Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold103
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: 2633873
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 16636 characters in sequence are not A, C, G, or T
File 15 of 21
Found at i:1651132 original size:33 final size:33
Alignment explanation
Indices: 1651052--1651133 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 33
1651042 TAATATTTAA
*
1651052 AATATTATATTTTTA-T-TATAAATTTTAATAT
1 AATATTATATTTATATTATATAAATTTTAATAT
*
1651083 ATTATTA-ATTTATATTATATAAATTTTAATAT
1 AATATTATATTTATATTATATAAATTTTAATAT
*
1651115 AATAATATATTTATATTAT
1 AATATTATATTTATATTAT
1651134 TTTTTCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 6 0.14
31 7 0.16
32 20 0.45
33 11 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
AATATTATATTTATATTATATAAATTTTAATAT
Found at i:1653607 original size:36 final size:36
Alignment explanation
Indices: 1653554--1653845 Score: 274
Period size: 36 Copynumber: 8.3 Consensus size: 36
1653544 GCCGGATACA
*
1653554 TTGCGCAGATCTATTGAGATACTTCCTCAGGAGACT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
* * ** *
1653590 TGGCGCAGACCTGTTGAGATACTTCCTTGGGAGCCT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
* * *
1653626 TTGCGCAGACATATTGACATACTTCCCCAGGAGACT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
* * *
1653662 TTGCACAGACCTATCGAGGTACTTCCTCAGGAGACT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
* *
1653698 TTGCGCAGA-C----G-TATACTTCCCCAGGAGACT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
* * * *
1653728 TTGCGCCGACCTACTGAGGTACTTCCTCGGGCA-ACT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGG-AGACT
* * * * *
1653764 TTGCGTAGGCATATTGAGATACTTCCCCAGGAGAAT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
* * * *
1653800 TTGCGCAGACCTATTGAGTTGCCTCCACAGGAGACT
1 TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
*
1653836 TTGCACAGAC
1 TTGCGCAGAC
1653846 ATACAGAGGT
Statistics
Matches: 201, Mismatches: 47, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
30 24 0.12
31 2 0.01
35 3 0.01
36 171 0.85
37 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (36 bp):
TTGCGCAGACCTATTGAGATACTTCCTCAGGAGACT
Found at i:1653671 original size:72 final size:71
Alignment explanation
Indices: 1653554--1653845 Score: 308
Period size: 72 Copynumber: 4.1 Consensus size: 71
1653544 GCCGGATACA
* * * * *
1653554 TTGCGCAGATCTATTGAGATACTTCCTCAGGAGACTTGGCGCAGACCTGTTGAGATACTTCCTTG
1 TTGCGCAGA-CTATTGAGATACTTCCCCAGGAGACTTTGCGCAGACCTATTGAGGTACTTCCTCG
*
1653619 GGAGCCT
65 GGAGACT
* * * *
1653626 TTGCGCAGACATATTGACATACTTCCCCAGGAGACTTTGCACAGACCTATCGAGGTACTTCCTCA
1 TTGCGCAGAC-TATTGAGATACTTCCCCAGGAGACTTTGCGCAGACCTATTGAGGTACTTCCTCG
1653691 GGAGACT
65 GGAGACT
* * *
1653698 TTGCGCAGAC----G-TATACTTCCCCAGGAGACTTTGCGCCGACCTACTGAGGTACTTCCTCGG
1 TTGCGCAGACTATTGAGATACTTCCCCAGGAGACTTTGCGCAGACCTATTGAGGTACTTCCTCGG
1653758 GCA-ACT
66 G-AGACT
* * * * * * * *
1653764 TTGCGTAGGCATATTGAGATACTTCCCCAGGAGAATTTGCGCAGACCTATTGAGTTGCCTCCACA
1 TTGCGCAGAC-TATTGAGATACTTCCCCAGGAGACTTTGCGCAGACCTATTGAGGTACTTCCTCG
1653829 GGAGACT
65 GGAGACT
*
1653836 TTGCACAGAC
1 TTGCGCAGAC
1653846 ATACAGAGGT
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
66 55 0.30
67 2 0.01
71 3 0.02
72 121 0.67
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (71 bp):
TTGCGCAGACTATTGAGATACTTCCCCAGGAGACTTTGCGCAGACCTATTGAGGTACTTCCTCGG
GAGACT
Found at i:1653831 original size:138 final size:138
Alignment explanation
Indices: 1653572--1653845 Score: 361
Period size: 138 Copynumber: 2.0 Consensus size: 138
1653562 ATCTATTGAG
* ** * *
1653572 ATACTTCCTCAGGAGACTTGGCGCAGACCTGTTGAGATACTTCCTTGGGAGCCTTTGCGCAGACA
1 ATACTTCCCCAGGAGACTTGGCGCAGACCTACTGAGATACTTCCTCGGGAGACTTTGCGCAGACA
* * *
1653637 TATTGACATACTTCCCCAGGAGACTTTGCACAGACCTATCGAGGTACTTCCTCAGGAGACTTTGC
66 TATTGACATACTTCCCCAGGAGAATTTGCACAGACCTATCGAGGTACCTCCACAGGAGACTTTGC
*
1653702 GCAGACGT
131 ACAGACGT
* * * * *
1653710 ATACTTCCCCAGGAGACTTTGCGCCGACCTACTGAGGTACTTCCTCGGGCA-ACTTTGCGTAGGC
1 ATACTTCCCCAGGAGACTTGGCGCAGACCTACTGAGATACTTCCTCGGG-AGACTTTGCGCAGAC
* * * * *
