Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 411 of 444
Found at i:119413725 original size:26 final size:26
Alignment explanation
Indices: 119413689--119413772 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
119413679 CATGAAATTC
119413689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
119413715 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
119413741 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
119413767 TTATCA
1 TTATCA
119413773 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:119416223 original size:29 final size:29
Alignment explanation
Indices: 119416181--119416239 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
119416171 TTTACATGGC
*
119416181 CTTAGCACTGAGTTGAGCCTTCTTTTTGT
1 CTTAGCACTAAGTTGAGCCTTCTTTTTGT
119416210 CTTAGCACTAAGTTGAGCCTTCTTTTTGT
1 CTTAGCACTAAGTTGAGCCTTCTTTTTGT
119416239 C
1 C
119416240 ACATTATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (29 bp):
CTTAGCACTAAGTTGAGCCTTCTTTTTGT
Found at i:119417623 original size:11 final size:11
Alignment explanation
Indices: 119417591--119417623 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
119417581 TTTTTTTAAT
*
119417591 AATTAAAGTTT
1 AATTAAAGTTA
119417602 AATTAAA-TTA
1 AATTAAAGTTA
119417612 AATTAAAGTTA
1 AATTAAAGTTA
119417623 A
1 A
119417624 TAAAAGAAAT
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:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
AATTAAAGTTA
Found at i:119420443 original size:137 final size:136
Alignment explanation
Indices: 119420208--119420482 Score: 523
Period size: 137 Copynumber: 2.0 Consensus size: 136
119420198 AGCCTATTCA
119420208 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
* *
119420273 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGTAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGC
119420338 CCATTTG
130 CCATTTG
119420345 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
119420410 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
119420475 CATTTG
131 CATTTG
119420481 GG
1 GG
119420483 GAGACTACTC
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 22 0.16
137 114 0.84
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
CATTTG
Found at i:119422288 original size:24 final size:26
Alignment explanation
Indices: 119422261--119422364 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
119422251 ATGAAATTCC
119422261 ATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAATCCATT
*
119422285 ATCAT-GAA-ATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
119422309 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
119422335 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
119422361 ATCA
1 ATCA
119422365 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
23 10 0.13
24 18 0.24
25 3 0.04
26 44 0.59
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:119422987 original size:53 final size:53
Alignment explanation
Indices: 119422882--119422989 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
119422872 CGGATCACAT
* * *
119422882 ATCACACTGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATAATCAC
1 ATCACACCGATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATAATCAC
* * * *
119422935 ATCACACCGATGCCATGGCCCAGCTATGGTCTTATACAGAAATCACAT-ATCAC
1 ATCACACCGATGCCATAGCCCAGATATGGTCTTACACAG-AAGCACATAATCAC
119422988 AT
1 AT
119422990 GTTACCATGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 40 0.85
54 7 0.15
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATAATCAC
Found at i:119423626 original size:24 final size:24
Alignment explanation
Indices: 119423599--119423687 Score: 124
Period size: 24 Copynumber: 3.7 Consensus size: 24
119423589 CAAGTACACT
*
119423599 TGAATGATTTTGATTAAATATACA
1 TGAATGATCTTGATTAAATATACA
* *
119423623 TGAATGATCTTGAGTGAATATACA
1 TGAATGATCTTGATTAAATATACA
*
119423647 TGAATGATCTTGATTGAATATACA
1 TGAATGATCTTGATTAAATATACA
* *
119423671 TAAATGATCTTTATTAA
1 TGAATGATCTTGATTAA
119423688 TTCTTGATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (24 bp):
TGAATGATCTTGATTAAATATACA
Found at i:119425151 original size:6 final size:6
Alignment explanation
Indices: 119425140--119425234 Score: 172
Period size: 6 Copynumber: 15.8 Consensus size: 6
119425130 GATGTTACAT
* *
119425140 ATATAC ATATAC ATATAC AAATAC ATATAC AAATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
119425188 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
119425235 TTATTTTTTG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:119429268 original size:26 final size:26
Alignment explanation
Indices: 119429199--119429279 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
119429189 TGAAATTCCA
119429199 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
*
119429225 ATCAT-GGACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
119429250 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
119429276 ATCA
1 ATCA
119429280 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 24 0.46
26 28 0.54
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:119430074 original size:3 final size:3
Alignment explanation
Indices: 119430068--119430135 Score: 88
Period size: 3 Copynumber: 23.3 Consensus size: 3
119430058 TTCTAAGATT
* *
119430068 TTA TTA TTA TTA TTA TTAA TTA TTA TTA TGA TT- TTA -TA TTA -AA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
119430111 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
119430136 GGTTTCATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 49 0.86
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:119430146 original size:39 final size:40
Alignment explanation
Indices: 119430070--119430160 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 40
119430060 CTAAGATTTT
*
119430070 ATTATTATTATTATTAATTATTATTATGATTTTATATTAA
1 ATTATTATTATTATTAATTATTATTATGATTTCATATTAA
*
119430110 ATTATTATTATTATT-ATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTATTAATTATTATTATGATTTCATATTAA
* *
119430149 GTTATAATTATT
1 ATTATTATTATT
119430161 TAATTGGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 32 0.68
40 15 0.32
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (40 bp):
ATTATTATTATTATTAATTATTATTATGATTTCATATTAA
Found at i:119430493 original size:40 final size:39
Alignment explanation
Indices: 119430449--119430580 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
119430439 TCAAATACAT
*
119430449 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAATTATTAAAACAA-AAACAAATAAAAAATATA
* *
119430489 TTAAAACAATTCTTAAAACAATACACAAATTAAAAAATATA
1 TTAAAACAATTATTAAAACAA-AAACAAA-TAAAAAATATA
* * *
119430530 AT-AAA-AATTGATTATATAATAAAAATATAATAAAAAATATA
1 TTAAAACAATT-ATTA-A-AACAAAAACA-AATAAAAAATATA
119430571 TTAAAACAAT
1 TTAAAACAAT
119430581 ACACATATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
39 4 0.05
40 31 0.41
41 28 0.37
42 9 0.12
43 3 0.04
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.27
Consensus pattern (39 bp):
TTAAAACAATTATTAAAACAAAAACAAATAAAAAATATA
Found at i:119430851 original size:23 final size:21
Alignment explanation
Indices: 119430825--119430884 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
119430815 ATAATGACAA
* *
119430825 TTGTAATAAAAATATTGGTACAT
1 TTGTAATAAAAATA-T-ATACAC
119430848 TTGTAATAAATAGATATATACAC
1 TTGTAATAAA-A-ATATATACAC
119430871 TTGTAATAAAAATA
1 TTGTAATAAAAATA
119430885 ACTAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 24 0.73
24 2 0.06
25 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (21 bp):
TTGTAATAAAAATATATACAC
Found at i:119432085 original size:21 final size:22
Alignment explanation
Indices: 119432028--119432086 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
119432018 TTTGCCGATC
119432028 AGACACTTTATGTGTCGTATTTT
1 AGACACTTTATGTGTCG-ATTTT
* * **
119432051 AGGCACCTCGTGTGTCG-TTTT
1 AGACACTTTATGTGTCGATTTT
119432072 AGACACTTTATGTGT
1 AGACACTTTATGTGT
119432087 TGTATTTTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 15 0.54
23 13 0.46
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (22 bp):
AGACACTTTATGTGTCGATTTT
Found at i:119432094 original size:23 final size:23
Alignment explanation
Indices: 119432028--119432094 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
119432018 TTTGCCGATC
119432028 AGACACTTTATGTGTCGTATTTT
1 AGACACTTTATGTGTCGTATTTT
* * **
119432051 AGGCACCTCGTGTGTCG--TTTT
1 AGACACTTTATGTGTCGTATTTT
*
119432072 AGACACTTTATGTGTTGTATTTT
1 AGACACTTTATGTGTCGTATTTT
119432095 GATCAGGTAC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 16 0.48
23 17 0.52
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (23 bp):
AGACACTTTATGTGTCGTATTTT
Found at i:119435986 original size:32 final size:32
Alignment explanation
Indices: 119435945--119436008 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
119435935 AACTCGAATG
119435945 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
1 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
