG
Found at i:7509913 original size:25 final size:25
Alignment explanation
Indices: 7509860--7509913 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
7509850 AAATTTTAAT
*
7509860 AAAATAAAAAATTATATAAAATTTTA
1 AAAATAAAAAATTATATAAAA-TTCA
* *
7509886 AAAGTAAAAATTTAT-TAAAATTCA
1 AAAATAAAAAATTATATAAAATTCA
7509910 AAAA
1 AAAA
7509914 AATTCACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 6 0.25
25 5 0.21
26 13 0.54
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAATAAAAAATTATATAAAATTCA
Found at i:7510019 original size:39 final size:39
Alignment explanation
Indices: 7509976--7510061 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
7509966 TTGAAAGTTT
*
7509976 TAAAAAATAA-AAAAAGCTGAAAACATTATTAAAAAATTA
1 TAAAAAATAATAAAAAGCTG-AAACATTATAAAAAAATTA
* * * *
7510015 TAAAAAA-AATTTAAAAGTTGAAACATTCTAAAAAAATTG
1 TAAAAAATAA-TAAAAAGCTGAAACATTATAAAAAAATTA
7510054 TAAAAAAT
1 TAAAAAAT
7510062 TTTACAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.05
39 30 0.77
40 7 0.18
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.26
Consensus pattern (39 bp):
TAAAAAATAATAAAAAGCTGAAACATTATAAAAAAATTA
Found at i:7510323 original size:45 final size:44
Alignment explanation
Indices: 7510246--7510349 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 44
7510236 TGTTTAGAAC
* * * *
7510246 TTTTTTGAAATTTCTTGGATTTTGTTTTAATTTTTA-ATTTTTAGA
1 TTTTTTG-AATTTTTTAGATTTTG-TTAAAATTTTAGATTTTTAGA
**
7510291 TTTTTTGAATTTTTTAGATTTTAGTTAAAATTTTAGATTTTTTTA
1 TTTTTTGAATTTTTTAGATTTT-GTTAAAATTTTAGATTTTTAGA
7510336 TCTTTTT-AATTTTT
1 T-TTTTTGAATTTTT
7510350 ATAAAATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
44 22 0.44
45 23 0.46
46 5 0.10
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (44 bp):
TTTTTTGAATTTTTTAGATTTTGTTAAAATTTTAGATTTTTAGA
Found at i:7510350 original size:37 final size:35
Alignment explanation
Indices: 7510284--7510359 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 35
7510274 AATTTTTAAT
7510284 TTTTAGATTTTTTGAATTTTTTAGATTTTAGTTAAAA
1 TTTTAGATTTTTTGAATTTTTTAGATTTTA--TAAAA
*
7510321 TTTTAGATTTTTT-TATCTTTTTA-ATTTTTATAAAA
1 TTTTAGATTTTTTGAAT-TTTTTAGA-TTTTATAAAA
7510356 TTTT
1 TTTT
7510360 TAATATCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
35 9 0.25
36 3 0.08
37 24 0.67
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (35 bp):
TTTTAGATTTTTTGAATTTTTTAGATTTTATAAAA
Found at i:7510359 original size:17 final size:18
Alignment explanation
Indices: 7510284--7510359 Score: 50
Period size: 17 Copynumber: 4.2 Consensus size: 18
7510274 AATTTTTAAT
**
7510284 TTTTAGATTTTT-TGAATT
1 TTTTAGATTTTTAT-AAAA
7510302 TTTTAGA-TTTTAGTTAAAA
1 TTTTAGATTTTTA--TAAAA
* ***
7510321 TTTTAGATTTTTTTATCT
1 TTTTAGATTTTTATAAAA
7510339 TTTTA-ATTTTTATAAAA
1 TTTTAGATTTTTATAAAA
7510356 TTTT
1 TTTT
7510360 TAATATCTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
17 16 0.36
18 14 0.32
19 9 0.20
20 5 0.11
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTAGATTTTTATAAAA
Found at i:7510359 original size:18 final size:18
Alignment explanation
Indices: 7510338--7510386 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
7510328 TTTTTTTATC
*
7510338 TTTTTAATTTTTATAAAA
1 TTTTTAATTTTTACAAAA
*
7510356 TTTTTAATATCTTACAAAA
1 TTTTTAAT-TTTTACAAAA
*
7510375 TATTTAAATTTT
1 T-TTTTAATTTT
7510387 GTAATCTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAATTTTTACAAAA
Found at i:7510469 original size:20 final size:21
Alignment explanation
