Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 106 of 335
Found at i:33082304 original size:180 final size:180
Alignment explanation
Indices: 33082002--33082358 Score: 669
Period size: 180 Copynumber: 2.0 Consensus size: 180
33081992 TGGCGGCAAC
33082002 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
*
33082067 TTGAAAATCAAGCATATTAGCTGCTAATTTATTAACCAAAGTTTCTAGAGAATTACCTAAATCTT
66 TTGAAAATCAAGCATATTAGCTACTAATTTATTAACCAAAGTTTCTAGAGAATTACCTAAATCTT
* *
33082132 GTGGCTGTTGTGGAACCCAATTTTGGTATGGTTGGTTATATCTTGGAAAT
131 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCGTGGAAAT
*
33082182 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTTGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
*
33082247 TTGAAAATCAAGCATATTAGCTACTAATTTATTAACCAAAGTTTTTAGAGAATTACCTAAATCTT
66 TTGAAAATCAAGCATATTAGCTACTAATTTATTAACCAAAGTTTCTAGAGAATTACCTAAATCTT
33082312 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCGTGGA
131 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCGTGGA
33082359 TTGGCTCCAT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 172 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (180 bp):
TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
TTGAAAATCAAGCATATTAGCTACTAATTTATTAACCAAAGTTTCTAGAGAATTACCTAAATCTT
GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCGTGGAAAT
Found at i:33084647 original size:13 final size:13
Alignment explanation
Indices: 33084629--33084667 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
33084619 GAAAGCTAAA
33084629 TAAAAATAAATCC
1 TAAAAATAAATCC
33084642 TAAAAATAAAT-C
1 TAAAAATAAATCC
33084654 TAAATAAT-AATCC
1 TAAA-AATAAATCC
33084667 T
1 T
33084668 TAATAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATAAATCC
Found at i:33087483 original size:17 final size:17
Alignment explanation
Indices: 33087443--33087476 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33087433 TATATTAAAA
* *
33087443 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
33087460 TTATAATTATTATGATT
1 TTATAATTATTATGATT
33087477 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:33087890 original size:12 final size:12
Alignment explanation
Indices: 33087873--33087915 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
33087863 GAAGCAGGGG
33087873 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
33087885 AGAAAAAGGGAA
1 AGAAAAAGAGAA
33087897 AGAAAAAGA-AA
1 AGAAAAAGAGAA
33087908 AGAGAAAA
1 AGA-AAAA
33087916 CTAAGGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:33087915 original size:7 final size:6
Alignment explanation
Indices: 33087873--33087915 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
33087863 GAAGCAGGGG
* **
33087873 AGAAAA AGAGAA AGAAAA AGGGAA AGAAAA AGAAAA GAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA
33087916 CTAAGGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:33088915 original size:39 final size:40
Alignment explanation
Indices: 33088804--33088918 Score: 128
Period size: 38 Copynumber: 2.9 Consensus size: 40
33088794 CTTCGACCTC
*
33088804 GAGTCGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA
1 GAGTCGATGAGACACTGGGTGTCAACT--ATTACTTCGGATA
* ** ** *
33088845 GATTCGATGAGGTACTGGGTACCAACT-TTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTGTCAACTATTACTTCGGATA
33088884 G-GTCGATGAGACACTGGGTGTCAACTATTACTTCG
1 GAGTCGATGAGACACTGGGTGTCAACTATTACTTCG
33088919 AACTATCCGA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
38 20 0.33
39 19 0.32
41 18 0.30
42 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
GAGTCGATGAGACACTGGGTGTCAACTATTACTTCGGATA
Found at i:33089088 original size:18 final size:18
Alignment explanation
Indices: 33089065--33089105 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33089055 AAAGAAGAAA
33089065 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
33089083 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
33089101 AGAAA
1 AGAAA
33089106 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:33089616 original size:20 final size:20
Alignment explanation
Indices: 33089593--33089630 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33089583 GTTATTAAGT
33089593 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
33089613 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
33089631 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:33090582 original size:42 final size:42
Alignment explanation
Indices: 33090471--33090584 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
33090461 TATAAACAAG
* * * * * **
33090471 TACAATGTCGACGTCCCAGACCTGGTCTTACATGTAATTCAA
1 TACAATGCCGATGTCCCAGACATGGTCTTACACGAAATGAAA
* ** *
33090513 TATCGATGCCTCTATCCCAGACA-GGTCTTACACGAAATGAAA
1 TA-CAATGCCGATGTCCCAGACATGGTCTTACACGAAATGAAA
33090555 TACAATGCCGATGTCCCAGACATGGTCTTA
1 TACAATGCCGATGTCCCAGACATGGTCTTA
33090585 TACATAAATC
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
41 16 0.29
42 26 0.47
43 13 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TACAATGCCGATGTCCCAGACATGGTCTTACACGAAATGAAA
Found at i:33090615 original size:84 final size:85
Alignment explanation
Indices: 33090471--33090632 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 85
33090461 TATAAACAAG
* * * *
33090471 TACAATGTCGACGTCCCAGACCTGGTCTTACATGTAATTCAATATCGATGCCTCTATCCCAGACA
1 TACAATGCCGACGTCCCAGACATGGTCTTACATGAAATTCAATATCGAGGCCTCTATCCCAGACA
33090536 -GGTCTTACACGAAATGAAA
66 CGGTCTTACACGAAATGAAA
* * *
33090555 TACAATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAAT-T-GAGGCCTGTGTCCCAG
1 TACAATGCCGACGTCCCAGACATGGTC-T-TACATGAAAT-TCAATATCGAGGCCTCTATCCCAG
33090617 ACACGGTCTTACACGA
63 ACACGGTCTTACACGA
33090633 TGTCTCAGAC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
84 40 0.60
85 17 0.25
86 10 0.15
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (85 bp):
TACAATGCCGACGTCCCAGACATGGTCTTACATGAAATTCAATATCGAGGCCTCTATCCCAGACA
CGGTCTTACACGAAATGAAA
Found at i:33093422 original size:23 final size:23
Alignment explanation
Indices: 33093396--33093443 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
33093386 TTATTTTGAG
*
33093396 TTCAAATCATTTCATATCAGAAC
1 TTCAAATCATTTCATATCAAAAC
*
33093419 TTCAAATTATTTCATATCAAAAC
1 TTCAAATCATTTCATATCAAAAC
33093442 TT
1 TT
33093444 TACTCATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (23 bp):
TTCAAATCATTTCATATCAAAAC
Found at i:33113966 original size:43 final size:43
Alignment explanation
Indices: 33113849--33114037 Score: 202
Period size: 43 Copynumber: 4.4 Consensus size: 43
33113839 TTACGTGGAA
* * * * *
33113849 AAACGCCACTATAGAACATGACCTTTACCAGCA-TTTCTCACAA
1 AAACGCCGCTATAGAACATGACCTTCAGCAGCACTTT-TCCCAC
* * * * *
33113892 AAATGCGGC-ATGGAACATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTCAGCAGCACTTTTCCCAC
* *
33113934 AAACGCCGCTATAGAACATGACCTTCAACGGCACTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTCAGCAGCACTTTTCCCAC
* * * *
33113977 AAACGCCGCTATAGAACATGACCTTCAGCAACGCTTTTACCAT
1 AAACGCCGCTATAGAACATGACCTTCAGCAGCACTTTTCCCAC
*
33114020 AAACGCCGCTAAAGAACA
1 AAACGCCGCTATAGAACA
33114038 CAACCTTTAA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
42 31 0.25
43 93 0.75
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTCAGCAGCACTTTTCCCAC
Found at i:33114466 original size:66 final size:65
Alignment explanation
Indices: 33114353--33114482 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 65
33114343 TGAAGCTGTC
* *
33114353 GCTGAAGTTCATCATATTTTCTGCTTGCCTCTACTTCCCTTGCTGCTGCCTCTGCTTTAAGTTGT
1 GCTGAAGTTCATCATATTTTCT-CTTGCCTCTACTTCCCTCGATGCTGCCTCTGCTTTAAGTTGT
33114418 A
65 A
* * * *
33114419 GCTGGAGTTCTTCATATTTTCT-TTGAGCCTCTACTTCTCTCGATGCTGCCTCTTCTTTAAGTTG
1 GCTGAAGTTCATCATATTTTCTCTT--GCCTCTACTTCCCTCGATGCTGCCTCTGCTTTAAGTTG
33114483 AGCAATTTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
64 2 0.04
66 54 0.96
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (65 bp):
GCTGAAGTTCATCATATTTTCTCTTGCCTCTACTTCCCTCGATGCTGCCTCTGCTTTAAGTTGTA
Found at i:33119460 original size:19 final size:20
Alignment explanation
Indices: 33119411--33119461 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
33119401 GCTTTGTATA
33119411 AATATATAATATTTAAAATATT
1 AATATA-AATA-TTAAAATATT
* *
33119433 -ATTTTAATATTAAAA-ATT
1 AATATAAATATTAAAATATT
33119451 AATATAAATAT
1 AATATAAATAT
33119462 AAGGCGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 4 0.17
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAAATATTAAAATATT
Found at i:33129200 original size:21 final size:21
Alignment explanation
Indices: 33129171--33129210 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33129161 TATTTATTTT
*
33129171 AATATTTAAATTAACCAAATC
1 AATAGTTAAATTAACCAAATC
*
33129192 AATAGTTAAATTGACCAAA
1 AATAGTTAAATTAACCAAA
33129211 ACGATTAAAC
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:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAGTTAAATTAACCAAATC
Found at i:33130394 original size:3 final size:3
Alignment explanation
Indices: 33130386--33130435 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
33130376 TGCATAATAG
* * * *
33130386 AAT AAT AAT AAT AAT GAAA AAT GAT AAT AGT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33130432 AAT A
1 AAT A
33130436 TCAAAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 36 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:33130550 original size:27 final size:27
Alignment explanation
Indices: 33130520--33130575 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
33130510 GAACAGACCA
*
33130520 AAAAT-AAATAATAGAAAA-TAAATAAAT
1 AAAATAAAAT-AT-GAAAAGTAAAAAAAT
33130547 AAAATAAAATATGAAAAGTAAAAAAAT
1 AAAATAAAATATGAAAAGTAAAAAAAT
33130574 AA
1 AA
33130576 TTCATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 5 0.19
27 17 0.65
28 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (27 bp):
AAAATAAAATATGAAAAGTAAAAAAAT
Found at i:33130555 original size:18 final size:18
Alignment explanation