119435977 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
1 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
119436009 CATTTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (32 bp):
ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
Found at i:119436902 original size:17 final size:18
Alignment explanation
Indices: 119436880--119436913 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
119436870 CTAATTGTAA
*
119436880 TTTAAAT-TCTAATTATT
1 TTTAAATGTATAATTATT
119436897 TTTAAATGTATAATTAT
1 TTTAAATGTATAATTAT
119436914 CAGAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATGTATAATTATT
Found at i:119439483 original size:51 final size:52
Alignment explanation
Indices: 119439390--119439498 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 52
119439380 ATGGAAATGG
* *
119439390 TGAAAATGAATAAATGGGAAACATTTGGAAATGATTAAGGTTTTCTCCAAAA
1 TGAAAATGAAGAAATGGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAA
* * *
119439442 TGAAAATGGAGAAAT-GGAATCATTTGGAAATGAATATGGTTTTCTCCAAAA
1 TGAAAATGAAGAAATGGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAA
119439493 TGAAAA
1 TGAAAA
119439499 CAAAAATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
51 39 0.75
52 13 0.25
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.28
Consensus pattern (52 bp):
TGAAAATGAAGAAATGGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAA
Found at i:119440833 original size:38 final size:38
Alignment explanation
Indices: 119440785--119440858 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
119440775 AATTAAGGTA
*
119440785 AAAGTTTAATTATAGATTAATAAAAAGAAAGGGGGATT
1 AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGATT
119440823 AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGA
1 AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGA
119440859 CCACAATGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.26
Consensus pattern (38 bp):
AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGATT
Found at i:119440917 original size:3 final size:3
Alignment explanation
Indices: 119440909--119440956 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
119440899 CAAGTAGATT
119440909 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
119440957 AATAAATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:119449491 original size:60 final size:59
Alignment explanation
Indices: 119449364--119449502 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
119449354 ATTAGAGTTA
* *
119449364 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTAT
* *
119449425 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TAT
* *
119449485 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
119449503 TAACACAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.75
61 13 0.19
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTAT
Found at i:119449548 original size:19 final size:19
Alignment explanation
Indices: 119449507--119449549 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
119449497 CCATATTAAC
* *
119449507 ACAGTTGGGCCCATTCAAT
1 ACAGTTGGGCCCATACAAA
119449526 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCAT-ACAAA
119449545 ACAGT
1 ACAGT
119449550 CTCATATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
ACAGTTGGGCCCATACAAA
Found at i:119452414 original size:45 final size:45
Alignment explanation
Indices: 119452364--119452453 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
119452354 CCTTACCGGG
119452364 ATGGTACTCTATCGTGTAGTCGTAATCTTTGAGTAGCTCAATCCA
1 ATGGTACTCTATCGTGTAGTCGTAATCTTTGAGTAGCTCAATCCA
*
119452409 ATGGTACTCTATTGTGTAGTCGTAATCTTTGAGTAGCTCAATCCA
1 ATGGTACTCTATCGTGTAGTCGTAATCTTTGAGTAGCTCAATCCA
119452454 TCTACGCTGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (45 bp):
ATGGTACTCTATCGTGTAGTCGTAATCTTTGAGTAGCTCAATCCA
Found at i:119454540 original size:22 final size:23
Alignment explanation
Indices: 119454515--119454557 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
119454505 AATACACATT
119454515 AATTGCCATAT-CAAA-ACCTACC
1 AATT-CCATATCCAAATACCTACC
*
119454537 AATTTCATATCCAAATACCTA
1 AATTCCATATCCAAATACCTA
119454558 TTTAACAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (23 bp):
AATTCCATATCCAAATACCTACC
Found at i:119455327 original size:22 final size:22
Alignment explanation
Indices: 119455288--119455330 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
119455278 AGCTGATGAA
*
119455288 CAGTAAGCTCTATTGAGCTGAT
1 CAGTAAGCTCTATCGAGCTGAT
119455310 CAGTAAGCTC-ATACGAGCTGA
1 CAGTAAGCTCTAT-CGAGCTGA
119455331 AACGGTAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (22 bp):
CAGTAAGCTCTATCGAGCTGAT
Found at i:119455341 original size:23 final size:23
Alignment explanation
Indices: 119455312--119455355 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
119455302 GAGCTGATCA
119455312 GTAAGCT-CATACGAGCTGAAACG
1 GTAAGCTCCA-ACGAGCTGAAACG
*
119455335 GTAAGCTCCAATGAGCTGAAA
1 GTAAGCTCCAACGAGCTGAAA
119455356 ACAATAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (23 bp):
GTAAGCTCCAACGAGCTGAAACG
Found at i:119455350 original size:45 final size:47
Alignment explanation
Indices: 119455258--119455353 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 47
119455248 TTCTGAGCCA
* * * * *
119455258 TGATCGGTAAGCTCTTCCTGAGCTGATGAACAGTAAGCTCTATTGAGC
1 TGATCAGTAAGCTCATACTGAGCTGA-GAACAGTAAGCTCCAATGAGC
*
119455306 TGATCAGTAAGCTCATAC-GAGCTGA-AACGGTAAGCTCCAATGAGC
1 TGATCAGTAAGCTCATACTGAGCTGAGAACAGTAAGCTCCAATGAGC
119455351 TGA
1 TGA
119455354 AAACAATAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 20 0.48
47 7 0.17
48 15 0.36
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (47 bp):
TGATCAGTAAGCTCATACTGAGCTGAGAACAGTAAGCTCCAATGAGC
Found at i:119459100 original size:2 final size:2
Alignment explanation
Indices: 119459095--119459124 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
119459085 TGTGTTTTTC
119459095 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
119459125 TATATAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:119459174 original size:18 final size:18
Alignment explanation
Indices: 119459151--119459190 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
119459141 ATAATAAAAT
119459151 AATAAAATATCTTATTAA
1 AATAAAATATCTTATTAA
119459169 AATAAAATATCTTATTAA
1 AATAAAATATCTTATTAA
119459187 AATA
1 AATA
119459191 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAATATCTTATTAA
Found at i:119459218 original size:19 final size:19
Alignment explanation
Indices: 119459191--119459227 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
119459181 TATTAAAATA
119459191 TTAAATAAATAATAATAAT
1 TTAAATAAATAATAATAAT
* *
119459210 TTAATTAAATAATTATAA
1 TTAAATAAATAATAATAA
119459228 AATATCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAATAAATAATAATAAT
Found at i:119467787 original size:17 final size:17
Alignment explanation
Indices: 119467765--119467799 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
119467755 TCGTGATCTT
*
119467765 TTAATGAAGGTTCTATG
1 TTAATGAAGGTTCCATG
119467782 TTAATGAAGGTTCCATG
1 TTAATGAAGGTTCCATG
119467799 T
1 T
119467800 CAATTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (17 bp):
TTAATGAAGGTTCCATG
Found at i:119468134 original size:51 final size:49
Alignment explanation
Indices: 119468044--119468140 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 49
119468034 TTTTTTAAGC
*
119468044 CCCAATAAAGACTTAGATTATTAATGGATAATTAGATAAAGAAAGAAGT
1 CCCAATAAAGACTTAGATTATTAATGGATAATCAGATAAAGAAAGAAGT
119468093 CCCAATAAAGACTTAGATTACATTAATGGATAATCAGATAAAGAAAGA
1 CCCAATAAAGACTTAGATT--ATTAATGGATAATCAGATAAAGAAAGA
119468141 GGGGGTCTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 19 0.42
51 26 0.58
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.25
Consensus pattern (49 bp):
CCCAATAAAGACTTAGATTATTAATGGATAATCAGATAAAGAAAGAAGT
Found at i:119469067 original size:27 final size:27
Alignment explanation
Indices: 119469029--119469181 Score: 193
Period size: 27 Copynumber: 5.7 Consensus size: 27
119469019 ACACGTTAGT
*
119469029 AAAGGAAAGCCTTAT-TGGCGAATCATG
1 AAAGGAAAGCCTT-TGTGGTGAATCATG
* * **
119469056 AAAGAAAAGCCTTTGTAGCAAATCATG
1 AAAGGAAAGCCTTTGTGGTGAATCATG
* *
119469083 AAAGGAAAGCCTTTATGGTGAAACATG
1 AAAGGAAAGCCTTTGTGGTGAATCATG
*
119469110 AAAGGAAAGCCTTTGTGGTGAAACATG
1 AAAGGAAAGCCTTTGTGGTGAATCATG
119469137 AAAGGAAAGCCTTTGTGGTGAAAT-ATG
1 AAAGGAAAGCCTTTGTGGTG-AATCATG
*
119469164 AAAGAAAAGCCTTTGTGG
1 AAAGGAAAGCCTTTGTGG
119469182 CAATAATTTG
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 109 0.97
28 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (27 bp):
AAAGGAAAGCCTTTGTGGTGAATCATG
Found at i:119469110 original size:54 final size:53
Alignment explanation
Indices: 119469029--119469184 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 53
119469019 ACACGTTAGT
* * *
119469029 AAAGGAAAGCC-TTATTGGCGAATCATGAAAGAAAAGCCTTTGTAGCAAATCATG
1 AAAGGAAAGCCTTTA-TGGTGAAACATGAAAGAAAAGCCTTTGTGGCAAA-CATG
* *