Indices: 7510437--7510489 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 21
7510427 AAAAATTAGA
7510437 TTTTT-TAAATTTTCT-TT-TT
1 TTTTTGTAAATTTT-TGTTATT
*
7510456 TTTTTGTAAGTTTTTGTTATT
1 TTTTTGTAAATTTTTGTTATT
7510477 TTTTTG--AATTTTT
1 TTTTTGTAAATTTTT
7510490 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 12 0.41
20 9 0.31
21 8 0.28
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (21 bp):
TTTTTGTAAATTTTTGTTATT
Found at i:7510627 original size:18 final size:18
Alignment explanation
Indices: 7510606--7510655 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
7510596 TTTTCATTTT
7510606 ATTAAAATTTTTAAAAAA
1 ATTAAAATTTTTAAAAAA
** **
7510624 ATTAATTTTTTTTGAAAA
1 ATTAAAATTTTTAAAAAA
*
7510642 TTTAAAATTTTTAA
1 ATTAAAATTTTTAA
7510656 TGCTTTTATG
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAAAATTTTTAAAAAA
Found at i:7510631 original size:27 final size:27
Alignment explanation
Indices: 7510573--7510634 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
7510563 AATCTTCATA
**
7510573 AATTTTTTAAAAATTTTGAAAAATTTT
1 AATTTTTTAAAAATTTTGAAAAAAATT
* *
7510600 CATTTTATT-AAAATTTTTAAAAAAATT
1 AATTTT-TTAAAAATTTTGAAAAAAATT
7510627 AATTTTTT
1 AATTTTTT
7510635 TTGAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
AATTTTTTAAAAATTTTGAAAAAAATT
Found at i:7535160 original size:60 final size:60
Alignment explanation
Indices: 7535051--7535177 Score: 168
Period size: 59 Copynumber: 2.1 Consensus size: 60
7535041 TTTATCGTGC
* * *
7535051 CATAATTGATAAAAAATAATATAATGTTTCTTTTAGCATAATTATAAAATATCTTTTTTAT
1 CATAATTGATAAAAAATAATATAATATTTCTTCTAGCATAATTAAAAAATATC-TTTTTAT
* * *
7535112 CATAATTGA-AAAAACTACTATAATATTT-TTCTATCATAATTACAAAAATATCTTTTTAT
1 CATAATTGATAAAAAATAATATAATATTTCTTCTAGCATAATTA-AAAAATATCTTTTTAT
7535171 CATAATT
1 CATAATT
7535178 AACCAAAATC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
59 26 0.44
60 24 0.41
61 9 0.15
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (60 bp):
CATAATTGATAAAAAATAATATAATATTTCTTCTAGCATAATTAAAAAATATCTTTTTAT
Found at i:7535368 original size:15 final size:15
Alignment explanation
Indices: 7535340--7535373 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7535330 TACTAATTTT
7535340 AAAT-TATATATCAA
1 AAATATATATATCAA
*
7535354 AAATATATATTTCAA
1 AAATATATATATCAA
7535369 AAATA
1 AAATA
7535374 ATTGAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATATATATCAA
Found at i:7537145 original size:16 final size:16
Alignment explanation
Indices: 7537124--7537171 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
7537114 ACTCTTATTA
7537124 AATTACATATTAAATT
1 AATTACATATTAAATT
7537140 AATTACATA--AAACTT
1 AATTACATATTAAA-TT
**
7537155 AGCTACATATTAAATT
1 AATTACATATTAAATT
7537171 A
1 A
7537172 TTATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 12 0.44
17 3 0.11
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (16 bp):
AATTACATATTAAATT
Found at i:7537450 original size:19 final size:19
Alignment explanation
Indices: 7537407--7537444 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7537397 TACTATATAT
*
7537407 ATTTATTTTAATATTTTTA
1 ATTTAATTTAATATTTTTA
*
7537426 ATTTAATTTATTATTTTTA
1 ATTTAATTTAATATTTTTA
7537445 TATTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTAATTTAATATTTTTA
Found at i:7537479 original size:18 final size:18
Alignment explanation
Indices: 7537458--7537500 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7537448 TAAAATAATT
*