Indices: 33130521--33130557 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33130511 AACAGACCAA
*
33130521 AAATAAATAATAGAAAAT
1 AAATAAATAAAAGAAAAT
*
33130539 AAATAAATAAAATAAAAT
1 AAATAAATAAAAGAAAAT
33130557 A
1 A
33130558 TGAAAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAAGAAAAT
Found at i:33130557 original size:14 final size:13
Alignment explanation
Indices: 33130520--33130554 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
33130510 GAACAGACCA
33130520 AAAATAAATAATAG
1 AAAATAAATAA-AG
*
33130534 AAAATAAATAAAT
1 AAAATAAATAAAG
33130547 AAAATAAA
1 AAAATAAA
33130555 ATATGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAG
Found at i:33132789 original size:31 final size:31
Alignment explanation
Indices: 33132747--33132813 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
33132737 AACATAGATT
* * *
33132747 ACAAAATTAAAGTA-AAGGGCTTAAACTGATA
1 ACAAAAATAAAGTATAAGAGC-TAAACTAATA
33132778 ACAAAAATAAAGTATAAGAGCTAAACTAATA
1 ACAAAAATAAAGTATAAGAGCTAAACTAATA
33132809 A-AAAA
1 ACAAAA
33132814 TAGTATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.12
31 23 0.72
32 5 0.16
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (31 bp):
ACAAAAATAAAGTATAAGAGCTAAACTAATA
Found at i:33136293 original size:6 final size:6
Alignment explanation
Indices: 33136282--33136313 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
33136272 TTTTTTTAAT
33136282 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TT
33136314 TATATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:33137313 original size:2 final size:2
Alignment explanation
Indices: 33137308--33137332 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33137298 TTTAAAAAAA
33137308 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
33137333 CTAGGGCATT
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:33138164 original size:69 final size:69
Alignment explanation
Indices: 33138053--33138191 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
33138043 GGACTCAAAA
33138053 TATTTACAAATATAGTTTTAATTACAATATTTGTACCCATGTTCACGATTTATTTGCACCAATCC
1 TATTTACAAATATAGTTTTAATTACAATATTTGTACCCATGTTCACGATTTATTTGCACCAATCC
33138118 TTAT
66 TTAT
33138122 TATTTACAAATATAGTTTTAATTACAATATTTGTACCCATGTTCACGATTTATTTGCACCAATCC
1 TATTTACAAATATAGTTTTAATTACAATATTTGTACCCATGTTCACGATTTATTTGCACCAATCC
33138187 TTAT
66 TTAT
33138191 T
1 T
33138192 CTTGTACCAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (69 bp):
TATTTACAAATATAGTTTTAATTACAATATTTGTACCCATGTTCACGATTTATTTGCACCAATCC
TTAT
Found at i:33139780 original size:21 final size:23
Alignment explanation
Indices: 33139731--33139781 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
33139721 AGAAATATTG
* * *
33139731 ATTAAATTTATAACTTTAAGCAT
1 ATTAAATGTAGAACTTTAACCAT
33139754 ATTAAATGTAGAA-TTTAACCA-
1 ATTAAATGTAGAACTTTAACCAT
33139775 ATTAAAT
1 ATTAAAT
33139782 TTTACTAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 7 0.28
23 11 0.44
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (23 bp):
ATTAAATGTAGAACTTTAACCAT
Found at i:33140277 original size:122 final size:123
Alignment explanation
Indices: 33140060--33140303 Score: 400
Period size: 122 Copynumber: 2.0 Consensus size: 123
33140050 TGCCAACTTG
* **
33140060 GATGTCCTACGTGGCAGTTCAAATTAAATTTATTTAATTAAAAACCTATTTTTGTCCCAACAATT
1 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
* *
33140125 GAATATCCAAGTTGGTATTTAAAACCTA-TTTGAACTGTTACGTAGGAATGTTGTTAA
66 AAATATCCAAGTTGATATTTAAAACCTATTTTGAACTGTTACGTAGGAATGTTGTTAA
* *
33140182 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAATCTATTTTCATCTCAACAATT
1 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
* *
33140247 AAATATCCAAGTTGATATTTAAAACCTATTTTGGATTGTTACGTAGGAATGTTGTTA
66 AAATATCCAAGTTGATATTTAAAACCTATTTTGAACTGTTACGTAGGAATGTTGTTA
33140304 GGGAGGGAAC
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 86 0.77
123 26 0.23
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (123 bp):
GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
AAATATCCAAGTTGATATTTAAAACCTATTTTGAACTGTTACGTAGGAATGTTGTTAA
Found at i:33144236 original size:6 final size:5
Alignment explanation
Indices: 33144212--33144267 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
33144202 ATGAGAAAAC
* * *
33144212 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACA AAATA AAAGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
33144263 AAAGA
1 AAAGA
33144268 GAGGCAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
4 3 0.07
5 30 0.70
6 10 0.23
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:33144262 original size:21 final size:20
Alignment explanation
Indices: 33144205--33144265 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
33144195 TCTTGTAATG
*
33144205 AGAAAACAAAGAAAAG-AAA
1 AGAAAACAAAAAAAAGAAAA
*
33144224 AGAAAA-AGCAAAAGAAGAAAA
1 AGAAAACA--AAAAAAAGAAAA
33144245 AGAAAACAAAATAAAAGAAAA
1 AGAAAACAAAA-AAAAGAAAA
33144266 GAGAGGCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 1 0.03
19 6 0.18
20 9 0.26
21 17 0.50
22 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (20 bp):
AGAAAACAAAAAAAAGAAAA
Found at i:33149013 original size:2 final size:2
Alignment explanation
Indices: 33149006--33149045 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
33148996 TGATTTTTAA
33149006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33149046 TGGGACATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33150016 original size:44 final size:44
Alignment explanation
Indices: 33149953--33150041 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
33149943 AACATGCCTC
33149953 CGCAAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAA
1 CGCAAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAA
33149997 CGCAAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAA
1 CGCAAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAA
33150041 C
1 C
33150042 TCCACGATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (44 bp):
CGCAAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAA
Found at i:33151762 original size:25 final size:24
Alignment explanation
Indices: 33151706--33151827 Score: 86
Period size: 25 Copynumber: 5.0 Consensus size: 24
33151696 TAGGCGCATG
* **
33151706 TAATCGGAAAGCTCTTTCGAGCCA-
1 TAATCGGGAAGCTC-TGAGAGCCAT
*
33151730 TAAACGGGAAGCTCTGGAGAGCCAT
1 TAATCGGGAAGCTCT-GAGAGCCAT
* *
33151755 TAATCGGGAAGCTCATGCGAGCCAA
1 TAATCGGGAAGCTC-TGAGAGCCAT
* * *
33151780 T-ATCAGGAAGCTTCAGAGAGCTAT
1 TAATCGGGAAGC-TCTGAGAGCCAT
* *
33151804 TAATCGTGAAGCTCGTGAAAGCCA
1 TAATCGGGAAGCTC-TGAGAGCCA
33151828 AATATTAGGA
Statistics
Matches: 75, Mismatches: 17, Indels: 11
0.73 0.17 0.11
Matches are distributed among these distances:
23 1 0.01
24 36 0.48
25 37 0.49
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.20
Consensus pattern (24 bp):
TAATCGGGAAGCTCTGAGAGCCAT
Found at i:33151778 original size:49 final size:49
Alignment explanation
Indices: 33151706--33151817 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
33151696 TAGGCGCATG
* * * * *
33151706 TAATCGGAAAGCTCTTTCGAGCC-ATAAACGGGAAGC-TCTGGAGAGCCAT
1 TAATCGGGAAGCTCATGCGAGCCAAT-AACAGGAAGCTTC-AGAGAGCCAT
* *
33151755 TAATCGGGAAGCTCATGCGAGCCAATATCAGGAAGCTTCAGAGAGCTAT
1 TAATCGGGAAGCTCATGCGAGCCAATAACAGGAAGCTTCAGAGAGCCAT
*
33151804 TAATCGTGAAGCTC
1 TAATCGGGAAGCTC
33151818 GTGAAAGCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 49 0.92
50 4 0.08
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (49 bp):
TAATCGGGAAGCTCATGCGAGCCAATAACAGGAAGCTTCAGAGAGCCAT
Found at i:33158083 original size:20 final size:18
Alignment explanation
Indices: 33158049--33158102 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
33158039 TATTTAATAC
33158049 TAATATATATTTTTATTT
1 TAATATATATTTTTATTT
*
33158067 TAATATAATATTTTT-TAT
1 TAATAT-ATATTTTTATTT
*
33158085 T--TATATATTTTTAATT
1 TAATATATATTTTTATTT
33158101 TA
1 TA
33158103 TTATTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 8 0.27
16 5 0.17
18 9 0.30
19 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATATATATTTTTATTT
Found at i:33158092 original size:15 final size:15
Alignment explanation
Indices: 33158064--33158107 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
33158054 TATATTTTTA
*
33158064 TTTTAATATA-ATAT
1 TTTTAATTTATATAT
*
33158078 TTTTTATTTATATAT
1 TTTTAATTTATATAT
33158093 TTTTAATTTAT-TAT
1 TTTTAATTTATATAT
33158107 T
1 T
33158108 ATATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTAATTTATATAT
Found at i:33158111 original size:21 final size:23
Alignment explanation
Indices: 33158076--33158118 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33158066 TTAATATAAT
*
33158076 ATTTTTTATTTATAT-ATTTTTA
1 ATTTATTATTTATATAATTTTTA
33158098 ATTTATTA-TTATATAATTTTT
1 ATTTATTATTTATATAATTTTT
33158119 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTATTATTTATATAATTTTTA
Found at i:33158127 original size:23 final size:21
Alignment explanation
Indices: 33158085--33158127 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33158075 TATTTTTTAT
**
33158085 TTATATATTTTTAATTTATTA
1 TTATATATTTTTAAAATATTA
33158106 TTATATAATTTTTGAAAATATT
1 TTATAT-ATTTTT-AAAATATT
33158128 TATGTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATATATTTTTAAAATATTA
Found at i:33159360 original size:7 final size:7
Alignment explanation
Indices: 33159348--33159373 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33159338 TTTAATCTCC
33159348 TTTTAAA
1 TTTTAAA
33159355 TTTTAAA
1 TTTTAAA
33159362 TTTTAAA
1 TTTTAAA
33159369 TTTTA
1 TTTTA
33159374 GTTTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:33161514 original size:23 final size:23
Alignment explanation
Indices: 33161484--33161540 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
33161474 TTGATATAAT
* *
33161484 AAATAATAATATTATTAAAAATC
1 AAATAATAATAGTATCAAAAATC
* *
33161507 AAATAATAAAAGTATCAAACATC
1 AAATAATAATAGTATCAAAAATC
33161530 AAATAATAATA
1 AAATAATAATA
33161541 AAAATCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATAATAATAGTATCAAAAATC
Found at i:33161552 original size:24 final size:23
Alignment explanation
Indices: 33161504--33161552 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
33161494 ATTATTAAAA
**
33161504 ATCAAATAATAAAAGTATCAAAC
1 ATCAAATAATAAAAAAATCAAAC
33161527 ATCAAATAATAATAAAAATCAAAC
1 ATCAAATAATAA-AAAAATCAAAC
33161551 AT
1 AT
33161553 AACAGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
ATCAAATAATAAAAAAATCAAAC
Found at i:33168338 original size:6 final size:6
Alignment explanation
Indices: 33168327--33168354 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
33168317 AATGCTTGTT
33168327 TGGTGA TGGTGA TGGTGA TGGTGA TGGT
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGT
33168355 AAGTAGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (6 bp):
TGGTGA
Found at i:33169713 original size:16 final size:16
Alignment explanation
Indices: 33169694--33169724 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33169684 GAAGAAATTC
33169694 AGAAGAATAGAAGTTT
1 AGAAGAATAGAAGTTT
33169710 AGAAGAATAGAAGTT
1 AGAAGAATAGAAGTT
33169725 AGGGTTGAAG
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:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (16 bp):
AGAAGAATAGAAGTTT
Found at i:33171497 original size:25 final size:25
Alignment explanation
Indices: 33171463--33171512 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33171453 TGACAAGTCG
*
33171463 GATCAAGGTATTGTCGGGAGCTGTA
1 GATCAAGGTATTATCGGGAGCTGTA
33171488 GATCAAGGTATTATCGGGAGCTGTA
1 GATCAAGGTATTATCGGGAGCTGTA
33171513 CGGGTACACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (25 bp):
GATCAAGGTATTATCGGGAGCTGTA
Found at i:33173782 original size:20 final size:20
Alignment explanation
Indices: 33173739--33173782 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
33173729 ACTCCCATGT
* *
33173739 GGCCTGGGACATGCCCGTGT
1 GGCCTGGAACATGCCCGTGG
**
33173759 GGCCTGGAACATGGTCGTGG
1 GGCCTGGAACATGCCCGTGG
33173779 GGCC
1 GGCC
33173783 AGGCCGTGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.27, G:0.43, T:0.18
Consensus pattern (20 bp):
GGCCTGGAACATGCCCGTGG
Found at i:33175612 original size:44 final size:45
Alignment explanation
Indices: 33175522--33175650 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
33175512 GACAGAACGA
*
33175522 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
33175568 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
33175612 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
33175651 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:33182807 original size:44 final size:45
Alignment explanation
Indices: 33182717--33182845 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
33182707 GACAGAACGA
*
33182717 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
33182763 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
33182807 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
33182846 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:33185735 original size:10 final size:10
Alignment explanation
Indices: 33185697--33185735 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
33185687 AACTATGAAA
33185697 TAAAAAA-AT
1 TAAAAAATAT
33185706 TAAAAAAT-T
1 TAAAAAATAT
33185715 TAAAAAATAT
1 TAAAAAATAT
*
33185725 TAAAAATTAT
1 TAAAAAATAT
33185735 T
1 T
33185736 CTTACCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 16 0.59
10 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:33195391 original size:30 final size:31
Alignment explanation
Indices: 33195355--33195422 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
33195345 GGTTTCATAT
*
33195355 CAGTCACTCAAC-TTTTAAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
33195385 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
33195416 CAGTCAC
1 CAGTCAC
33195423 CGATTAACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 3 0.09
30 17 0.50
31 14 0.41
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:33196518 original size:27 final size:27
Alignment explanation
Indices: 33196480--33196541 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
33196470 GTAAAGACTT
33196480 AACATTGAATTCAAGCATTTTGTAGAA
1 AACATTGAATTCAAGCATTTTGTAGAA
33196507 AACATTGAATTCAAGCATTTTGTAGAA
1 AACATTGAATTCAAGCATTTTGTAGAA
*
33196534 CACATTGA
1 AACATTGA
33196542 GAGCTTTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (27 bp):
AACATTGAATTCAAGCATTTTGTAGAA
Found at i:33196887 original size:3 final size:3
Alignment explanation
Indices: 33196867--33196928 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
33196857 CTATTTTTTC
* * *
33196867 TCT TCT TTT TCT TTT TCT TCT CCT T-T TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
33196914 TTT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT
33196929 CTTTTTAAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TCT
Found at i:33196887 original size:9 final size:9
Alignment explanation
Indices: 33196861--33196934 Score: 75
Period size: 9 Copynumber: 8.6 Consensus size: 9
33196851 ACATCTCTAT
33196861 TTTTTC-TC
1 TTTTTCTTC
33196869 TTCTTT-TTC
1 TT-TTTCTTC
33196878 TTTTTCTTC
1 TTTTTCTTC
**
33196887 TCCTT-TTC
1 TTTTTCTTC
*
33196895 TTCTTCTTC
1 TTTTTCTTC
*
33196904 TTCTTCTTC
1 TTTTTCTTC
33196913 TTTTTCTTC
1 TTTTTCTTC
33196922 TTTTTC-TC
1 TTTTTCTTC
33196930 TTTTT
1 TTTTT
33196935 AAACCCTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
8 19 0.33
9 39 0.67
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:33201467 original size:9 final size:9
Alignment explanation
Indices: 33201453--33201495 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
33201443 GGCCTCTCCA
*
33201453 TTTTTTCTT
1 TTTTTTATT
33201462 TTTTTTGATT
1 TTTTTT-ATT
*
33201472 TTTTTGATT
1 TTTTTTATT
*
33201481 TTTTTTCTT
1 TTTTTTATT
33201490 TTTTTT
1 TTTTTT
33201496 TGAAAGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.86
Consensus pattern (9 bp):
TTTTTTATT
Found at i:33207618 original size:22 final size:21
Alignment explanation
Indices: 33207588--33207634 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
33207578 TACAAATTAA
33207588 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
33207610 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
33207631 ATCT
1 ATCT
33207635 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:33207640 original size:19 final size:19
Alignment explanation
Indices: 33207605--33207683 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
33207595 AGATTACAAG
33207605 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
33207626 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
33207643 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
33207662 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
33207681 ATC
1 ATC
33207684 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:33207660 original size:36 final size:38
Alignment explanation
Indices: 33207605--33207677 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
33207595 AGATTACAAG
33207605 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
33207643 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
33207678 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:33207692 original size:36 final size:35
Alignment explanation
Indices: 33207606--33207693 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
33207596 GATTACAAGA
33207606 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
33207642 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
33207678 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
33207694 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:33209724 original size:2 final size:2
Alignment explanation
Indices: 33209717--33209751 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33209707 ATAATTTTAA
33209717 AT AT AT AT 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 AT AT AT AT A
33209752 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33211907 original size:23 final size:23
Alignment explanation
Indices: 33211876--33211930 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
33211866 TGGACTTCTA
33211876 TTGGTTTTTACCTTAATTTATTTT
1 TTGG-TTTTACCTTAATTTATTTT
* *** *
33211900 TTTGTTTTTGTTTATTTTATTTT
1 TTGGTTTTACCTTAATTTATTTT
33211923 TTGGTTTT
1 TTGGTTTT
33211931 TTTCTAACGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.75
Consensus pattern (23 bp):
TTGGTTTTACCTTAATTTATTTT
Found at i:33212414 original size:176 final size:180
Alignment explanation
Indices: 33212144--33212648 Score: 465
Period size: 176 Copynumber: 2.8 Consensus size: 180
33212134 TTTCCTGATT
* * ** * *
33212144 AGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-TGTATATGA
1 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCCAT-TTTCA
* * * * * * * * **
33212208 GCCTTCTCTATTGCAACTTCAG-GAAGATAAGGCT-GGTAACTTAAATCTGCTCCATTACCGGTA
65 ACCTGCTCTCTTGCTACCTCAGAG-AGATAAGGCTCAGTAACTAAAATCTACTCCATTACCAATA
*** * * * * *
33212271 CACGGAGATAAGATTTGTCATC-CT-CGATATGCTCC-AT-TACTGCTTAGGG
129 CACGGAGATAAGATTCACCATCTCTAAGATATACTCCGATGCAAT-CTCAGGG
* * * *
33212320 AGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTTCCTCAGAAAGATGAGACTCCATTTTTAA
1 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCCATTTTCAA
** *
33212385 CCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TCAGTTGCTAAAATCTACTCCATTGCCAATACA
66 CCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCAGTAACTAAAATCTACTCCATTACCAATACA
* * * *
33212449 TGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAATCTCAGGG
131 CGGAGATAAGATTCACCATCTCT-AAGATATACTCCGATGCAATCTCAGGG
* ** *
33212500 AGATAAAATCTTCAAT-TATCAGTCTGCTTTCAAGCTACCTCAGAAAGATAAGACTCCATCTTCA
1 AGATAAGATCTTCAATCT-TCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCCATTTTCA
** * * * *
33212564 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-AGT-GGTAAAATCTTCTCTATTGCCGATAC
65 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCAGTAACTAAAATCTACTCCATTACCAATAC
* *