119469083 AAAGGAAAGCCTTTATGGTGAAACATGAAAGGAAAGCCTTTGTGGTGAAACATG
1 AAAGGAAAGCCTTTATGGTGAAACATGAAAGAAAAGCCTTTGTGG-CAAACATG
* *
119469137 AAAGGAAAGCCTTTGTGGTGAAATATGAAAGAAAAGCCTTTGTGGCAA
1 AAAGGAAAGCCTTTATGGTGAAACATGAAAGAAAAGCCTTTGTGGCAA
119469185 TAATTTGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
53 2 0.02
54 83 0.91
55 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (53 bp):
AAAGGAAAGCCTTTATGGTGAAACATGAAAGAAAAGCCTTTGTGGCAAACATG
Found at i:119471019 original size:28 final size:28
Alignment explanation
Indices: 119470983--119471060 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 28
119470973 TAAGTGATTT
*
119470983 TTGACAAAAATGTTAAATAGGGATTAAA
1 TTGAAAAAAATGTTAAATAGGGATTAAA
* * *
119471011 TTGAGAAAAGTG-TAAATTGAGGGGTTAAA
1 TTGAAAAAAATGTTAAA-T-AGGGATTAAA
*
119471040 TTGTAAAATAAATGTGAAATA
1 TTG-AAAA-AAATGTTAAATA
119471061 TGGGCTTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
27 4 0.10
28 11 0.28
29 12 0.31
30 4 0.10
31 5 0.13
32 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.29
Consensus pattern (28 bp):
TTGAAAAAAATGTTAAATAGGGATTAAA
Found at i:119471628 original size:43 final size:43
Alignment explanation
Indices: 119471521--119471639 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
119471511 ACATTAGGTT
* *
119471521 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
* *
119471564 ATC-ATTAAT-TGATTTCGTGTAAGACCATGTCTGGGACAGTGGC
1 ATCGA-T-ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
* *
119471607 ATCGATATGTGATAACATGTAAGACCATATCTG
1 ATCGATATGTGATTACATGTAAGACCATGTCTG
119471640 AGATATGGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 3 0.05
43 58 0.91
44 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
Found at i:119479478 original size:47 final size:47
Alignment explanation
Indices: 119479403--119479513 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
119479393 CCCCTCGGGA
* * *
119479403 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
119479450 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
119479497 CTTATCACATATATACA
1 CTTATCACTTATATACA
119479514 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:119479569 original size:46 final size:46
Alignment explanation
Indices: 119479517--119479935 Score: 694
Period size: 46 Copynumber: 9.0 Consensus size: 46
119479507 ATATACATCT
* * *
119479517 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
119479563 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
119479609 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
*
119479655 CGTACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
*
119479701 CGTACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTA-C-CAC----A-CATATATCA
119479754 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
* *
119479800 CGTACATATTTCACACTAGCCATTTGGCTTTACCACACATACATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
*
119479846 CATACATATTTCACACTAGCCATTTGGATTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
*
119479892 CATACATATTTCACACTAGCCATTTGGCTTTGCCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
119479936 ATATTTAACT
Statistics
Matches: 354, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
46 304 0.86
47 2 0.01
48 3 0.01
51 3 0.01
52 2 0.01
53 40 0.11
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.33
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:119479854 original size:191 final size:188
Alignment explanation
Indices: 119479517--119479940 Score: 714
Period size: 191 Copynumber: 2.3 Consensus size: 188
119479507 ATATACATCT
* *
119479517 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATC----TCATACATATTTCACA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCATATTCATACATATTTCACA
119479578 CTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGCTTTACC
66 CTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGCTTTACC
* * *
119479643 ACACATATATCACGTACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
131 ACACATACATCACATACATATTTCACACTAGCCATTTGGATTTACCACACATATATCA
*
119479701 CGTACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCATATATCACATACATATTTC
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCATAT-T--CATACATATTTC
*
119479766 ACACTAGCCATTTGGCTTTACCACACATATATCACGTACATATTTCACACTAGCCATTTGGCTTT
63 ACACTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGCTTT
119479831 ACCACACATACATCACATACATATTTCACACTAGCCATTTGGATTTACCACACATATATCA
128 ACCACACATACATCACATACATATTTCACACTAGCCATTTGGATTTACCACACATATATCA
*
119479892 CATACATATTTCACACTAGCCATTTGGCTTTGCCACACATATAT-ATATT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCATATT
119479941 TAACTTGTAT
Statistics
Matches: 224, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
184 42 0.19
189 2 0.01
190 4 0.02
191 176 0.79
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (188 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCATATTCATACATATTTCACA
CTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGCTTTACC
ACACATACATCACATACATATTTCACACTAGCCATTTGGATTTACCACACATATATCA
Found at i:119484215 original size:35 final size:35
Alignment explanation
Indices: 119484171--119484337 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
119484161 TCCTCATTGA
** *
119484171 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
119484206 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
119484246 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
119484281 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
119484316 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
119484338 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:119484254 original size:75 final size:73
Alignment explanation
Indices: 119484166--119484337 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
119484156 GGTTTTCCTC
** * * **
119484166 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
119484230 TCAGTATGG
65 TCAGTATGG
*
119484239 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
119484304 CTCAGTATGG
64 CTCAGTATGG
119484314 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
119484338 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:119491653 original size:35 final size:35
Alignment explanation
Indices: 119491609--119491775 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
119491599 TCCTCATTGA
** *
119491609 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
119491644 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
119491684 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
119491719 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
119491754 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
119491776 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:119491692 original size:75 final size:73
Alignment explanation
Indices: 119491604--119491775 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
119491594 GGTTTTCCTC
** * * **
119491604 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
119491668 TCAGTATGG
65 TCAGTATGG
*
119491677 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
119491742 CTCAGTATGG
64 CTCAGTATGG
119491752 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
119491776 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:119499158 original size:35 final size:34
Alignment explanation
Indices: 119499112--119499279 Score: 183
Period size: 35 Copynumber: 4.7 Consensus size: 34
119499102 TTTCCTCATT
** *
119499112 GAAATACCATACCTACATTTTTCAACTCGGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTAT-G
* **
119499147 GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTAT-G
*
119499182 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATG
1 ----GA-AATACCATACCTACATTTCACAACTCAGTATG
*
119499221 GATATACCATACCTACATTTCACAACTCAGTATG
1 GAAATACCATACCTACATTTCACAACTCAGTATG
*
119499255 GATGATACCATACCTACATTTCACA
1 GA-AATACCATACCTACATTTCACA
119499280 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
34 32 0.28
35 54 0.47
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (34 bp):
GAAATACCATACCTACATTTCACAACTCAGTATG
Found at i:119499252 original size:74 final size:73
Alignment explanation
Indices: 119499109--119499279 Score: 224
Period size: 74 Copynumber: 2.4 Consensus size: 73
119499099 GGTTTTCCTC
** * * **
119499109 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
119499174 CAGTATGG
66 CAGTATGG
* *
119499182 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAA
119499246 CTCAGTATGG
64 CTCAGTATGG
119499256 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
119499280 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
69 21 0.24
72 2 0.02
73 1 0.01
74 37 0.42
75 27 0.31
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:119507625 original size:43 final size:43
Alignment explanation
Indices: 119507577--119507744 Score: 164
Period size: 43 Copynumber: 3.9 Consensus size: 43
119507567 ATTGAGATGT
*
119507577 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATATCTGGGACATTGGCATTGTATTGA