7537458 ATAAATATATTCA-AAATA
1 ATAAATA-ATTAATAAATA
7537476 ATAAATAATTAATAAATA
1 ATAAATAATTAATAAATA
7537494 A-AAATAA
1 ATAAATAA
7537501 ATTTTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAATAATTAATAAATA
Found at i:7538115 original size:15 final size:15
Alignment explanation
Indices: 7538097--7538130 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7538087 AATTTTTATT
*
7538097 ATTAAATTTAATTTC
1 ATTAAAATTAATTTC
*
7538112 ATTAAAATTAATTTT
1 ATTAAAATTAATTTC
7538127 ATTA
1 ATTA
7538131 TCCATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTAAAATTAATTTC
Found at i:7538260 original size:12 final size:12
Alignment explanation
Indices: 7538245--7538282 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7538235 GTACATATAC
7538245 ATATATATATGT
1 ATATATATATGT
*
7538257 ATATGTATATGT
1 ATATATATATGT
*
7538269 ACATATA-ATGT
1 ATATATATATGT
7538280 ATA
1 ATA
7538283 CGTATGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (12 bp):
ATATATATATGT
Found at i:7555061 original size:20 final size:21
Alignment explanation
Indices: 7555036--7555076 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7555026 ATAATTACTT
* *
7555036 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
7555056 TATATTAAAAATTATATTAAA
1 TATATTAAAAATTATATTAAA
7555077 ATAATGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:7568006 original size:2 final size:2
Alignment explanation
Indices: 7568001--7568035 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7567991 TCTCTCTCTC
*
7568001 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7568036 GTATGTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7568036 original size:12 final size:12
Alignment explanation
Indices: 7568001--7568051 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
7567991 TCTCTCTCTC
*
7568001 TATATATATATA
1 TATATATATATG
7568013 TATATATATATG
1 TATATATATATG
7568025 TATATATATATG
1 TATATATATATG
* *
7568037 TATGTATGTATG
1 TATATATATATG
7568049 TAT
1 TAT
7568052 GTAGTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:7568040 original size:4 final size:4
Alignment explanation
Indices: 7568021--7568054 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
7568011 TATATATATA
* *
7568021 TATG TATA TATA TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
7568055 GTTAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:7577465 original size:16 final size:15
Alignment explanation
Indices: 7577446--7577482 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
7577436 ACATATTTAT
7577446 TATATTCTATAAAAAA
1 TATATTCT-TAAAAAA
*
7577462 TATATGCTTAAAAAA
1 TATATTCTTAAAAAA
7577477 TATATT
1 TATATT
7577483 AAAAGATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATTCTTAAAAAA
Found at i:7577556 original size:19 final size:19
Alignment explanation
Indices: 7577529--7577565 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7577519 TTATAACACG
7577529 AAAGCTAAAATCAAATTAA
1 AAAGCTAAAATCAAATTAA
*
7577548 AAAGTTAAAATCAAATTA
1 AAAGCTAAAATCAAATTA
7577566 TTGTGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAGCTAAAATCAAATTAA
Found at i:7577667 original size:13 final size:13
Alignment explanation
Indices: 7577649--7577676 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7577639 ATGTAATTTT
7577649 AACCCTTTAATTA
1 AACCCTTTAATTA
7577662 AACCCTTTAATTA
1 AACCCTTTAATTA
7577675 AA
1 AA
7577677 TTTCAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (13 bp):
AACCCTTTAATTA