33212627 ATGAAGATAAGATTCACCATCT
130 ACGGAGATAAGATTCACCATCT
33212649 GCAAAGATCT
Statistics
Matches: 272, Mismatches: 47, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
175 1 0.00
176 117 0.43
177 3 0.01
179 52 0.19
180 96 0.35
181 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (180 bp):
AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCCATTTTCAA
CCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCAGTAACTAAAATCTACTCCATTACCAATACA
CGGAGATAAGATTCACCATCTCTAAGATATACTCCGATGCAATCTCAGGG
Found at i:33212543 original size:180 final size:179
Alignment explanation
Indices: 33212316--33212666 Score: 517
Period size: 180 Copynumber: 2.0 Consensus size: 179
33212306 ATTACTGCTT
* ** * * *
33212316 AGGGAGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTTCCTCAGAAAGATGAGACTCCATTT
1 AGGGAGATAAAATCTTCAATCTTCAGTCTACTTTCAAGCTACCTCAGAAAGATAAGACTCCATCT
*
33212381 TTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TCAGTTGCTAAAATCTACTCCATTGCCAA
66 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-AG-TGCTAAAATCTACTCCATTGCCAA
* **
33212445 TACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAATCTC
129 TACATGAAGATAAGATTCACCATCTGCAAAGATCTACTCCGCTGCAATCTC
*
33212496 AGGGAGATAAAATCTTCAAT-TATCAGTCTGCTTTCAAGCTACCTCAGAAAGATAAGACTCCATC
1 AGGGAGATAAAATCTTCAATCT-TCAGTCTACTTTCAAGCTACCTCAGAAAGATAAGACTCCATC
* * * *
33212560 TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTAAAATCTTCTCTATTGCCGAT
65 TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGCTAAAATCTACTCCATTGCCAAT
*
33212625 ACATGAAGATAAGATTCACCATCTGCAAAGATCTGCTCCGCT
130 ACATGAAGATAAGATTCACCATCTGCAAAGATCTACTCCGCT
33212667 CAGAGAGATG
Statistics
Matches: 153, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
179 60 0.39
180 92 0.60
181 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (179 bp):
AGGGAGATAAAATCTTCAATCTTCAGTCTACTTTCAAGCTACCTCAGAAAGATAAGACTCCATCT
TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGCTAAAATCTACTCCATTGCCAATA
CATGAAGATAAGATTCACCATCTGCAAAGATCTACTCCGCTGCAATCTC
Found at i:33218529 original size:130 final size:130
Alignment explanation
Indices: 33218166--33218529 Score: 424
Period size: 130 Copynumber: 2.8 Consensus size: 130
33218156 AAGAGCCGAG
* * * ** *
33218166 TGAAATTTTGAAGGGATACTT-GATTATTTTAAACAATTGGGAAATTGCTACCCAACACGTTAGG
1 TGAAATTTTGAAGGGA-AATTCGATTATTTTGAACAAATACGAAATTGCAACCCAACACGTTAGG
* * * * ** * *
33218230 GCACGATCCCGCGAATTGCCAAATATCACATATCGCCTTTGTTTTAGAGATTTTAAAATACACGA
65 GCACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCATTTAAGAGATTTTAAAAGACACGA
*
33218295 G
130 A
** * * * *
33218296 CAAAATTTTAAAGTGATATTCGATTATTTTGAACAAATACGAAATTGCAACCCAACACGTTGGGG
1 TGAAATTTTGAAGGGAAATTCGATTATTTTGAACAAATACGAAATTGCAACCCAACACGTTAGGG
* * * * * * *
33218361 CACGATTCCGCGAATGGCCAAACATTAAATCTCATCTTCATTTAAGGGATTTTAAAAGATATGAA
66 CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCATTTAAGAGATTTTAAAAGACACGAA
* *
33218426 TGAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGGAAATTCGATTATTTTGAACAAATACGAAATTGCAACCCAACACGTTAGGG
* *
33218491 CACGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTC
66 CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTC
33218530 GTTTTGAAGA
Statistics
Matches: 192, Mismatches: 41, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
129 2 0.01
130 190 0.99
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (130 bp):
TGAAATTTTGAAGGGAAATTCGATTATTTTGAACAAATACGAAATTGCAACCCAACACGTTAGGG
CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCATTTAAGAGATTTTAAAAGACACGAA
Found at i:33243595 original size:12 final size:12
Alignment explanation
Indices: 33243568--33243599 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
33243558 TTCCCTGTAA
33243568 AATAGTAAAAAT
1 AATAGTAAAAAT
33243580 -ATAGTAAAAAT
1 AATAGTAAAAAT
33243591 AATAGTAAA
1 AATAGTAAA
33243600 GGGGAAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:33244538 original size:20 final size:20
Alignment explanation
Indices: 33244500--33244547 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33244490 TAAATTCTAA
* **
33244500 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
33244520 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
33244540 AAA-ATAAA
1 AAAGATAAA
33244548 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:33245990 original size:18 final size:17
Alignment explanation
Indices: 33245959--33246009 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
33245949 AATATCTGAA
*
33245959 AATAATAAATAATAAAAT
1 AATAA-AAAAAATAAAAT
33245977 AATAAGAAAAAATAAAAT
1 AATAA-AAAAAATAAAAT
*
33245995 AA-AATAAAAATAAAA
1 AATAAAAAAAATAAAA
33246010 ATTGGGTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 10 0.33
17 2 0.07
18 18 0.60
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AATAAAAAAAATAAAAT
Found at i:33246004 original size:11 final size:11
Alignment explanation
Indices: 33245962--33246009 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
33245952 ATCTGAAAAT
33245962 AATAAATAATAA
1 AATAAA-AATAA
*
33245974 AATAATAAGAAAA
1 AATAA-AA-ATAA
33245987 AAT-AAAATAA
1 AATAAAAATAA
33245997 AATAAAAATAA
1 AATAAAAATAA
33246008 AA
1 AA
33246010 ATTGGGTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 6 0.19
11 11 0.35
12 7 0.23
13 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:33248778 original size:12 final size:12
Alignment explanation
Indices: 33248761--33248793 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
33248751 TTCCCTGTAA
33248761 AATAGTAAAAAT
1 AATAGTAAAAAT
33248773 AATAGTAAAAAT
1 AATAGTAAAAAT
33248785 AATAGTAAA
1 AATAGTAAA
33248794 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:33249735 original size:20 final size:20
Alignment explanation
Indices: 33249697--33249744 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33249687 TAAATTCTAA
* **
33249697 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
33249717 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
33249737 AAA-ATAAA
1 AAAGATAAA
33249745 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:33251014 original size:16 final size:16
Alignment explanation
Indices: 33250993--33251031 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
33250983 CAAGGAATCC
33250993 TCGACAACTTTTGCTT
1 TCGACAACTTTTGCTT
*
33251009 TCGACAATTTTTGCTT
1 TCGACAACTTTTGCTT
*
33251025 TCAACAA
1 TCGACAA
33251032 TTCGCTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (16 bp):
TCGACAACTTTTGCTT
Found at i:33253261 original size:18 final size:18
Alignment explanation
Indices: 33253238--33253276 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
33253228 CATATATTTA
33253238 ATCTATATACATTACTAG
1 ATCTATATACATTACTAG
33253256 ATCTATATACATTACTAG
1 ATCTATATACATTACTAG
33253274 ATC
1 ATC
33253277 CATGTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (18 bp):
ATCTATATACATTACTAG
Found at i:33254777 original size:12 final size:12
Alignment explanation
Indices: 33254760--33254797 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
33254750 TCATAATTAT
33254760 TATTTTTATATA
1 TATTTTTATATA
33254772 TA-TTTTAT-TA
1 TATTTTTATATA
*
33254782 TATTTTTACATA
1 TATTTTTATATA
33254794 TATT
1 TATT
33254798 ATATATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 4 0.17
11 11 0.48
12 8 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTTTATATA
Found at i:33254781 original size:20 final size:22
Alignment explanation
Indices: 33254755--33254880 Score: 76
Period size: 22 Copynumber: 5.3 Consensus size: 22
33254745 TTCTCTCATA
*
33254755 ATTATTATTTTTATATATATTTT
1 ATTA-TATTTTTACATATATTTT
33254778 ATTATATTTTTACATATATTATAT
1 ATTATATTTTTACATATATT-T-T
**
33254802 ATACATATTATTTTTACATATAAATT
1 AT---TA-TATTTTTACATATATTTT
* * *
33254828 -TT-CATTATTACATGCTATATTT
1 ATTATATTTTTACAT-ATAT-TTT
*
33254850 ATTATATTATTTCCCATATATTTT
1 ATTATATT-TTT-ACATATATTTT
33254874 ATTATAT
1 ATTATAT
33254881 AATATTTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
20 9 0.11
21 2 0.03
22 18 0.23
23 7 0.09
24 16 0.20
25 6 0.08
26 4 0.05
27 3 0.04
28 14 0.18
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (22 bp):
ATTATATTTTTACATATATTTT
Found at i:33254788 original size:22 final size:23
Alignment explanation
Indices: 33254755--33254837 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 23
33254745 TTCTCTCATA
*
33254755 ATTATTATTTTTATATATATTTT
1 ATTATTATTTTTACATATATTTT
33254778 ATTA-TATTTTTACATATATTATAT
1 ATTATTATTTTTACATATATT-T-T
33254802 ATACATATTATTTTTACATATAAATTTT
1 AT---TATTATTTTTACATAT--ATTTT
33254830 CATTATTA
1 -ATTATTA
33254838 CATGCTATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
22 15 0.30
23 5 0.10
24 3 0.06
26 5 0.10
27 2 0.04
28 14 0.28
29 3 0.06
30 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATTATTTTTACATATATTTT
Found at i:33254977 original size:20 final size:19
Alignment explanation
Indices: 33254952--33254994 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
33254942 ACATATTACC
33254952 AATTATAT-TATTTATGTTTA
1 AATTATATATA-TTAT-TTTA
33254972 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
33254991 AATT
1 AATT
33254995 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:33255184 original size:7 final size:7
Alignment explanation
Indices: 33255173--33255211 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
33255163 AAATTCTTGT
*
33255173 TATTATT
1 TATTATA
33255180 TATTATA
1 TATTATA
33255187 TATTATA
1 TATTATA
33255194 TA-TATA
1 TATTATA
33255200 TATTATA
1 TATTATA
33255207 TATTA
1 TATTA
33255212 AATACTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTATA
Found at i:33255348 original size:3 final size:3
Alignment explanation
Indices: 33255340--33255367 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33255330 GTGTTAAATG
33255340 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33255368 ATGTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33255451 original size:30 final size:30
Alignment explanation