* * * *
119507620 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-C
1 GATTACATGTAAGACCATATCTGGGACATTGGCATTG-TATTGA
* * * * * * *
119507663 GATTTCGTATAAGACCCTATCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT-TGA
*
119507706 G-TTAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATT-ACATGTAAGACCATATCTGGGACATTGGCATTGTAT
119507745 GAGCTTATGT
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 89 0.86
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATATCTGGGACATTGGCATTGTATTGA
Found at i:119510744 original size:26 final size:26
Alignment explanation
Indices: 119510708--119510759 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
119510698 AATGTTAGCC
119510708 CAAATTAAAAGTGATCTAATATGGTT
1 CAAATTAAAAGTGATCTAATATGGTT
119510734 CAAATTAAAAGTGATCTAATATGGTT
1 CAAATTAAAAGTGATCTAATATGGTT
119510760 AAGACTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (26 bp):
CAAATTAAAAGTGATCTAATATGGTT
Found at i:119511542 original size:24 final size:24
Alignment explanation
Indices: 119511510--119511558 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
119511500 ATTTCCCATA
119511510 TCCATCATTTATATATTACTCAAC
1 TCCATCATTTATATATTACTCAAC
119511534 TCCATCATTTATATATTACTCAAC
1 TCCATCATTTATATATTACTCAAC
119511558 T
1 T
119511559 TAAGATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (24 bp):
TCCATCATTTATATATTACTCAAC
Found at i:119513530 original size:88 final size:86
Alignment explanation
Indices: 119513112--119513528 Score: 620
Period size: 86 Copynumber: 4.8 Consensus size: 86
119513102 GCTCTTATCG
* * *
119513112 TATAATTAAATGTTTGCTTATATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
1 TATAACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
119513177 TTTTTTGAGTT-TTGTTCGAAA
66 TTTTTTGAGTTATT-TTCGAAA
*
119513198 TATAACTAAATGCTTACTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
1 TATAACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
*
119513263 TTTTTTGGGTTATTTTCGAAA
66 TTTTTTGAGTTATTTTCGAAA
* * * *
119513284 TATAACTAAATGCTTACTTGTATATAATTTTATACAACTCTTATGGTACAAGATGAGTAACATGT
1 TATAACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
*
119513349 TTTTTTGGGTTATTTTCGAAA
66 TTTTTTGAGTTATTTTCGAAA
* * * *
119513370 TATGACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATTGTACAAGATGAGTAAAATTT
1 TATAACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACA-TG
* *
119513435 TTCTTTTTGAATTATTTTTGAAA
65 TT-TTTTTGAGTTATTTTCGAAA
* * * *
119513458 TATGACTAAATGCTTGCTTGTATATAATATTATACAATTTTTATCGTACAAGATGAGTAACATGT
1 TATAACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
119513523 TTTTTT
66 TTTTTT
119513529 TTTGGGGGGG
Statistics
Matches: 304, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
86 222 0.73
87 8 0.03
88 74 0.24
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (86 bp):
TATAACTAAATGCTTGCTTGTATATAATATCATACAACTCTTATCGTACAAGATGAGTAACATGT
TTTTTTGAGTTATTTTCGAAA
Found at i:119522324 original size:3 final size:3
Alignment explanation
Indices: 119522318--119522362 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
119522308 AGGAGAACAT
119522318 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
119522363 TAAGAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:119523710 original size:38 final size:38
Alignment explanation
Indices: 119523620--119523711 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 38
119523610 TTTAATTAAC
* * *
119523620 TTTTTAAAGTTTTAAGAATTAAAAAAATTGTAAAAAGTA
1 TTTTTAAAATTTTAA-AATCAAAAAAATTATAAAAAGTA
119523659 TTTTTAAAA--TTAAAATCACTAAAAAA-TATAAAAA-TA
1 TTTTTAAAATTTTAAAATCA--AAAAAATTATAAAAAGTA
119523695 TTTTTAAAATTTTAAAA
1 TTTTTAAAATTTTAAAA
119523712 AATTAATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
36 15 0.33
37 11 0.24
38 12 0.26
39 8 0.17
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (38 bp):
TTTTTAAAATTTTAAAATCAAAAAAATTATAAAAAGTA
Found at i:119523989 original size:16 final size:17
Alignment explanation
Indices: 119523960--119523993 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
119523950 CTTTAAATAC
119523960 AAATTTAGAATATAAAA
1 AAATTTAGAATATAAAA
119523977 AAATTTA-AATATAAAA
1 AAATTTAGAATATAAAA
119523993 A
1 A
119523994 TGAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTTAGAATATAAAA
Found at i:119523994 original size:14 final size:16
Alignment explanation
Indices: 119523960--119523993 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
119523950 CTTTAAATAC
119523960 AAATTTAGAATATAAAA
1 AAATTTAGAATAT-AAA
119523977 AAATTTA-AATATAAA
1 AAATTTAGAATATAAA
119523992 AA
1 AA
119523994 TGAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAATTTAGAATATAAA
Found at i:119524525 original size:22 final size:22
Alignment explanation
Indices: 119524500--119524546 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
119524490 TCTTACACTC
119524500 AATTAAGCGTTTGAGCTTTCAA
1 AATTAAGCGTTTGAGCTTTCAA
119524522 AATTAAGCGTTTGAGCTTTCAA
1 AATTAAGCGTTTGAGCTTTCAA
119524544 AAT
1 AAT
119524547 GCATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (22 bp):
AATTAAGCGTTTGAGCTTTCAA
Found at i:119524742 original size:18 final size:18
Alignment explanation
Indices: 119524713--119524765 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
119524703 TAAAAAATTT
119524713 TAAAAATAATAAATTTTAA
1 TAAAAAT-ATAAATTTTAA
* *
119524732 TAAAAATATAAAATTTAT
1 TAAAAATATAAATTTTAA
119524750 TAAAAAT-TAGAATTTT
1 TAAAAATATA-AATTTT
119524766 TTTATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 2 0.07
18 21 0.70
19 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAAATATAAATTTTAA
Found at i:119525067 original size:19 final size:19
Alignment explanation
Indices: 119524998--119525088 Score: 57
Period size: 19 Copynumber: 4.7 Consensus size: 19
119524988 TTCTTTTTAC
*
119524998 ATTTATATAATTTTCT-TAT
1 ATTT-TATAAATTTCTATAT
*
119525017 GACTTTATAAAATTT-TATA-
1 -ATTTTAT-AAATTTCTATAT
* *
119525036 ATTTTTTATATTTCTATAT
1 ATTTTATAAATTTCTATAT
119525055 ATTTTATAAATTT-TCACTAT
1 ATTTTATAAATTTCT-A-TAT
119525075 -TTTTATAAAATTTC
1 ATTTTAT-AAATTTC
119525089 ACAATTTTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.09
18 10 0.18
19 22 0.39
20 19 0.34
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATTTCTATAT
Found at i:119525069 original size:20 final size:20
Alignment explanation
Indices: 119525020--119525088 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 20
119525010 TTCTTATGAC
119525020 TTTATAAAATTT-TATA-AT
1 TTTATAAAATTTCTATATAT
* *
119525038 TTT-TTATATTTCTATATAT
1 TTTATAAAATTTCTATATAT
*
119525057 TTTATAAATTTTC-ACTAT-T
1 TTTATAAAATTTCTA-TATAT
119525076 TTTATAAAATTTC
1 TTTATAAAATTTC
119525089 ACAATTTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 19 0.46
20 9 0.22
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATAAAATTTCTATATAT
Found at i:119525075 original size:28 final size:27
Alignment explanation
Indices: 119525028--119525081 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
119525018 ACTTTATAAA
* *
119525028 ATTTTATAATTTTTTATATTTCTATAT
1 ATTTTATAAATTTTCATATTTCTATAT
*
119525055 ATTTTATAAATTTTCACTATTTTTATA
1 ATTTTATAAATTTTCA-TATTTCTATA
119525082 AAATTTCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTATAAATTTTCATATTTCTATAT
Found at i:119525101 original size:20 final size:19
Alignment explanation
Indices: 119525056--119525101 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
119525046 TTTCTATATA
* *
119525056 TTTTATAAATTTTCACTAT
1 TTTTATAAAATTTCACAAT
119525075 TTTTATAAAATTTCACAAT
1 TTTTATAAAATTTCACAAT
119525094 TTTGTATA
1 TTT-TATA
119525102 TTTGTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTATAAAATTTCACAAT
Found at i:119525139 original size:56 final size:56
Alignment explanation
Indices: 119525023--119525139 Score: 130
Period size: 56 Copynumber: 2.1 Consensus size: 56
119525013 TTATGACTTT
* * * *
119525023 ATAAAATTTTATAATTTTTTATATTTCTATATATTTTATAAATTTTCACTATTTTT
1 ATAAAATTTCACAATTTTGTATATTTCTATATATTTTATAAATTTTCACTATTTTA
* * **
119525079 ATAAAATTTCACAATTTTGTATATTTGT-TATGATTTT-TATACTTTTTTCTATTTTA
1 ATAAAATTTCACAATTTTGTATATTTCTATAT-ATTTTATA-AATTTTCACTATTTTA
119525135 ATAAA
1 ATAAA
119525140 TTTTTAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
55 5 0.10
56 46 0.90
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (56 bp):
ATAAAATTTCACAATTTTGTATATTTCTATATATTTTATAAATTTTCACTATTTTA
Found at i:119525471 original size:15 final size:15
Alignment explanation
Indices: 119525451--119525480 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
119525441 TTTAATCTTT
*
119525451 TATAAATTATAAAAA
1 TATAAACTATAAAAA
119525466 TATAAACTATAAAAA
1 TATAAACTATAAAAA
119525481 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:119526598 original size:20 final size:20
Alignment explanation
Indices: 119526560--119526599 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
119526550 ATTTAATAAA
**
119526560 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