Found at i:7578163 original size:173 final size:173
Alignment explanation
Indices: 7577855--7578201 Score: 471
Period size: 173 Copynumber: 2.0 Consensus size: 173
7577845 TGAGTCGATA
*
7577855 TAATGAGAAATTCAAACTCGAGCTCGACTCTCAATTCGCGATTCGATACTGGACTTGAACTCGAT
1 TAATGAGAAATTCAAACTCGAGCTCGACTCTCAATTCGCGACTCGATACTGGACTTGAACTCGAT
** * * * * * **
7577920 TGAGTTTCATTTTTTTAGCTCAAGCTTAATTCGTGATCGAAATCGAGTTACTCAAGCTCACTCGA
66 CAAGTTTCATTTTTTTAACTCAAACTCAATTCATAATCGAAATCGAACTACTCAAGCTCACTCGA
* *
7577985 TTAATATATAAAAATAAGTTTAATTTATATACTCGACGATAAT
131 TTAATATATAAAAATAAGTTCAATTTATATACTCGACAATAAT
* * * * * * *
7578028 TAATGAGAAATTCAAGCTTGAGCTCGATTCTTAATTCGCGGCTCGTTACTGGACTTGAATTCGAT
1 TAATGAGAAATTCAAACTCGAGCTCGACTCTCAATTCGCGACTCGATACTGGACTTGAACTCGAT
* * *
7578093 CAAGTTTTATTTTTTTAACTCAAACTCAATTCATAATCGAAATCGAACTACTCGAA-TTCACTCT
66 CAAGTTTCATTTTTTTAACTCAAACTCAATTCATAATCGAAATCGAACTACTC-AAGCTCACTCG
*
7578157 ATTAATATATAAAAATAAGTTCAATTTGTATACTCGACAATAAT
130 ATTAATATATAAAAATAAGTTCAATTTATATACTCGACAATAAT
7578201 T
1 T
7578202 CAATTATTTG
Statistics
Matches: 150, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
173 148 0.99
174 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (173 bp):
TAATGAGAAATTCAAACTCGAGCTCGACTCTCAATTCGCGACTCGATACTGGACTTGAACTCGAT
CAAGTTTCATTTTTTTAACTCAAACTCAATTCATAATCGAAATCGAACTACTCAAGCTCACTCGA
TTAATATATAAAAATAAGTTCAATTTATATACTCGACAATAAT
Found at i:7584557 original size:15 final size:16
Alignment explanation
Indices: 7584537--7584574 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7584527 ATTAACCATT
7584537 TTTTATTA-TTAAATA
1 TTTTATTATTTAAATA
*
7584552 TTTTATTATTTATATA
1 TTTTATTATTTAAATA
7584568 TTTTATT
1 TTTTATT
7584575 TGTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTATTTAAATA
Found at i:7584720 original size:15 final size:15
Alignment explanation
Indices: 7584678--7584729 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
7584668 TAATAAATTT
7584678 ACAAAATAAAAAAATA
1 ACAAAATAAAAAAA-A
** *
7584694 ATTAAATGAAAACAAA
1 ACAAAAT-AAAAAAAA
*
7584710 ACAAAATAAAATAAA
1 ACAAAATAAAAAAAA
7584725 ACAAA
1 ACAAA
7584730 CAAATAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 12 0.41
16 11 0.38
17 6 0.21
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (15 bp):
ACAAAATAAAAAAAA
Found at i:7584743 original size:19 final size:21
Alignment explanation
Indices: 7584697--7584743 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 21
7584687 AAAAATAATT
*
7584697 AAATGAAAACAAAACAAAATA
1 AAATTAAAACAAAACAAAATA
7584718 AAA-TAAAAC-AAAC-AAATA
1 AAATTAAAACAAAACAAAATA
7584736 AAATTAAA
1 AAATTAAA
7584744 TATAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 5 0.21
21 3 0.12
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.13
Consensus pattern (21 bp):
AAATTAAAACAAAACAAAATA
Found at i:7586212 original size:29 final size:29
Alignment explanation
Indices: 7586180--7586241 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
7586170 TAATCATCTC
* *
7586180 TATTCATGTATATCCATGTTAATCGTATT
1 TATTCATATATATCCATATTAATCGTATT
* * *
7586209 TATTTATATATATCCATATTATTCGTGTT
1 TATTCATATATATCCATATTAATCGTATT
7586238 TATT
1 TATT
7586242 TGTATTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (29 bp):
TATTCATATATATCCATATTAATCGTATT
Found at i:7586242 original size:29 final size:30
Alignment explanation
Indices: 7586188--7586251 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
7586178 TCTATTCATG
*