Indices: 33255417--33255475 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
33255407 CTTCTATTTG
* * *
33255417 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
33255447 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
33255476 ATATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:33267165 original size:118 final size:117
Alignment explanation
Indices: 33266958--33267658 Score: 1130
Period size: 118 Copynumber: 6.0 Consensus size: 117
33266948 AGGCCGCAGT
* *
33266958 ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
33267023 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAT
66 TTACAAG-AACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAC
* *
33267076 ATAGCAGATCTAAACTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
33267141 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAG-AACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTC-AAC
33267195 ATAGCAGATCTAA-CTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
33267259 TTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGAC
66 TTACAA-GAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA-AC
* **
33267313 ACATGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
1 ATA-GCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
33267378 TTTACAAGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAC
65 TTTACAAGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA-AC
33267432 AT---AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-G-ATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
33267492 TTACAAGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAC
66 TTACAAGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAC
* **
33267544 ACAGACAGATCTAACCTTCAGATG-TT-TACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
1 ATAG-CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
*
33267607 TTTACAAGAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAA
65 TTTACAAGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAA
33267659 ACAGACTCAA
Statistics
Matches: 555, Mismatches: 17, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
112 3 0.01
113 60 0.11
114 25 0.05
115 49 0.09
116 78 0.14
117 1 0.00
118 210 0.38
119 74 0.13
120 55 0.10
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (117 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
TTACAAGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAC
Found at i:33281344 original size:119 final size:119
Alignment explanation
Indices: 33281183--33281884 Score: 994
Period size: 119 Copynumber: 5.8 Consensus size: 119
33281173 AGATCTAGCT
**
33281183 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAAT
1 TTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAAT
* * *
33281248 CGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAGATATAACATATCTAAAC
66 CAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGATATAACAGATCTAAAC
*
33281302 TTCAGATGTTTATACTGAAACAGATCCAAGATGATTTAGTATTCTTGTGTTTACAAGAAACAAAT
1 TTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAAT
* * * *
33281367 CGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAAAC
66 CAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGATATAACAGATCTAAAC
* *
33281421 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAAT
* * ** *
33281486 CAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGATCTAACC
66 CAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--ATATAACAGATCTAAAC
* * ** *
33281542 TTCAGATGTTTATACTGAAGCCAGATCTAAGATGATTTGACATTCTTGTGTTTACAAGGAACAAA
1 TTCAGATGTTTATACTGAA-ACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAA
* * * *
33281607 TCGAGGACATAGCAGATTTGACTTTTAGATGTTCTCAGATATAGA-AGATCTAAGC
65 TCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGATATA-ACAGATCTAAAC
* *
33281662 TTCAGATGTTTATACT-AAAGCAGATCTAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
1 TTCAGATGTTTATACTGAAA-CAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAA
* * * * *
33281726 TAAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGACAGATCTAACC
65 TCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--ATATAACAGATCTAAAC
* **
33281783 TTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAA
1 TTCAGATGTTTATACTGAA-ACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAA
33281848 TCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
65 TCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
33281885 AACAGACTCA
Statistics
Matches: 527, Mismatches: 46, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
119 285 0.54
120 29 0.06
121 61 0.12
122 152 0.29
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (119 bp):
TTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAAT
CAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGATATAACAGATCTAAAC
Found at i:33281685 original size:241 final size:241
Alignment explanation
Indices: 33281167--33281886 Score: 1171
Period size: 241 Copynumber: 3.0 Consensus size: 241
33281157 TAGGCCGCAG
*
33281167 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGT
1 TATAGCAGATCTAAGC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* * * * * * *
33281231 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAG--ATATAACAT
65 GTTTACAAGGAACAAATCAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGACAG
* * *
33281294 ATCTAAACTTCAGATGTTTATACTGAA-ACAGATCCAAGATGATTT-AGTATTCTTGTGTTTACA
130 ATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGA-CATTCTTGTGTTTACA
*
33281357 AGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
194 AGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
*
33281405 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
*
33281470 TTTACAAGGAACAAATCAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGACAGA
*
33281535 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCTAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
* * * *
33281600 GAACAAATCGAGGACATAGCAGATTTGACTTTTAGATGTTCTCAGA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * *
33281646 TATAGAAGATCTAAGCTTCAGATGTTTATACTAAAGCAGATCTAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
*
33281711 TTTACAAGGAACAAATAAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGACAGA
66 TTTACAAGGAACAAATCAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGACAGA
33281776 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
*
33281841 AAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
33281887 CAGACTCAAG
Statistics
Matches: 446, Mismatches: 31, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
238 109 0.24
239 2 0.00
240 31 0.07
241 303 0.68
242 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (241 bp):
TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGGAACAAATCAAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGACAGA
TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
AAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
Found at i:33283694 original size:20 final size:20
Alignment explanation
Indices: 33283665--33283717 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
33283655 TTAATTCTCT
33283665 CATA-ATTATTAT-TTTTATA
1 CATATATTATTATATTTT-TA
*
33283684 TATATATTATTATATTTTTA
1 CATATATTATTATATTTTTA
33283704 CATATATTA-TATAT
1 CATATATTATTATAT
33283718 ACATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
CATATATTATTATATTTTTA
Found at i:33284105 original size:7 final size:7
Alignment explanation
Indices: 33284093--33284125 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
33284083 ATATTCTTGT
33284093 TATTATA
1 TATTATA
33284100 TATTATA
1 TATTATA
33284107 TATTATA
1 TATTATA
33284114 TATTATA
1 TATTATA
33284121 TATTA
1 TATTA
33284126 AATACTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:33284359 original size:30 final size:30
Alignment explanation
Indices: 33284325--33284383 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
33284315 CTTCTATTTG
* * *
33284325 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
33284355 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
33284384 ATATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:33285661 original size:23 final size:24
Alignment explanation
Indices: 33285634--33285687 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
33285624 TTATTGTGAC
*
33285634 ATATTATTG-TGT-ATTGTTTTGTT
1 ATATTATTGTTGTGA-TGTATTGTT
*
33285657 CTATT-TTGTTGTGATGTATTGTT
1 ATATTATTGTTGTGATGTATTGTT
33285680 ATATTATT
1 ATATTATT
33285688 ATTTTCGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.12
23 19 0.76
24 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.63
Consensus pattern (24 bp):
ATATTATTGTTGTGATGTATTGTT
Found at i:33286291 original size:127 final size:127
Alignment explanation
Indices: 33285972--33286294 Score: 421
Period size: 127 Copynumber: 2.5 Consensus size: 127
33285962 GAAAATTCCT
* * * *
33285972 TAAAACCAAGACAATATTCGATGTTTGAAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
1 TAAAA-CAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * ** *
33286037 ATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTTACTCGTGTTTTCTAAATCC
65 GTTTCCCGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * *
33286100 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGAGATTCGTGGCCTATCGTGCTGGGTTTCGG
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGG
* * * * *
33286165 TTTCCCGTTTGCCCAAAATAGTCGAATATTTCTTTGGGATTTCACTCGTGTTTTCTAAATTC
66 TTTCCCGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * *
33286227 TAAGATAAGGCAATGTTCAATGTTTGGAAATTTGGGGAATCGTGCCCTATCATGCTGGGTTTCGG
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGG
33286292 TTT
66 TTT
33286295 TTCGTTGGAC
Statistics
Matches: 166, Mismatches: 29, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
127 161 0.97
128 5 0.03
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGG
TTTCCCGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATCC
Found at i:33288797 original size:55 final size:55
Alignment explanation