119526580 TAAAACTAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
119526600 ATATAATTTT
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:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:119526631 original size:9 final size:9
Alignment explanation
Indices: 119526617--119526666 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
119526607 TTTATACAAA
119526617 TAATTCGGT
1 TAATTCGGT
*
119526626 TAATTCGGG
1 TAATTCGGT
*
119526635 TAATTCAGT
1 TAATTCGGT
**
119526644 TAATTCAAT
1 TAATTCGGT
119526653 TAATTCGGT
1 TAATTCGGT
119526662 TAATT
1 TAATT
119526667 TTATACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:119530900 original size:18 final size:18
Alignment explanation
Indices: 119530861--119530993 Score: 191
Period size: 18 Copynumber: 7.5 Consensus size: 18
119530851 AATGATATGT
119530861 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
119530878 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
*
119530896 AATCTTAAATATGA-TAC
1 AATCTTAGATATGATTAC
*
119530913 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
119530931 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
119530948 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
119530966 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
119530985 AATCTTAGA
1 AATCTTAGA
119530994 AGATATGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 44 0.42
18 49 0.47
19 11 0.11
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:119530901 original size:35 final size:35
Alignment explanation
Indices: 119530852--119530993 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
119530842 ATAATCTTCA
* *
119530852 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
*
119530888 ATGATTGCAATCTTAAATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
119530923 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
119530958 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
119530994 AGATATGATT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 82 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:119531313 original size:12 final size:11
Alignment explanation
Indices: 119531298--119531331 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
119531288 TATTTTTAAT
119531298 TTATTATATATA
1 TTATT-TATATA
119531310 TTATTTATTATA
1 TTATTTA-TATA
119531322 TTATTTATAT
1 TTATTTATAT
119531332 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:119531329 original size:16 final size:16
Alignment explanation
Indices: 119531296--119531326 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
119531286 CTTATTTTTA
119531296 ATTTATTATATATATT
1 ATTTATTATATATATT
119531312 ATTTATTATAT-TATT
1 ATTTATTATATATATT
119531327 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:119531406 original size:21 final size:21
Alignment explanation
Indices: 119531351--119531415 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
119531341 TTGTAAATTA
*
119531351 TTATTATATATTATAT-TTTAAC
1 TTATT-TATATTATATATTT-AT
* * *
119531373 GTATATATCTTATATATTTAT
1 TTATTTATATTATATATTTAT
*
119531394 TTATTTATATTATACA-TTAT
1 TTATTTATATTATATATTTAT
119531414 TT
1 TT
119531416 TAAAAACTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 6 0.18
21 22 0.65
22 6 0.18
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTTATATTATATATTTAT
Found at i:119531795 original size:3 final size:3
Alignment explanation
Indices: 119531787--119531827 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
119531777 TATGTTACTA
*
119531787 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
119531828 GTATTTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:119537348 original size:21 final size:20
Alignment explanation
Indices: 119537322--119537389 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
119537312 TTCTATTTCA
119537322 AAAAAAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAAAAA-AAAAG
* *
119537343 AAAAAAGAAAAAAATAAAGAG
1 AAAAAA-AAAAAAAAAAAAAG
* *
119537364 AAAAAAATAAAGATAAAAAAG
1 AAAAAAA-AAAAAAAAAAAAG
119537385 AAAAA
1 AAAAA
119537390 GATAGAGAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.77
22 8 0.21
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAAAAG
Found at i:119537368 original size:35 final size:35
Alignment explanation
Indices: 119537328--119537398 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
119537318 TTCAAAAAAA
*
119537328 AAAAAAAAAGAAAAGAAAAAAGAAAAAAATAAAGAG
1 AAAAAAATA-AAAAGAAAAAAGAAAAAAATAAAGAG
* * * *
119537364 AAAAAAATAAAGATAAAAAAGAAAAAGATAGAGAG
1 AAAAAAATAAAAAGAAAAAAGAAAAAAATAAAGAG
119537399 GCCAAGGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (35 bp):
AAAAAAATAAAAAGAAAAAAGAAAAAAATAAAGAG
Found at i:119540860 original size:5 final size:5
Alignment explanation
Indices: 119540850--119540879 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
119540840 TAGCAAATTT
119540850 TTTTA TTTTA TTTTA TTTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT
119540880 TTTCAGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:119540869 original size:11 final size:11
Alignment explanation
Indices: 119540850--119540880 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
119540840 TAGCAAATTT
119540850 TTTTA-TTTTA
1 TTTTATTTTTA
119540860 TTTTATTTTTA
1 TTTTATTTTTA
119540871 TTTTATTTTT
1 TTTTATTTTT
119540881 TTCAGACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:119540870 original size:16 final size:16
Alignment explanation
Indices: 119540849--119540879 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
119540839 GTAGCAAATT
119540849 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
119540865 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
119540880 TTTCAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:119543006 original size:25 final size:24
Alignment explanation
Indices: 119542931--119543177 Score: 240
Period size: 25 Copynumber: 10.4 Consensus size: 24
119542921 CACTAATGAA
*
119542931 CAGAGAGCACTGAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
** *
119542953 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
119542975 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
* *
119543000 CAGAGAGCACTGGCGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
*
119543025 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
*
119543050 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
119543075 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
*
119543097 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
119543122 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
*
119543144 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
119543169 CAGAGAGCA
1 CAGAGAGCA
119543178 TACTGAAGTC
Statistics
Matches: 188, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.01
22 67 0.36
23 2 0.01
24 5 0.03
25 111 0.59
26 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:119543036 original size:50 final size:47
Alignment explanation
Indices: 119542973--119543177 Score: 268
Period size: 47 Copynumber: 4.2 Consensus size: 47
119542963 AAATGTGCTA
** *
119542973 ATCAGAGAGCACTGACGTGCTAAATATCAGAGAGCACTGGCGTGCT-AGT
1 ATCAGAGAGCACAAACGTGCT--A-ATCAGAGAGCACTGGCGTGCTAAAT
***
119543022 AATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACTGGCGTGCTAAAT
1 -ATCAGAGAGCACAAACGTGCT--A-ATCAGAGAGCACTGGCGTGCTAAAT
*
119543073 ATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGGCGTGCTAAAT
1 ATCAGAGAGCACAAACGTGCTAATCAGAGAGCACTGGCGTGCTAAAT
*
119543120 ATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGGCGTGCTAAAT
1 ATCAGAGAGCACAAACGTGCTAATCAGAGAGCACTGGCGTGCTAAAT
119543167 ATCAGAGAGCA
1 ATCAGAGAGCA
119543178 TACTGAAGTC
Statistics
Matches: 148, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
47 83 0.56
48 1 0.01
50 62 0.42
51 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.19
Consensus pattern (47 bp):
ATCAGAGAGCACAAACGTGCTAATCAGAGAGCACTGGCGTGCTAAAT
Found at i:119543117 original size:47 final size:47
Alignment explanation
Indices: 119542998--119543177 Score: 272
Period size: 47 Copynumber: 3.8 Consensus size: 47
119542988 CGTGCTAAAT
* ****
119542998 ATCAGAGAGCACTGGCGTGCT-AGTAATCAGAGAGCACTGGCGTGCTAAA
1 ATCAGAGAGCACTGGCGTGCTAAAT-ATCAGAGAGCACAAATGTGCT--A
119543047 TATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTA
1 -ATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTA
119543095 ATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTA
1 ATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTA
119543142 ATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCA
1 ATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCA
119543178 TACTGAAGTC
Statistics
Matches: 124, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
47 83 0.67
48 1 0.01
50 38 0.31
51 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (47 bp):
ATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTA
Found at i:119546162 original size:119 final size:119
Alignment explanation
Indices: 119545954--119546546 Score: 1035