7586188 TATATCCATGTTAATCGTATTTATTTATA-
1 TATATCCATATTAATCGTATTTATTTATAT
* * *
7586217 TATATCCATATTATTCGTGTTTATTTGTAT
1 TATATCCATATTAATCGTATTTATTTATAT
7586247 TATAT
1 TATAT
7586252 TTAAACTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (30 bp):
TATATCCATATTAATCGTATTTATTTATAT
Found at i:7593548 original size:22 final size:22
Alignment explanation
Indices: 7593518--7593566 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
7593508 TCTTTATTTC
*
7593518 ATGTTTTAAATTACGAAGTATG
1 ATGTATTAAATTACGAAGTATG
*
7593540 ATGTATTAAATTGCGAAGTATG
1 ATGTATTAAATTACGAAGTATG
7593562 ATGTA
1 ATGTA
7593567 GACAACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (22 bp):
ATGTATTAAATTACGAAGTATG
Found at i:7594160 original size:14 final size:15
Alignment explanation
Indices: 7594142--7594192 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
7594132 AACTTTTAAA
7594142 ATATTAAAAATTATT
1 ATATTAAAAATTATT
*
7594157 -TATTATTAAATTATT
1 ATATTA-AAAATTATT
**
7594172 AATATTAAAAACAATT
1 -ATATTAAAAATTATT
7594188 ATATT
1 ATATT
7594193 TTAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 5 0.17
15 13 0.45
16 6 0.21
17 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTAAAAATTATT
Found at i:7594228 original size:19 final size:19
Alignment explanation
Indices: 7594193--7594231 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7594183 CAATTATATT
7594193 TTAATAATAATATTTAATA
1 TTAATAATAATATTTAATA
*
7594212 TTAA-AATATTATGTTAATA
1 TTAATAATAATAT-TTAATA
7594231 T
1 T
7594232 AAGAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAATAATAATATTTAATA
Found at i:7594398 original size:20 final size:18
Alignment explanation
Indices: 7594364--7594400 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
7594354 TTTAATTAAA
7594364 ATTAAATAAAATATTTAT
1 ATTAAATAAAATATTTAT
7594382 ATTAATATAATAATATTTA
1 ATTAA-ATAA-AATATTTA
7594401 AGTAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAATAAAATATTTAT
Found at i:7599454 original size:68 final size:69
Alignment explanation
Indices: 7599340--7599479 Score: 174
Period size: 68 Copynumber: 2.0 Consensus size: 69
7599330 GCATTCTCTG
* * * * *
7599340 TCACTTATATTCTCTAACCACTTTTAGCAACAAATCTTCAA-ATTTTTTATAATTAAATTTGTTA
1 TCACTTATATTCTCTAACCAATTTTAGCAACAAAACCTCAATATTTTTTATAATTAAAATTATTA
7599404 GGAT
66 GGAT
** * *
7599408 TCACTTATATTCTCTTTCCAATTTTAGCAACAAAACCTCAGTTTTTTTTTTATAATTAAAATTAT
1 TCACTTATATTCTCTAACCAATTTTAGCAACAAAACCTCA--ATATTTTTTATAATTAAAATTAT
7599473 TAGGAT
64 TAGGAT
7599479 T
1 T
7599480 TAATCTTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
68 35 0.58
71 25 0.42
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.46
Consensus pattern (69 bp):
TCACTTATATTCTCTAACCAATTTTAGCAACAAAACCTCAATATTTTTTATAATTAAAATTATTA
GGAT
Found at i:7604094 original size:12 final size:11
Alignment explanation
Indices: 7604076--7604105 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
7604066 TCTTCTCCCC
7604076 TTTTTCTTTTT
1 TTTTTCTTTTT
7604087 TCTTTTCTTTTT
1 T-TTTTCTTTTT
7604099 TTTTTCT
1 TTTTTCT
7604106 CTCTCCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:7606138 original size:21 final size:21
Alignment explanation
Indices: 7606113--7606155 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7606103 AAGCACCTAT
7606113 TATAAAACAACTAAAGAAAGA
1 TATAAAACAACTAAAGAAAGA
7606134 TATAAAACAACTAAAGAAAGA
1 TATAAAACAACTAAAGAAAGA
7606155 T
1 T
7606156 CTTCATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.16