Indices: 33288738--33288900 Score: 135
Period size: 54 Copynumber: 3.0 Consensus size: 55
33288728 TTACAAATTT
33288738 TTAAAATTAAACATAATAATAAATAATAATAAAATAAAATAATATATAATATATA
1 TTAAAATTAAACATAATAATAAATAATAATAAAATAAAATAATATATAATATATA
* * *
33288793 TTAAAA-T-AATATAAT-AT-AATGGATAATATATATAACAA-AATGATATAATATATA
1 TTAAAATTAAACATAATAATAAAT-AATAATA-AAATAA-AATAAT-ATATAATATATA
* * * *
33288847 ATAAAATATAAACA-ATATAATAAACAATGGAT-AAGTAAAAATAATATAT-ATATA
1 TTAAAAT-TAAACATA-ATAATAAATAAT-AATAAAAT-AAAATAATATATAATATA
33288901 ATAAATTATT
Statistics
Matches: 85, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
51 3 0.04
52 8 0.09
53 15 0.18
54 20 0.24
55 6 0.07
56 7 0.08
57 13 0.15
58 9 0.11
59 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (55 bp):
TTAAAATTAAACATAATAATAAATAATAATAAAATAAAATAATATATAATATATA
Found at i:33288812 original size:5 final size:5
Alignment explanation
Indices: 33288753--33288868 Score: 57
Period size: 5 Copynumber: 23.2 Consensus size: 5
33288743 ATTAAACATA
* * *
33288753 ATAAT A-AAT AATAAT AAAAT AAAAT A-ATAT ATAAT AT-AT ATTAAA
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT A-TAAT
* *
33288798 ATAAT ATAAT ATAAT GGATAAT AT-AT ATAAC A-AA- ATGAT ATAATAT
1 ATAAT ATAAT ATAAT --ATAAT ATAAT ATAAT ATAAT ATAAT AT-A-AT
* *
33288844 ATAAT AAAAT ATAA- ACAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
33288869 AACAATGGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
3 1 0.01
4 17 0.20
5 53 0.61
6 7 0.08
7 9 0.10
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:33289286 original size:30 final size:30
Alignment explanation
Indices: 33289250--33289320 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
33289240 ATCTACTGAA
33289250 ACGCGCGGATCCTCCCCGGGTCACGGGTCC
1 ACGCGCGGATCCTCCCCGGGTCACGGGTCC
33289280 ACGCGCGGATCCTCCCCGGGTCACGGGTCC
1 ACGCGCGGATCCTCCCCGGGTCACGGGTCC
33289310 ACGCGCGGATC
1 ACGCGCGGATC
33289321 TTTCATTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.11, C:0.42, G:0.34, T:0.13
Consensus pattern (30 bp):
ACGCGCGGATCCTCCCCGGGTCACGGGTCC
Found at i:33290678 original size:45 final size:45
Alignment explanation
Indices: 33290536--33290960 Score: 195
Period size: 45 Copynumber: 9.1 Consensus size: 45
33290526 CAGATCTGCT
* *
33290536 ATCTTCGATATGCTCCCCGTCTGATACAGAGATGCCAAATCTATC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
* ** ** * * * ** * *
33290581 ATCTTTGATCTG-TTTCAATGTAA-ACACACTAATATCAGATCT-GC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGA--GATGCCAAATCTATC
* *
33290625 TACCTTCGATCTGCTCCCCGTCTAATGCAGAGATGCCAAATCTATCATCTTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC--T-A---TC
*
33290677 GATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
** * ** * * *
33290723 ATCTTCGATCTGCT--TGGATGTAAATACACGA-ATTTCAGATCTGTT
1 ATCTTCGATCTGCTCCCCG-TCT-AATACA-GAGATGCCAAATCTATC
*
33290768 ATCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
* ** * * ** * *
33290813 ATCTTCAATCT--TCTTCGATGTAA-ACACACGAATATCAGATCT-GC
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTATC
* * * *
33290857 TACCTTCAATCTGCTCCCTGTCTAATACAGAGATACCAAATCTGTCATCTTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC--T-A---TC
* *
33290909 AATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAATC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
33290955 ATCTTC
1 ATCTTC
33290961 AATTTCTTCG
Statistics
Matches: 273, Mismatches: 75, Indels: 64
0.66 0.18 0.16
Matches are distributed among these distances:
43 13 0.05
44 16 0.06
45 133 0.49
46 19 0.07
47 13 0.05
49 1 0.00
50 1 0.00
52 77 0.28
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
Found at i:33290693 original size:52 final size:52
Alignment explanation
Indices: 33290628--33290733 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
33290618 GATCTGCTAC
*
33290628 CTTCGATCTGCTCCCCGTCTAATGCAGAGATGCCAAATCTATCATCTTCGAT
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGAT
*
33290680 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGAT
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGAT
33290732 CT
1 CT
33290734 GCTTGGATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (52 bp):
CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGAT
Found at i:33290792 original size:142 final size:142
Alignment explanation
Indices: 33290536--33290825 Score: 445
Period size: 142 Copynumber: 2.0 Consensus size: 142
33290526 CAGATCTGCT
* * *
33290536 ATCTTCGATATGCTCCCCGTCTGATACAGAGATGCCAAATCTATCATCTTTGATCTGTTTCAATG
1 ATCTTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTTCAATG
* * *
33290601 TAAACACACTAATATCAGATCTGCTACCTTCGATCTGCTCCCCGTCTAATGCAGAGATGCCAAAT
66 TAAACACACGAATATCAGATCTGCTACCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAAT
*
33290666 CTATCATCTTCG
131 CTATCATCTTCA
* * **
33290678 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTGGATG
1 ATCTTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTTCAATG
* * * *
33290743 TAAATACACGAATTTCAGATCTGTTATCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAAT
66 TAAACACACGAATATCAGATCTGCTACCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAAT
33290808 CTATCATCTTCA
131 CTATCATCTTCA
33290820 ATCTTC
1 ATCTTC
33290826 TTCGATGTAA
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (142 bp):
ATCTTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTTCAATG
TAAACACACGAATATCAGATCTGCTACCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAAT
CTATCATCTTCA
Found at i:33290833 original size:90 final size:90
Alignment explanation
Indices: 33290678--33290914 Score: 366
Period size: 90 Copynumber: 2.6 Consensus size: 90
33290668 ATCATCTTCG
* * *
33290678 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTGGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTTCTTCGATG
* * *
33290743 TAAATACACGAATTTCAGATCTGTT
66 TAAACACACGAATATCAGATCTGCT
* *
33290768 ATCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCAATCTTCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTTCTTCGATG
33290833 TAAACACACGAATATCAGATCTGCT
66 TAAACACACGAATATCAGATCTGCT
* * * *
33290858 ACCTTCAATCTGCTCCCTGTCTAATACAGAGATACCAAATCTGTCATCTTCAATCTT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTT
33290915 TGATCTGCTC
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 133 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.32
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTTCTTCGATG
TAAACACACGAATATCAGATCTGCT
Found at i:33290931 original size:232 final size:232
Alignment explanation
Indices: 33290519--33290960 Score: 706
Period size: 232 Copynumber: 1.9 Consensus size: 232
33290509 TGATCTGCTT
* *
33290519 CGAATGTCAGATCTGCTATCTTCGATATGCTCCCCGTCTGATACAGAGATGCCAAATCTATCATC
1 CGAATGTCAGATCTGCTATCTTCGACATGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATC
** * *
33290584 TTTGATCTGTTTCAATGTAAACACACTAATATCAGATCTGCTACCTTCGATCTGCTCCCCGTCTA
66 TTCAATCTGTTTCAATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCCGTCTA
* * *
33290649 ATGCAGAGATGCCAAATCTATCATCTTCGATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCC
131 ATACAGAGATACCAAATCTATCATCTTCAATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCC
**
33290714 AAATCTGTCATCTTCGATCTGCTTGGATGTAAATACA
196 AAATCAATCATCTTCGATCTGCTTGGATGTAAATACA
* * *
33290751 CGAATTTCAGATCTGTTATCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATC
1 CGAATGTCAGATCTGCTATCTTCGACATGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATC
* *
33290816 TTCAATCT-TCTTCGATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCTGTCT
66 TTCAATCTGT-TTCAATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCCGTCT
* *
33290880 AATACAGAGATACCAAATCTGTCATCTTCAATCTTTGATCTGCTCCCCGTCTAATACAGAGATGC
130 AATACAGAGATACCAAATCTATCATCTTCAATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
33290945 CAAATCAATCATCTTC
195 CAAATCAATCATCTTC
33290961 AATTTCTTCG
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
231 1 0.01
232 190 0.99
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (232 bp):
CGAATGTCAGATCTGCTATCTTCGACATGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATC
TTCAATCTGTTTCAATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCCGTCTA
ATACAGAGATACCAAATCTATCATCTTCAATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCC
AAATCAATCATCTTCGATCTGCTTGGATGTAAATACA
Found at i:33290948 original size:52 final size:52
Alignment explanation
Indices: 33290860--33291018 Score: 187
Period size: 52 Copynumber: 3.0 Consensus size: 52
33290850 GATCTGCTAC
* * *
33290860 CTTCAATCTGCTCCCTGTCTAATACAGAGATACCAAATCTGTCATCTTCAAT
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAAT
* **
33290912 CTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAATCATCTTCAATTT
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAA--T
* ** *
33290966 CTTCGATTTATTCCCCGTC-AATACAGAGATGCCAAATCTG-CTATCTTCGAT
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTC-ATCTTCAAT
33291017 CT
1 CT
33291019 ACATTATCCC
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
51 3 0.03
52 46 0.51
53 26 0.29
54 16 0.18
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (52 bp):
CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAAT
Found at i:33301214 original size:33 final size:33
Alignment explanation
Indices: 33301172--33301237 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
33301162 CCCACAACTC
33301172 TGACGTATACCCTTCGGTGACACTATCTCCTTT
1 TGACGTATACCCTTCGGTGACACTATCTCCTTT
33301205 TGACGTATACCCTTCGGTGACACTATCTCCTTT
1 TGACGTATACCCTTCGGTGACACTATCTCCTTT
33301238 CTCTAACTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.36
Consensus pattern (33 bp):
TGACGTATACCCTTCGGTGACACTATCTCCTTT
Found at i:33303065 original size:3 final size:3
Alignment explanation
Indices: 33303057--33303158 Score: 58
Period size: 3 Copynumber: 34.3 Consensus size: 3
33303047 AAAATTAAAC
33303057 ATA ATA ATAA ATA ATA ATA A-A ATA ATA A-A AT- ATA ATA TATA TATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA
* * *
33303102 TTAA ATA AT- ATA AT- ATA ATGG ATA AT- ATA TATA ATA A-A ATG AT-
1 AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA
33303145 ATA ATA TATA ATA A
1 ATA ATA -ATA ATA A
33303159 ATATATAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 28
0.71 0.04 0.25
Matches are distributed among these distances:
2 16 0.20
3 44 0.55
4 20 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:33303071 original size:7 final size:7
Alignment explanation
Indices: 33303059--33303224 Score: 50
Period size: 7 Copynumber: 23.4 Consensus size: 7
33303049 AATTAAACAT
33303059 AATAATA
1 AATAATA
33303066 AATAAT-
1 AATAATA
33303072 AAT-A-A
1 AATAATA
33303077 AATAAT-
1 AATAATA
33303083 AA-AATA
1 AATAATA
33303089 TAATATATA
1 -AATA-ATA
* *
33303098 TATATTA
1 AATAATA
33303105 AATAATA
1 AATAATA
33303112 TAAT-ATA
1 -AATAATA
33303119 ATGGATAATA
1 A---ATAATA
33303129 TATATAAT-
1 -A-ATAATA
33303137 AA-AATGA
1 AATAAT-A
*
33303144 TATAATA
1 AATAATA
*
33303151 TATAATA
1 AATAATA
33303158 AATATATA
1 AATA-ATA
33303166 AAT-A-A
1 AATAATA
33303171 AAT-ATA
1 AATAATA
*
33303177 AACAATA
1 AATAATA
*
33303184 TAATAAAA
1 -AATAATA
*
33303192 AATGCATA
1 AAT-AATA
*
33303200 AGTAA-A
1 AATAATA
33303206 AATAATA
1 AATAATA
33303213 TATATAATA
1 -A-ATAATA
33303222 AAT
1 AAT
33303225 TATTTATATA
Statistics
Matches: 120, Mismatches: 15, Indels: 48
0.66 0.08 0.26
Matches are distributed among these distances:
5 15 0.12
6 17 0.14
7 41 0.34
8 27 0.22
9 16 0.13
10 3 0.03
11 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (7 bp):
AATAATA
Found at i:33303083 original size:21 final size:21
Alignment explanation
Indices: 33303052--33303158 Score: 71
Period size: 21 Copynumber: 5.0 Consensus size: 21
33303042 TTTTTAAAAT
33303052 TAAACATAATAATAAATAATAA
1 TAAA-ATAATAATAAATAATAA
33303074 TAAAATAAT-A-AAAT-ATAA
1 TAAAATAATAATAAATAATAA
* *
33303092 T-ATATATATATTAAATAAT-A
1 TAAAATA-ATAATAAATAATAA
* *
33303112 TAATATAATGGATAATATATATAA
1 TAAAATAAT-AATAA-ATA-ATAA
*
33303136 TAAAATGATATAATATATAATAA
1 TAAAAT-A-ATAATAAATAATAA
33303159 ATATATAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
17 4 0.06
18 7 0.10
19 4 0.06
20 9 0.13
21 15 0.22
22 7 0.10
23 6 0.09
24 9 0.13
25 4 0.06
26 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAAATAATAATAAATAATAA
Found at i:33303115 original size:33 final size:32
Alignment explanation
Indices: 33303057--33303174 Score: 118
Period size: 33 Copynumber: 3.6 Consensus size: 32
33303047 AAAATTAAAC
*
33303057 ATAATA-ATA-AATAATAATAAAATAATAAAAT
1 ATAATATATATAATAA-AATAATATAATAAAAT
* *
33303088 ATAATATATATATATTAAATAATATAATATAAT
1 ATAATATATATA-ATAAAATAATATAATAAAAT
*
33303121 GGATAATATATATAATAAAATGATATAATATATAAT
1 --ATAATATATATAATAAAATAATATAATA-A-AAT
33303157 A-AATATATA-AATAAAATA
1 ATAATATATATAATAAAATA
33303175 TAAACAATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
31 6 0.08
32 11 0.15
33 23 0.32
34 18 0.25
35 12 0.16
36 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (32 bp):
ATAATATATATAATAAAATAATATAATAAAAT
Found at i:33303155 original size:29 final size:29
Alignment explanation
Indices: 33303057--33303223 Score: 118
Period size: 29 Copynumber: 5.8 Consensus size: 29
33303047 AAAATTAAAC
33303057 ATAAT-AATAA-ATA-ATAATAAAATAAT
1 ATAATAAATAATATATATAATAAAATAAT
* *
33303083 AAAATATAATATATATATATTAAATAATATAAT
1 ATAATA-AATA-ATATATA-T-AATAAAATAAT
** *
33303116 ATAATGGATAATATATATAATAAAATGAT
1 ATAATAAATAATATATATAATAAAATAAT
* * *
33303145 ATAATATATAATAAATAT-AT-AAATAAA
1 ATAATAAATAATATATATAATAAAATAAT
* *
33303172 AT-ATAAACAATATA-ATAA-AAAATGCAT
1 ATAATAAATAATATATATAATAAAAT-AAT
33303199 AAGTAA-AAATAATATATATAATAAA
1 -A-TAATAAATAATATATATAATAAA
33303224 TTATTTATAT
Statistics
Matches: 108, Mismatches: 18, Indels: 25
0.72 0.12 0.17
Matches are distributed among these distances:
25 2 0.02
26 18 0.17
27 8 0.07
28 7 0.06
29 35 0.32
30 9 0.08
31 11 0.10
32 4 0.04
33 14 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
ATAATAAATAATATATATAATAAAATAAT
Found at i:33303174 original size:24 final size:23
Alignment explanation
Indices: 33303060--33303176 Score: 57
Period size: 21 Copynumber: 5.6 Consensus size: 23
33303050 ATTAAACATA
33303060 ATAAT-AAATA-ATAAT-AA-A-
1 ATAATAAAATATATAATAAATAT
*
33303078 ATAAT-AAA-ATATAATATATAT
1 ATAATAAAATATATAATAAATAT
*
33303099 ATATTAAATA-ATATAAT--ATA-
1 ATAATAAA-ATATATAATAAATAT
* *
33303119 ATGGATAATATATATAATAAA-AT
1 AT-AATAAAATATATAATAAATAT
33303142 GAT-AT--AATATATAATAAATAT
1 -ATAATAAAATATATAATAAATAT
33303163 ATAAATAAAATATA
1 AT-AATAAAATATA
33303177 AACAATATAA
Statistics
Matches: 76, Mismatches: 6, Indels: 28
0.69 0.05 0.25
Matches are distributed among these distances:
17 1 0.01
18 13 0.17
19 1 0.01
20 18 0.24
21 19 0.25
22 7 0.09
23 9 0.12
24 8 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
ATAATAAAATATATAATAAATAT
Found at i:33303184 original size:33 final size:31
Alignment explanation
Indices: 33303046--33303224 Score: 119
Period size: 32 Copynumber: 5.8 Consensus size: 31
33303036 TACAAATTTT
33303046 TAAAAT-TAAACATA-ATAATAAATA-AT-AA
1 TAAAATATAAA-ATATATAATAAATATATAAA
*
33303074 TAAAATAATAAAATATA-ATATATATATATTAAA
1 TAAAAT-ATAAAATATATA-ATAAATATA-TAAA
* *
33303107 T--AATATAATATA-ATGGAT-AATATATATAA
1 TAAAATATAAAATATAT-AATAAATATATA-AA
*
33303136 TAAAATGATATAATATATAATAAATATATAAA
1 TAAAAT-ATAAAATATATAATAAATATATAAA
* *
33303168 TAAAATATAAACA-ATATAATAAAAAATGCATAAG
1 TAAAATATAAA-ATATATAAT-AAATAT--ATAAA
*
33303202 TAAAA-ATAATATATATAATAAAT
1 TAAAATATAAAATATATAATAAAT
33303225 TATTTATATA
Statistics
Matches: 119, Mismatches: 12, Indels: 36
0.71 0.07 0.22
Matches are distributed among these distances:
28 8 0.07
29 13 0.11
30 20 0.17
31 18 0.15
32 27 0.23
33 24 0.20
34 9 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (31 bp):
TAAAATATAAAATATATAATAAATATATAAA
Found at i:33303185 original size:31 final size:30
Alignment explanation
Indices: 33303046--33303190 Score: 106
Period size: 28 Copynumber: 4.7 Consensus size: 30
33303036 TACAAATTTT
*
33303046 TAAAAT-TAAACATAATAATAAATA-AT-AA
1 TAAAATATAAAAAT-ATAATAAATATATAAA
*
33303074 TAAAATA-ATAAAATATAAT--ATATATATA
1 TAAAATATA-AAAATATAATAAATATATAAA
* *
33303102 TTAAATA-ATATAATATAATGGATAATATATATAA
1 TAAAATATA-AAAATATAAT--A-AATATATA-AA
*
33303136 TAAAATGATATAATATATAATAAATATATAAA
1 TAAAAT-ATA-AAAATATAATAAATATATAAA
33303168 TAAAATATAAACAATATAATAAA
1 TAAAATATAAA-AATATAATAAA
33303191 AAATGCATAA
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
26 3 0.03
27 2 0.02
28 30 0.32
29 4 0.04
30 2 0.02
31 13 0.14
32 8 0.08
33 15 0.16
34 7 0.07
35 1 0.01
36 10 0.11
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (30 bp):
TAAAATATAAAAATATAATAAATATATAAA
Found at i:33303504 original size:11 final size:11
Alignment explanation
Indices: 33303488--33303521 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33303478 GGTTAGGGCC
33303488 AAATTAAAATA
1 AAATTAAAATA
*
33303499 AAATTAAAATG
1 AAATTAAAATA
33303510 AAATTATAAATA
1 AAATTA-AAATA
33303522 TTAAAATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
AAATTAAAATA
Found at i:33306509 original size:19 final size:19
Alignment explanation
Indices: 33306485--33306524 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33306475 GATGCCTCAT
*
33306485 TTGCATT-CATGCATTTGCA
1 TTGCATTACAT-CATATGCA
33306504 TTGCATTACATCATATGCA
1 TTGCATTACATCATATGCA
33306523 TT
1 TT
33306525 AAAGGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGCATTACATCATATGCA
Found at i:33312598 original size:17 final size:18
Alignment explanation
Indices: 33312547--33312705 Score: 216
Period size: 17 Copynumber: 8.8 Consensus size: 18
33312537 TCATATCTTT
*
33312547 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
33312566 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
33312584 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
33312601 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
33312619 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
33312636 AAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
33312654 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
33312671 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
33312690 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
33312706 TGAAGATTAT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
17 47 0.38
18 47 0.38
19 31 0.25
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:33312602 original size:35 final size:35
Alignment explanation
Indices: 33312547--33312697 Score: 257
Period size: 35 Copynumber: 4.2 Consensus size: 35
33312537 TCATATCTTT
33312547 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
33312584 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
33312619 TAAGATTGTATCATATCAAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
33312654 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
33312690 TAAGATTG
1 TAAGATTG
33312698 CATATCATTG
Statistics
Matches: 110, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
35 87 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:33313124 original size:22 final size:22
Alignment explanation
Indices: 33313096--33313139 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33313086 TGACAATACA
33313096 GAGATGTCAAATCATCTTAGAT
1 GAGATGTCAAATCATCTTAGAT
33313118 GAGATGTCAAATCATCTTAGAT
1 GAGATGTCAAATCATCTTAGAT
33313140 TTGCTTCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (22 bp):
GAGATGTCAAATCATCTTAGAT
Found at i:33313550 original size:207 final size:207
Alignment explanation
Indices: 33313118--33314016 Score: 1399
Period size: 207 Copynumber: 4.3 Consensus size: 207
33313108 CATCTTAGAT
* * ** *
33313118 GAGATGTCAAATCATCTTAGATTTGCTTCAGTGTAAACACGCGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
* * * * * *
33313183 CGATTTGCTCCTTGTAAGCACAAGGATACCAAACTATCTTGGATC-TGCTTCAGTCTAATCATCT
66 CGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