Period size: 119 Copynumber: 5.0 Consensus size: 119
119545944 CAGATCGAAG
119545954 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
119546019 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
119546073 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
119546138 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
119546192 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
119546257 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
** *
119546311 ATAATAGATCTAACCTTCAGAT-TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
119546375 TTACAAGAAACAAATCGAGGACATAGCGGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
119546429 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * * *
119546494 TTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
119546547 CAGACTCAAG
Statistics
Matches: 453, Mismatches: 20, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
118 114 0.25
119 339 0.75
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:119546468 original size:237 final size:238
Alignment explanation
Indices: 119545954--119546546 Score: 1035
Period size: 237 Copynumber: 2.5 Consensus size: 238
119545944 CAGATCGAAG
119545954 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
119546019 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAGATAGCAGATCT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGATAACAGATCT
*
119546084 AACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAAC
131 AACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAAC
119546149 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
196 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
119546192 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
119546257 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAATAGATCT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGATAACAGATCT
*
119546322 AACCTTCAGAT-TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAAC
131 AACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAAC
*
119546386 AAATCGAGGACATAGCGGATTTGACTCTCAGACGTTCTCAAAT
196 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
119546429 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * * *
119546494 TTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
119546547 CAGACTCAAG
Statistics
Matches: 338, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
237 202 0.60
238 136 0.40
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (238 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGATAACAGATCT
AACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAAC
AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:119546575 original size:83 final size:83
Alignment explanation
Indices: 119546470--119546821 Score: 614
Period size: 83 Copynumber: 4.2 Consensus size: 83
119546460 GAAGCAGATC
*
119546470 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
119546535 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
119546553 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGATATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
119546618 AATGTTCTCAAATAGACT
66 AATGTTCTCAAACAGACT
* *
119546636 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
119546701 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
119546719 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
119546784 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
119546803 CAAGATGATTTGACATCCT
1 CAAGATGGTTTGGCATCCT
119546822 CACAAATCGA
Statistics
Matches: 257, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
83 177 0.69
84 80 0.31
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:119547235 original size:17 final size:17
Alignment explanation
Indices: 119547215--119547317 Score: 161
Period size: 17 Copynumber: 5.9 Consensus size: 17
119547205 AATGATATGT
119547215 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
* *
119547232 AATCTTAAATATGATTGC
1 AATCTTAGATATGA-TAC
119547250 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
119547267 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
119547284 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
119547302 AATCTTAGATATGATA
1 AATCTTAGATATGATA
119547318 TAAAATCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
17 47 0.60
18 31 0.40
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:119547255 original size:52 final size:51
Alignment explanation
Indices: 119547208--119547317 Score: 188
Period size: 52 Copynumber: 2.2 Consensus size: 51
119547198 AATCTTCAAT
119547208 GATATG-T-AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTA
1 GATATGATAAATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTA
*
119547257 GATATGATACAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTA
1 GATATGATA-AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTA
119547309 GATATGATA
1 GATATGATA
119547318 TAAAATCTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 6 0.11
50 1 0.02
52 50 0.88
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (51 bp):
GATATGATAAATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTA
Found at i:119547317 original size:35 final size:34
Alignment explanation
Indices: 119547215--119547317 Score: 161
Period size: 35 Copynumber: 3.0 Consensus size: 34
119547205 AATGATATGT
* *
119547215 AATCTTAGATATGATACAATCTTAAATATGATTGC
1 AATCTTAGATATGATACAATCTTAGATATGA-TAC
119547250 AATCTTAGATATGATACAATCTTAGATATGATAC
1 AATCTTAGATATGATACAATCTTAGATATGATAC
*
119547284 AATCTTAGATATGATTGCAATCTTAGATATGATA
1 AATCTTAGATATGA-TACAATCTTAGATATGATA
119547318 TAAAATCTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
34 16 0.25
35 48 0.75
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (34 bp):
AATCTTAGATATGATACAATCTTAGATATGATAC
Found at i:119547650 original size:12 final size:11
Alignment explanation
Indices: 119547635--119547668 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
119547625 TATTTTTAAT
119547635 TTATTATATATA
1 TTATT-TATATA
119547647 TTATTTATTATA
1 TTATTTA-TATA
119547659 TTATTTATAT
1 TTATTTATAT
119547669 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:119547660 original size:21 final size:21
Alignment explanation
Indices: 119547636--119547744 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
119547626 ATTTTTAATT
119547636 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
119547657 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
119547675 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
119547694 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
119547717 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
119547738 TATTATA
1 TATTATA
119547745 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:119547666 original size:16 final size:16
Alignment explanation
Indices: 119547633--119547663 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
119547623 CTTATTTTTA
119547633 ATTTATTATATATATT
1 ATTTATTATATATATT
119547649 ATTTATTATAT-TATT
1 ATTTATTATATATATT
119547664 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:119547701 original size:7 final size:7
Alignment explanation
Indices: 119547684--119547790 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
119547674 AAATTTGTAA
119547684 ATTAT-T
1 ATTATAT
119547690 ATTATAT
1 ATTATAT
119547697 ATTATAT
1 ATTATAT
119547704 -TT-TA-
1 ATTATAT
119547708 ACTTATAT
1 A-TTATAT
119547716 ATCTTATAT
1 A--TTATAT
*
119547725 ATTTATTT
1 A-TTATAT
119547733 ATT-TAT
1 ATTATAT
*
119547739 ATTATAC
1 ATTATAT
119547746 ATTAT-T
1 ATTATAT
* *
119547752 -TTAAAA
1 ATTATAT
*
119547758 ACTTACAT
1 A-TTATAT
*
119547766 -TTTTAT
1 ATTATAT
119547772 ATTATAT
1 ATTATAT
*
119547779 ATTATAA
1 ATTATAT
119547786 ATTAT
1 ATTAT
119547791 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:119547872 original size:25 final size:24
Alignment explanation
Indices: 119547840--119547910 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
119547830 TAAAATTCAC
119547840 TATTAAATATTATATTTTTATG-TA
1 TATTAAATATTATATTTTT-TGATA
* *
119547864 TTATTAAATGTTTATATTATTTGATA
1 -TATTAAAT-ATTATATTTTTTGATA
*
119547890 TAATACAATATTATATTTTTT
1 TATTA-AATATTATATTTTTT
119547911 ATTATTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTAAATATTATATTTTTTGATA
Found at i:119548127 original size:3 final size:3
Alignment explanation
Indices: 119548119--119548165 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
119548109 TATGTTACTA
119548119 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
119548165 T
1 T
119548166 GTATTTGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:119551860 original size:60 final size:60
Alignment explanation
Indices: 119551767--119551884 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 60
119551757 AGAATTTATA
119551767 GGGGAGTCGCGACCTTAAAATGGATGAATCCTTTTTCAGGCTAGAAAGTGGAACATTTTG
1 GGGGAGTCGCGACCTTAAAATGGATGAATCCTTTTTCAGGCTAGAAAGTGGAACATTTTG
* * * *
119551827 GGGGAGTCGCGACTTTAGAATGGATGAATCCTTTTTCAGGCTAGTAAGTGGAGCATTT