Consensus pattern (21 bp):
TATAAAACAACTAAAGAAAGA
Found at i:7608283 original size:11 final size:11
Alignment explanation
Indices: 7608253--7608285 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7608243 TCAATTTATT
*
7608253 TATTTTTCACA
1 TATTTTTCATA
7608264 TA-TTTTCATA
1 TATTTTTCATA
7608274 TATTTTTCATA
1 TATTTTTCATA
7608285 T
1 T
7608286 TTTGTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTTCATA
Found at i:7608546 original size:18 final size:17
Alignment explanation
Indices: 7608518--7608551 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
7608508 TGACAAATCA
7608518 ATATATATAAATTTTAT
1 ATATATATAAATTTTAT
7608535 ATATATTATAAATTTTA
1 ATATA-TATAAATTTTA
7608552 AAGACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATATAAATTTTAT
Found at i:7609659 original size:24 final size:23
Alignment explanation
Indices: 7609632--7609685 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
7609622 TATAACTTTT
*
7609632 TAATTTGGATTTACTTATTATAAA
1 TAATTT-GAATTACTTATTATAAA
* *
7609656 TAATATTTAATTACTTATTATCAA
1 TAAT-TTGAATTACTTATTATAAA
*
7609680 TCATTT
1 TAATTT
7609686 TTAATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (23 bp):
TAATTTGAATTACTTATTATAAA
Found at i:7609688 original size:24 final size:24
Alignment explanation
Indices: 7609642--7609691 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
7609632 TAATTTGGAT
7609642 TTACTTATTATAAATAATATTTAA
1 TTACTTATTATAAATAATATTTAA
* * *
7609666 TTACTTATTATCAATCATTTTTAA
1 TTACTTATTATAAATAATATTTAA
7609690 TT
1 TT
7609692 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (24 bp):
TTACTTATTATAAATAATATTTAA
Found at i:7609898 original size:20 final size:20
Alignment explanation
Indices: 7609873--7609915 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7609863 GTTAAAATAA
*
7609873 TATTTTATGTTTA-ATATATT
1 TATTTTAT-TATAGATATATT
7609893 TATTTTATTATAGATATATT
1 TATTTTATTATAGATATATT
7609913 TAT
1 TAT
7609916 ATATTAGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TATTTTATTATAGATATATT
Found at i:7623128 original size:26 final size:28
Alignment explanation
Indices: 7623099--7623161 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
7623089 TTTTATCTTG
*
7623099 TATATTTAGATA-ATTTTTT-ATAAAAA
1 TATATTAAGATATATTTTTTAATAAAAA
*
7623125 TATATTAATATATATTTTTTCAATAAAAA
1 TATATTAAGATATATTTTTT-AATAAAAA
*
7623154 TTTATTAA
1 TATATTAA
7623162 TTTTAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.32
27 7 0.23
29 14 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (28 bp):
TATATTAAGATATATTTTTTAATAAAAA
Found at i:7623901 original size:24 final size:24
Alignment explanation
Indices: 7623866--7623921 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
7623856 ATTTTATCAT
*
7623866 TTTATTTGATTA-ATAATTATTA-A
1 TTTATATGATTATAT-ATTATTATA
7623889 TTTATATGAATTATATATTATTATA
1 TTTATATG-ATTATATATTATTATA
7623914 TTTGATAT
1 TTT-ATAT
7623922 TATAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.25
24 11 0.39
25 6 0.21
26 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TTTATATGATTATATATTATTATA
Found at i:7626368 original size:2 final size:2
Alignment explanation
Indices: 7626361--7626390 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7626351 GTATGTTGTA
*
7626361 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7626391 TAGATTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7627226 original size:32 final size:33
Alignment explanation