** * * * *
33313247 GAAGGTTAGATCTGATATATGTCT-CTCCTCCATCGAATATGGAAACGA-TAAACTTCGATTTGT
131 GAAGGCCAGATCTGCTATGTGTCTGC-CCTCCATCGAATATGGAGAC-ACCAAACTTCGATTTGT
33313310 TCTCTGACAATACA
194 TCTCTGACAATACA
*
33313324 GAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
* *
33313389 CAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
66 CGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
* * *
33313454 GAAGGCTAGATTTGCTATGTGTCTGCCCTCCATCGAATATGGAGACACCAAACTTTGATTTGTTC
131 GAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACACCAAACTTCGATTTGTTC
*
33313519 TCTGACAATATA
196 TCTGACAATACA
33313531 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
33313596 CGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
66 CGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
* *
33313661 GAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTC
131 GAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACACCAAACTTCGATTTGTTC
33313726 TCTGACAATACA
196 TCTGACAATACA
33313738 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
*
33313803 TGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
66 CGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
* * * * * *
33313868 GAAGGCCAAATCTACTATGTGTCTGCCCTCCGTTGAATATGGAGACGCCAAACTTCAATTTGTTC
131 GAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACACCAAACTTCGATTTGTTC
33313933 TCTGACAATACA
196 TCTGACAATACA
* * * * * * *
33313945 GAGATGCCAAAGCATCTTAGATTTGCTTCATCATAAGCACATGAAAGCCAAATCAGCTATGTTTT
1 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
33314010 CGATTTG
66 CGATTTG
33314017 CTCTCCGTCG
Statistics
Matches: 648, Mismatches: 42, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
206 101 0.16
207 546 0.84
208 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
CGATTTGTTCCTTGTAACCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCT
GAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACACCAAACTTCGATTTGTTC
TCTGACAATACA
Found at i:33314244 original size:84 final size:82
Alignment explanation
Indices: 33314141--33314341 Score: 223
Period size: 87 Copynumber: 2.4 Consensus size: 82
33314131 ACTATACTTT
* * *
33314141 AACCTATTACCCTACTGCTTAGGGGGTTGAGGCGCA-TC-T-TCGATCTGCTCCACTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATTCGTCTCGATCTGCTCCACTACTACTTA
33314203 GGGAGATAAGATCTGCAATTTTG
66 GGGAGATAAGATCTG------TG
* * * **
33314226 -ACCTGTTACCCTACTGCTTAGAGGGTTAAGGC-TATTCGTCGTTGATCTGCTCTGCTACTACTT
1 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATTCGTC-TCGATCTGCTCCACTACTACTT
33314289 AGGGAGATAAGATCTGTG
65 AGGGAGATAAGATCTGTG
*
33314307 AACCTGTTACCCTACTACTTAGGGGGTTAAGGCGC
1 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGC
33314342 TGAATTTTGA
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
81 2 0.02
82 30 0.30
83 1 0.01
84 31 0.31
85 1 0.01
87 34 0.34
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (82 bp):
AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATTCGTCTCGATCTGCTCCACTACTACTTA
GGGAGATAAGATCTGTG
Found at i:33315297 original size:1 final size:1
Alignment explanation
Indices: 33315287--33315357 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
33315277 GGCCTCTCCA
* * * * * * * * *
33315287 TTTTTCTTTTTTCTTTTTTCTCTTTTTTCTTTTTTCTTTTTTTTTATTTTTTTCTTTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
33315352 TTTTTT
1 TTTTTT
33315358 GTTTGAAATA
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:33315299 original size:7 final size:7
Alignment explanation
Indices: 33315287--33315357 Score: 81
Period size: 7 Copynumber: 9.7 Consensus size: 7
33315277 GGCCTCTCCA
33315287 TTTTTCT
1 TTTTTCT
33315294 TTTTTCTT
1 TTTTTC-T
33315302 TTTTCTCT
1 TTTT-TCT
33315310 TTTTTCT
1 TTTTTCT
33315317 TTTTTCT
1 TTTTTCT
33315324 TTTTT-T
1 TTTTTCT
*
33315330 TTATTTTT
1 TT-TTTCT
*
33315338 TTCTTTTT
1 TT-TTTCT
33315346 TTTTTCT
1 TTTTTCT
33315353 TTTTT
1 TTTTT
33315358 GTTTGAAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
6 3 0.05
7 33 0.57
8 20 0.34
9 2 0.03
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:33315317 original size:23 final size:22
Alignment explanation
Indices: 33315287--33315357 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 22
33315277 GGCCTCTCCA
33315287 TTTTTCTTTTTTCTTTTTTCTCT
1 TTTTTCTTTTTTCTTTTTT-TCT
33315310 TTTTTCTTTTTTCTTTTTTT-T
1 TTTTTCTTTTTTCTTTTTTTCT
33315331 TATTTT-TTTCTTT-TTTTTTTCT
1 T-TTTTCTTT-TTTCTTTTTTTCT
33315353 TTTTT
1 TTTTT
33315358 GTTTGAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
21 16 0.36
22 10 0.22
23 19 0.42
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.87
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTTTTTTCT
Found at i:33315355 original size:16 final size:16
Alignment explanation
Indices: 33315293--33315357 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
33315283 TCCATTTTTC
*
33315293 TTTTTTCTTTTTTCTC
1 TTTTTTCTTTTTTCTT
33315309 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTTCTT
*
33315325 TTTTTT-TATTTT-TT
1 TTTTTTCTTTTTTCTT
*
33315339 TCTTTT-TTTTTTCTT
1 TTTTTTCTTTTTTCTT
33315354 TTTT
1 TTTT
33315358 GTTTGAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.28
15 10 0.23
16 21 0.49
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTT
Found at i:33316779 original size:9 final size:8
Alignment explanation
Indices: 33316754--33316778 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33316744 TTATATATAA
33316754 TCTTTTTT
1 TCTTTTTT
33316762 TCTTTTTT
1 TCTTTTTT
33316770 TCTTTTTT
1 TCTTTTTT
33316778 T
1 T
33316779 TAAATGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:33320105 original size:46 final size:44
Alignment explanation
Indices: 33320046--33320160 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
33320036 ACAGGACAGA
* *
33320046 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
33320092 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
33320136 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
33320161 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:33320141 original size:44 final size:45
Alignment explanation
Indices: 33320046--33320179 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
33320036 ACAGGACAGA
* *
33320046 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
33320092 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
33320136 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
33320180 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:33326019 original size:18 final size:18
Alignment explanation
Indices: 33325996--33326034 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
33325986 TGAGATTCTC
33325996 AGACATGACTTACGGTGA
1 AGACATGACTTACGGTGA
33326014 AGACATGACTTACGGTGA
1 AGACATGACTTACGGTGA
33326032 AGA
1 AGA
33326035 ACCGATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (18 bp):
AGACATGACTTACGGTGA
Found at i:33327472 original size:46 final size:44
Alignment explanation
Indices: 33327413--33327527 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
33327403 ACAGGACAGA
* *
33327413 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
33327459 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
33327503 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
33327528 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:33327508 original size:44 final size:45
Alignment explanation
Indices: 33327413--33327546 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
33327403 ACAGGACAGA
* *
33327413 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
33327459 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
33327503 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
33327547 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:33330985 original size:17 final size:18
Alignment explanation
Indices: 33330934--33331092 Score: 207
Period size: 17 Copynumber: 8.8 Consensus size: 18
33330924 TAATATCTTT
*
33330934 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
* *
33330953 TAAGATTACAATCATATC
1 TAAGATTGCTATCATATC
33330971 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
33330988 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
33331006 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
33331023 AAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
33331041 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
33331058 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
33331077 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
33331093 TGAAGATTAT
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
17 47 0.38
18 46 0.37
19 30 0.24
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:33330989 original size:35 final size:35
Alignment explanation
Indices: 33330934--33331084 Score: 248
Period size: 35 Copynumber: 4.2 Consensus size: 35
33330924 TAATATCTTT
*
33330934 TAAGATTGTATATCATATCTAAGATTACAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
33330971 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
33331006 TAAGATTGTATCATATCAAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
33331041 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
33331077 TAAGATTG
1 TAAGATTG
33331085 CATATCATTG
Statistics
Matches: 109, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 86 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:33334771 original size:44 final size:46
Alignment explanation
Indices: 33334699--33334794 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 46
33334689 AATTCACAGC
**
33334699 CTTATC-TCTCTGAGGTAGCAAAAGAGCAGGTTAAAGATTAAAG-T
1 CTTATCTTCTCTGAGGTAGCAAAAGAGCAGACTAAAGATTAAAGAT
* * *
33334743 CTTATCTTCTC-GAGGTAGC-AAGGAAGCAGACTAAGGATTGAAGAT
1 CTTATCTTCTCTGAGGTAGCAAAAG-AGCAGACTAAAGATTAAAGAT
33334788 CTTATCT
1 CTTATCT
33334795 CCCAAAGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 3 0.07
44 29 0.66
45 12 0.27
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
CTTATCTTCTCTGAGGTAGCAAAAGAGCAGACTAAAGATTAAAGAT
Done.