1 GGGGAGTCGCGACCTTAAAATGGATGAATCCTTTTTCAGGCTAGAAAGTGGAACATTT
119551885 GAGTTATACT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (60 bp):
GGGGAGTCGCGACCTTAAAATGGATGAATCCTTTTTCAGGCTAGAAAGTGGAACATTTTG
Found at i:119555556 original size:3 final size:3
Alignment explanation
Indices: 119555548--119555588 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
119555538 TATTTATTAA
119555548 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
119555589 CAAATAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:119555946 original size:15 final size:16
Alignment explanation
Indices: 119555921--119555954 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
119555911 ATTGAGCAGG
119555921 AAAAAGAAAGAACGAA
1 AAAAAGAAAGAACGAA
*
119555937 AAAAAG-AAGAAGGAA
1 AAAAAGAAAGAACGAA
119555952 AAA
1 AAA
119555955 CTAAGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAACGAA
Found at i:119557304 original size:13 final size:13
Alignment explanation
Indices: 119557286--119557320 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
119557276 TTGGTTTAGT
119557286 AAAATAAAAATAA
1 AAAATAAAAATAA
119557299 AAAATAAAAATAA
1 AAAATAAAAATAA
119557312 ATAAATAAA
1 A-AAATAAA
119557321 GTTATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:119558400 original size:17 final size:18
Alignment explanation
Indices: 119558369--119558417 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
119558359 GATAGGTGTC
119558369 ATATAAAATATAATAAA-AT
1 ATATAAAA-A-AATAAATAT
* *
119558388 ATTTTAAAAAATAAATAT
1 ATATAAAAAAATAAATAT
119558406 ATATAAAAAAAT
1 ATATAAAAAAAT
119558418 GAAACACACC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 13 0.52
19 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATAAAAAAATAAATAT
Found at i:119559164 original size:22 final size:24
Alignment explanation
Indices: 119559118--119559166 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
119559108 TATAATATAT
*
119559118 AATTTATTTTTAAAAAATTTTTAA
1 AATTTATTTTTAAAAAATTTCTAA
*
119559142 AATTT-TTTTTATAAAA-TTCTAA
1 AATTTATTTTTAAAAAATTTCTAA
119559164 AAT
1 AAT
119559167 AAATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTATTTTTAAAAAATTTCTAA
Found at i:119559422 original size:19 final size:19
Alignment explanation
Indices: 119559400--119559441 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
119559390 TATTAAATTT
* *
119559400 TATTTTTATAATTTATATG
1 TATTTTTATAAATTATATA
*
119559419 TATTTTTCTAAATTATATA
1 TATTTTTATAAATTATATA
119559438 TATT
1 TATT
119559442 CTGAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTTTATAAATTATATA
Found at i:119559456 original size:21 final size:20
Alignment explanation
Indices: 119559432--119559474 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
119559422 TTTTCTAAAT
119559432 TATATATA-TTCTGAATTTTTA
1 TATATATATTTCT--ATTTTTA
*
119559453 TATATTTATTTCTATTTTTA
1 TATATATATTTCTATTTTTA
119559473 TA
1 TA
119559475 GTTTTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 7 0.35
22 4 0.20
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATATATTTCTATTTTTA
Found at i:119561380 original size:86 final size:86
Alignment explanation
Indices: 119561235--119561408 Score: 294
Period size: 86 Copynumber: 2.0 Consensus size: 86
119561225 GTCGTTCCTG
119561235 GCTTTAAACCGAACAGTCTTCTCCGCTAGTCTTGTACCACGAATTGCTTCGAGTGTGGGCTCGAA
1 GCTTTAAACCGAACAGTCTTCTCCGCTAGTCTTGTACCACGAATTGCTTCGAGTGTGGGCTCGAA
119561300 CGATTCGAATCAAACACAAAT
66 CGATTCGAATCAAACACAAAT
* * * *
119561321 GCTTTCAACCGAATAGTCTTCTCCGCTATTCTTGTACCACGAATTGCTTCGAGTGTGGGCTTGAA
1 GCTTTAAACCGAACAGTCTTCTCCGCTAGTCTTGTACCACGAATTGCTTCGAGTGTGGGCTCGAA
* *
119561386 CGATTCGAATTAAACACAGAT
66 CGATTCGAATCAAACACAAAT
119561407 GC
1 GC
119561409 AGAAATAGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (86 bp):
GCTTTAAACCGAACAGTCTTCTCCGCTAGTCTTGTACCACGAATTGCTTCGAGTGTGGGCTCGAA
CGATTCGAATCAAACACAAAT
Found at i:119562054 original size:13 final size:13
Alignment explanation
Indices: 119562036--119562061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119562026 CATTTCTATA
119562036 TCATTTTCATTTT
1 TCATTTTCATTTT
119562049 TCATTTTCATTTT
1 TCATTTTCATTTT
119562062 GGAGAAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:119562106 original size:51 final size:51
Alignment explanation
Indices: 119562043--119562160 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
119562033 ATATCATTTT
* * *
119562043 CATTTTTCATTTTCATTTTGGAGAAAACTACATTCATTTTCAAATGTTT-C
1 CATTTCTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTCC
*
119562093 CATTTCTCTATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGTTTCC
1 CATTTCTC-ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTCC
119562145 CATTTCTCCATTTTCA
1 CATTTCT-CATTTTCA
119562161 CCATTTCTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 7 0.12
51 38 0.63
52 14 0.23
53 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.47
Consensus pattern (51 bp):
CATTTCTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTCC
Found at i:119563523 original size:24 final size:24
Alignment explanation
Indices: 119563496--119563544 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
119563486 TTTAACTTCG
*
119563496 GTAGCATTTGGCCCTTGAATCATT
1 GTAGCATTTGGCCATTGAATCATT
119563520 GTAGCATTTGGCCATTGAATCATT
1 GTAGCATTTGGCCATTGAATCATT
119563544 G
1 G
119563545 ATCACTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (24 bp):
GTAGCATTTGGCCATTGAATCATT
Found at i:119564605 original size:41 final size:41
Alignment explanation
Indices: 119564529--119564608 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
119564519 TTATATATTA
* * * * *
119564529 AATTGGATAAAAAAAGTTTCAAGTACTAAAGTAAAAAAAAT
1 AATTGGACAAAAAAAGATTCAAATACCAAACTAAAAAAAAT
119564570 AATTGGACAAAAAAAGAATT-AAATACCAAACTAAAAAAA
1 AATTGGACAAAAAAAG-ATTCAAATACCAAACTAAAAAAA
119564609 TTGTAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.20
Consensus pattern (41 bp):
AATTGGACAAAAAAAGATTCAAATACCAAACTAAAAAAAAT
Found at i:119583810 original size:51 final size:50
Alignment explanation
Indices: 119583750--119583980 Score: 312
Period size: 51 Copynumber: 4.7 Consensus size: 50
119583740 TACAAATCAA
* * *
119583750 ATCTCTAAGAATATAAAATCATATCTTTTAAGATTACATATCGTATCTAAG
1 ATCTCTAAGATTATAAAATCATATCTTATAAGATT-CATATCATATCTAAG
* *
119583801 ATCTCTAAGAATATAAAATAATATCTTATAAGATTTCATATCATATCTAAG
1 ATCTCTAAGATTATAAAATCATATCTTATAAGA-TTCATATCATATCTAAG
*
119583852 ATCTCTAAGATTATAATATCATATC--AT---A-TCATATCATATCTAAG
1 ATCTCTAAGATTATAAAATCATATCTTATAAGATTCATATCATATCTAAG
* *
119583896 ATCTCTAAGATTATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAAAATCATATCTTATAAGATT-CATATCATATCTAAG
*
119583947 ATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 ATCTCTAAGATTATAAAATCATATCTTATAAGAT
119583981 CATGTTTCCA
Statistics
Matches: 162, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
44 40 0.25
46 3 0.02
49 3 0.02
50 1 0.01
51 113 0.70
52 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (50 bp):
ATCTCTAAGATTATAAAATCATATCTTATAAGATTCATATCATATCTAAG
Found at i:119583877 original size:5 final size:5
Alignment explanation
Indices: 119583867--119583891 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
119583857 TAAGATTATA
119583867 ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC
119583892 TAAGATCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:119583920 original size:95 final size:95
Alignment explanation
Indices: 119583786--119583971 Score: 327
Period size: 95 Copynumber: 2.0 Consensus size: 95
119583776 TTTAAGATTA
* *
119583786 CATATCGTATCTAAGATCTCTAAGAATATAAAATAATATCTTATAAGATTTCATATCATATCTAA
1 CATATCATATCTAAGATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAA
*
119583851 GATCTCTAAGATTATAATATCATATCATAT
66 GATCTCTAAGATTATAAAATCATATCATAT
* *
119583881 CATATCATATCTAAGATCTCTAAGATTATAATATAATATCTTATAAGATTCCATATCATATCTAA
1 CATATCATATCTAAGATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAA
119583946 GATCTCTAAGATTATAAAATCATATC
66 GATCTCTAAGATTATAAAATCATATC
119583972 TTTTAAGATC
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (95 bp):
CATATCATATCTAAGATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAA
GATCTCTAAGATTATAAAATCATATCATAT
Found at i:119583983 original size:95 final size:95
Alignment explanation
Indices: 119583750--119583983 Score: 324
Period size: 95 Copynumber: 2.4 Consensus size: 95
119583740 TACAAATCAA
*
119583750 ATCTCTAAGAATATAAAATCATATCTTTTAAGATTACATATCGTATCTAAGATCTCTAAGAATAT
1 ATCTCTAAGATTATAAAATCATATCTTTTAAGA-T-C--A---TATCTAAGATCTCTAAGAATAT
*
119583815 AAAATAATATCTTATAAGATTTCATATCATATCTAAG
59 AAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * * * * * *
119583852 ATCTCTAAGATTATAATATCATATCATATCATATCATATCTAAGATCTCTAAGATTATAATATAA
1 ATCTCTAAGATTATAAAATCATATCTTTTAAGATCATATCTAAGATCTCTAAGAATATAAAATAA
119583917 TATCTTATAAGATTCCATATCATATCTAAG
66 TATCTTATAAGATTCCATATCATATCTAAG
119583947 ATCTCTAAGATTATAAAATCATATCTTTTAAGATCAT
1 ATCTCTAAGATTATAAAATCATATCTTTTAAGATCAT