Indices: 7627179--7627242 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
7627169 GTTATTAATT
*
7627179 ATTAAATATATATTATATTT-ATAATTAGATGTC
1 ATTAAATATATATTAT-TTTCATAATTACATGTC
*
7627212 ATTAATTATA-ATTATTTTCATAATTACATGT
1 ATTAAATATATATTATTTTCATAATTACATGT
7627243 TTTGTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 3 0.11
32 16 0.57
33 9 0.32
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (33 bp):
ATTAAATATATATTATTTTCATAATTACATGTC
Found at i:7631243 original size:106 final size:106
Alignment explanation
Indices: 7631120--7631334 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 106
7631110 TGGTAGAATG
7631120 TTAAACTTTTAATTTAATGTTTGAGGTTTAATTCCGATAATTTCAAATTTATAAAAAAAATGTTT
1 TTAAACTTTTAATTTAATGTTTGAGGTTTAATTCCGATAATTTCAAATTTATAAAAAAAATGTTT
7631185 ATAATTAAGAAGATAAATCAAAACCTCAACAAATGTTACTA
66 ATAATTAAGAAGATAAATCAAAACCTCAACAAATGTTACTA
*
7631226 TTAAACTTTTAATTTAATGTTTGAGGTTTAATTCCGATAATTTTAAATTTATAAAAAAAATGTTT
1 TTAAACTTTTAATTTAATGTTTGAGGTTTAATTCCGATAATTTCAAATTTATAAAAAAAATGTTT
*
7631291 ATAATTAAGAAGATAAGTCAAAACCTCAACAAATGTTACTA
66 ATAATTAAGAAGATAAATCAAAACCTCAACAAATGTTACTA
7631332 TTA
1 TTA
7631335 TAGTTTAACT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (106 bp):
TTAAACTTTTAATTTAATGTTTGAGGTTTAATTCCGATAATTTCAAATTTATAAAAAAAATGTTT
ATAATTAAGAAGATAAATCAAAACCTCAACAAATGTTACTA
Found at i:7631792 original size:29 final size:27
Alignment explanation
Indices: 7631739--7631835 Score: 78
Period size: 29 Copynumber: 3.6 Consensus size: 27
7631729 GTATATTTAA
*
7631739 ATATTTTTTATAAAAATATATTAATAT
1 ATATTTTTTATAAAAATATAGTAATAT
*
7631766 ATATTTTTTCAATAAAAATTTAGTAAT-T
1 ATATTTTTT--ATAAAAATATAGTAATAT
* * *
7631794 CTAATTATTT-T-AAAATA-A-TAATCT
1 AT-ATTTTTTATAAAAATATAGTAATAT
7631818 ATATTTTTTAATAAAAAT
1 ATATTTTTT-ATAAAAAT
7631836 TATTTATTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
23 10 0.18
24 3 0.05
25 6 0.11
26 6 0.11
27 9 0.16
28 2 0.04
29 20 0.36
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (27 bp):
ATATTTTTTATAAAAATATAGTAATAT
Found at i:7632727 original size:49 final size:48
Alignment explanation
Indices: 7632641--7632736 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 48
7632631 AAACGTTATT
* * *
7632641 TAAAGATAATAATTTATAAAATATAATAATATTTTATTTATTTTATAA
1 TAAAGATAATAAATTATAAAATATAATAATATGTTATTTATTGTATAA
* *
7632689 TAAATATAATTAAATTATTAAAT-TAATAAATATGTTATTTATTGTATA
1 TAAAGATAA-TAAATTATAAAATATAAT-AATATGTTATTTATTGTATA
7632737 CACCTTACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 12 0.29
49 29 0.71
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (48 bp):
TAAAGATAATAAATTATAAAATATAATAATATGTTATTTATTGTATAA
Found at i:7633745 original size:12 final size:12
Alignment explanation
Indices: 7633730--7633770 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
7633720 TTTTGGTATT
7633730 TTTTATTTAGTA
1 TTTTATTTAGTA
*
7633742 TTTTATTTATGTG
1 TTTTATTTA-GTA
7633755 TTTTATTTAGTA
1 TTTTATTTAGTA
7633767 TTTT
1 TTTT
7633771 TGGCATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTTATTTAGTA
Found at i:7633745 original size:13 final size:13
Alignment explanation
Indices: 7633729--7633771 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
7633719 TTTTTGGTAT
7633729 TTTTTATTTAGTA
1 TTTTTATTTAGTA
7633742 -TTTTATTTATGT-
1 TTTTTATTTA-GTA
*
7633754 GTTTTATTTAGTA
1 TTTTTATTTAGTA
7633767 TTTTT
1 TTTTT
7633772 GGCATGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (13 bp):
TTTTTATTTAGTA
Done.