119583984 GTTTCCATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
95 88 0.75
98 1 0.01
100 1 0.01
101 1 0.01
102 27 0.23
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (95 bp):
ATCTCTAAGATTATAAAATCATATCTTTTAAGATCATATCTAAGATCTCTAAGAATATAAAATAA
TATCTTATAAGATTCCATATCATATCTAAG
Found at i:119585208 original size:71 final size:72
Alignment explanation
Indices: 119585128--119585275 Score: 178
Period size: 73 Copynumber: 2.1 Consensus size: 72
119585118 AAAATACCTT
* ** *
119585128 TTTTATTTTCTTTAAAAAAT-AA-AGGAAA-ATGAAAAGAAAAATCATTTAT-ATGAACTGAAGT
1 TTTTGTTTTCTTTAAAAAATAAACAAAAAATATGAAAA-AAAAATCATTTATGA-GAACTCAAG-
119585189 AAAAAATCCA
63 AAAAAATCCA
* * *
119585199 TTTTGTTTTCTTTAAAAAGTAAACAAAAAATATGAAAAAGAAATCATTTATGAGAACTCAAGGAA
1 TTTTGTTTTCTTTAAAAAATAAACAAAAAATATGAAAAAAAAATCATTTATGAGAACTCAAGAAA
119585264 AAATCCA
66 AAATCCA
119585271 TTTTG
1 TTTTG
119585276 ATACGAGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
71 18 0.27
72 16 0.24
73 24 0.36
74 8 0.12
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (72 bp):
TTTTGTTTTCTTTAAAAAATAAACAAAAAATATGAAAAAAAAATCATTTATGAGAACTCAAGAAA
AAATCCA
Found at i:119585772 original size:9 final size:9
Alignment explanation
Indices: 119585758--119585839 Score: 51
Period size: 9 Copynumber: 8.8 Consensus size: 9
119585748 ATTTTTCTAA
119585758 TATAAAAAT
1 TATAAAAAT
119585767 TATAAAAA-
1 TATAAAAAT
*
119585775 TATGCTAAAAT
1 TAT--AAAAAT
* **
119585786 TGTAAAGCT
1 TATAAAAAT
119585795 TATAAAAAT
1 TATAAAAAT
*
119585804 TATTTAAAACT
1 TA--TAAAAAT
*
119585815 TAT-ACAAT
1 TATAAAAAT
119585823 TATAGAAAAT
1 TATA-AAAAT
119585833 TATAAAA
1 TATAAAA
119585840 GAAACTTGTA
Statistics
Matches: 54, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
8 9 0.17
9 23 0.43
10 12 0.22
11 10 0.19
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (9 bp):
TATAAAAAT
Found at i:119585816 original size:20 final size:20
Alignment explanation
Indices: 119585788--119585839 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
119585778 GCTAAAATTG
* *
119585788 TAAAGCTTATAAAAATTATT
1 TAAAACTTATAAAAATTATA
*
119585808 TAAAACTTAT-ACAATTATA
1 TAAAACTTATAAAAATTATA
*
119585827 GAAAA-TTATAAAA
1 TAAAACTTATAAAA
119585840 GAAACTTGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 9 0.35
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAAACTTATAAAAATTATA
Found at i:119588984 original size:17 final size:15
Alignment explanation
Indices: 119588944--119588988 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
119588934 TCTACATTTG
*
119588944 ATATTTTTTTCTTAT
1 ATATTTTTTTCATAT
*
119588959 ATATATTTTTCATAT
1 ATATTTTTTTCATAT
119588974 ATCAATTTTTTTCAT
1 AT--ATTTTTTTCAT
119588989 TGGCATTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 15 0.60
17 10 0.40
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (15 bp):
ATATTTTTTTCATAT
Found at i:119590413 original size:30 final size:30
Alignment explanation
Indices: 119590362--119590446 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
119590352 CCTTGAAAAT
*
119590362 AATTTAA-TAACT-AATTAAGCCCTCAATAT
1 AATTTAAGT-ACTCAATTAAGCCCTCAATAG
* * * *
119590391 AGTTTAAGTACTCAATTGAGCCCTCAGTCG
1 AATTTAAGTACTCAATTAAGCCCTCAATAG
119590421 AATTTAAGTACTCAATTAAGCCCTCA
1 AATTTAAGTACTCAATTAAGCCCTCA
119590447 TCCCTTGACA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 9 0.19
30 38 0.81
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (30 bp):
AATTTAAGTACTCAATTAAGCCCTCAATAG
Found at i:119595129 original size:47 final size:46
Alignment explanation
Indices: 119595072--119595193 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 46
119595062 TGTGCTTCCG
* * *
119595072 TATAAAACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-A
* * * * *
119595119 TATAAGACCATATTTGGGATATGGCATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
* * *
119595165 TGTAAGACCATAGCTGGGCTATGGCATCG
1 TATAAGACCATATCTGGGATATGGCATCG
119595194 ATATGTGAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 24 0.39
47 38 0.61
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
Found at i:119595227 original size:42 final size:42
Alignment explanation
Indices: 119595152--119595261 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
119595142 GCATCAGTGA
*
119595152 GATATGTG-AT-TCGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATAT-GTGTAAGACCATAGCTAGGCTATGGCATC
119595193 GATATGTGAATATGTGTAAGACCATAGCTAGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTAGGCTATGGCATC
* *
119595235 -ATTATGTGAAGATGTGTGAGACCATAG
1 GA-TATGTGAATATGTGTAAGACCATAG
119595262 TTGAACTATG
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
41 9 0.14
42 53 0.84
43 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTAGGCTATGGCATC
Found at i:119595271 original size:42 final size:42
Alignment explanation
Indices: 119595164--119595278 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
119595154 TATGTGATTC
* *
119595164 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATATGTGAAGAT
119595206 GTGTAAGACCATAGCT-AGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGA-TATGTGAAGAT
* * * *
119595248 GTGTGAGACCATAGTTGAACTATGGCGTCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
119595279 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 60 0.95
43 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATATGTGAAGAT
Found at i:119603825 original size:28 final size:27
Alignment explanation
Indices: 119603762--119603831 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
119603752 ATAGTGAGTC
119603762 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
119603789 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
119603817 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
119603832 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:119603930 original size:30 final size:30
Alignment explanation
Indices: 119603896--119603957 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
119603886 TACCCGCACA
119603896 CTTAGTGCCGAAATCAACAACTCAATACAT
1 CTTAGTGCCGAAATCAACAACTCAATACAT
119603926 CTTAGTGCCGAAATCAACAACTCAATACAT
1 CTTAGTGCCGAAATCAACAACTCAATACAT
119603956 CT
1 CT
119603958 CACCTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (30 bp):
CTTAGTGCCGAAATCAACAACTCAATACAT
Found at i:119605698 original size:37 final size:36
Alignment explanation
Indices: 119605657--119605767 Score: 96
Period size: 37 Copynumber: 3.2 Consensus size: 36
119605647 AACAGAAACG
119605657 TAATGCAAATATATGTAAATAATTTAAGTTAATACAA
1 TAATG-AAATATATGTAAATAATTTAAGTTAATACAA
*
119605694 TAATGAAA-AT-TGTATAA-AA-AT-AG--AA-AC-A
1 TAATGAAATATATGTA-AATAATTTAAGTTAATACAA
* * *
119605722 TAATGCAAATATATGTAAATAATTGAAGTTGATAAAA
1 TAATG-AAATATATGTAAATAATTTAAGTTAATACAA
119605759 TAATGAAAT
1 TAATGAAAT
119605768 TTCAATACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
28 6 0.10
29 5 0.09
30 6 0.10
31 6 0.10
32 2 0.03
33 3 0.05
34 6 0.10
35 5 0.09
36 8 0.14
37 11 0.19
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (36 bp):
TAATGAAATATATGTAAATAATTTAAGTTAATACAA
Found at i:119605713 original size:67 final size:65
Alignment explanation
Indices: 119605605--119605779 Score: 242
Period size: 65 Copynumber: 2.6 Consensus size: 65
119605595 CAAGTTCATC
*
119605605 TAAATAATTAAAGTTGATACAATAATGAAAATTCAATAAAAAAACAGAAACGTAATGCAAATATA
1 TAAATAATTAAAGTTGATACAATAATGAAAATTCAAT--AAAAACAGAAACATAATGCAAATATA
119605670 TG
64 TG
* * ** *
119605672 TAAATAATTTAAGTTAATACAATAATGAAAATTGTATAAAAATAGAAACATAATGCAAATATATG
1 TAAATAATTAAAGTTGATACAATAATGAAAATTCAATAAAAACAGAAACATAATGCAAATATATG
* * *
119605737 TAAATAATTGAAGTTGATAAAATAATGAAATTTCAATACAAAA
1 TAAATAATTAAAGTTGATACAATAATGAAAATTCAATA-AAAA
119605780 ATCACATTCT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 58 0.61
66 4 0.04
67 33 0.35
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.29
Consensus pattern (65 bp):
TAAATAATTAAAGTTGATACAATAATGAAAATTCAATAAAAACAGAAACATAATGCAAATATATG
Found at i:119607873 original size:31 final size:31
Alignment explanation
Indices: 119607838--119607901 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
119607828 AATATTAAAA
119607838 ATAATATAACTTAATTTTTTTCCTTTTTTCT
1 ATAATATAACTTAATTTTTTTCCTTTTTTCT
*
119607869 ATAATATAACTTAATTTTTTTTCTTTTTTCT
1 ATAATATAACTTAATTTTTTTCCTTTTTTCT
119607900 AT
1 AT
119607902 CTTTCCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (31 bp):
ATAATATAACTTAATTTTTTTCCTTTTTTCT
Found at i:119607950 original size:27 final size:29
Alignment explanation
Indices: 119607892--119607950 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
119607882 ATTTTTTTTC
*
119607892 TTTTTTCTATCTTTCCCTTTTTCCTTTAT
1 TTTTTTCTATCTTTCCCTTTTTCCGTTAT
119607921 TTTTTTCTAT-TTT-CCTTTTTCCCGTT-T
1 TTTTTTCTATCTTTCCCTTTTT-CCGTTAT
119607948 TTT
1 TTT
119607951 AATAATAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 11 0.39
28 7 0.25
29 10 0.36
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTTTCTATCTTTCCCTTTTTCCGTTAT
Done.