1653774 ATATTGAGATACTTCCCCAGGAGAATTTGCGCAGACCTATTGAGTTGCCTCCACAGGAGACTTTG
65 ATATTGACATACTTCCCCAGGAGAATTTGCACAGACCTATCGAGGTACCTCCACAGGAGACTTTG
1653839 CACAGAC
130 CACAGAC
1653846 ATACAGAGGT
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
138 115 0.99
139 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (138 bp):
ATACTTCCCCAGGAGACTTGGCGCAGACCTACTGAGATACTTCCTCGGGAGACTTTGCGCAGACA
TATTGACATACTTCCCCAGGAGAATTTGCACAGACCTATCGAGGTACCTCCACAGGAGACTTTGC
ACAGACGT
Found at i:1653867 original size:36 final size:36
Alignment explanation
Indices: 1653713--1653881 Score: 88
Period size: 36 Copynumber: 4.7 Consensus size: 36
1653703 CAGACGTATA
* * * * *
1653713 CTTCCCCAGGAGACTTTGCGCCGACCTACTGAGGTA
1 CTTCCCCAGGAGACTTTGCACAGACATACAGAGGTG
* * ** * ** * *
1653749 CTTCCTCGGGCA-ACTTTGCGTAGGCATATTGAGATA
1 CTTCCCCAGG-AGACTTTGCACAGACATACAGAGGTG
* * * ** *
1653785 CTTCCCCAGGAGAATTTGCGCAGACCTATTGAGTTG
1 CTTCCCCAGGAGACTTTGCACAGACATACAGAGGTG
* *
1653821 CCTCCACAGGAGACTTTGCACAGACATACAGAGGTG
1 CTTCCCCAGGAGACTTTGCACAGACATACAGAGGTG
* ** *
1653857 GTTCCCCAGGACCCATTGCACAGAC
1 CTTCCCCAGGAGACTTTGCACAGAC
1653882 CTATTAGCAT
Statistics
Matches: 101, Mismatches: 30, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
35 1 0.01
36 99 0.98
37 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (36 bp):
CTTCCCCAGGAGACTTTGCACAGACATACAGAGGTG
Found at i:1658706 original size:18 final size:19
Alignment explanation
Indices: 1658683--1658721 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1658673 TTACACGAAC
1658683 ATAATAAGAA-AAAAAAAT
1 ATAATAAGAATAAAAAAAT
* *
1658701 ATAATATGAATAAATAAAT
1 ATAATAAGAATAAAAAAAT
1658720 AT
1 AT
1658722 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAATAAGAATAAAAAAAT
Found at i:1658759 original size:32 final size:33
Alignment explanation
Indices: 1658699--1658769 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
1658689 AGAAAAAAAA
* *
1658699 ATATAATATGAATAAATAAATATTTTAAAATTT
1 ATATAATACGAATAAATAAATATATTAAAATTT
* *
1658732 ATATAATACGAGT-AATTAATATATTAAAATTT
1 ATATAATACGAATAAATAAATATATTAAAATTT
1658764 ATATAA
1 ATATAA
1658770 ATATAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 23 0.68
33 11 0.32
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (33 bp):
ATATAATACGAATAAATAAATATATTAAAATTT
Found at i:1659500 original size:2 final size:2
Alignment explanation
Indices: 1659495--1659565 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
1659485 TATATATATA
1659495 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
1659537 TG TG TG TG TG TG TG TA TG TG TG CG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1659566 ATCTGTATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.01, C:0.01, G:0.48, T:0.49
Consensus pattern (2 bp):
TG
Found at i:1660695 original size:219 final size:219
Alignment explanation
Indices: 1660316--1660722 Score: 706
Period size: 219 Copynumber: 1.9 Consensus size: 219
1660306 AAGAAACTAT
*
1660316 ATATATAACAAAAGTTATAAATACTTTCCAAGGGATTTTCAAAACATAATATTTCGTTGAATTTG
1 ATATATAACAAAAGTTATAAATACTTTCCAAGGGATTTTCAAAACATAATATTCCGTTGAATTTG
* * *
1660381 GGAGAAATTGGTAAGTGGAATAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAGGAGCTGG
66 GAAGAAATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGG
**
1660446 TCCTTAGTACCTATGGAAAGCAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTCAGCTTAG
131 TCCTTACCACCTATGGAAAGCAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTCAGCTTAG
1660511 CCTGATGATTTTTAAGAATATATA
196 CCTGATGATTTTTAAGAATATATA
* * *
1660535 ATATATAACTAGAGTTGTAAATACTTTCCAAGGGATTTTCAAAACATAATATTCCGTTGAATTTG
1 ATATATAACAAAAGTTATAAATACTTTCCAAGGGATTTTCAAAACATAATATTCCGTTGAATTTG
* * *
1660600 GAAGGAATTGGTAAGTTGAAGAATTTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGG
66 GAAGAAATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGG
1660665 TCCTTACCACCTATGGAAAGCAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTC
131 TCCTTACCACCTATGGAAAGCAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTC
1660723 CAAGGGATTG
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
219 176 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (219 bp):
ATATATAACAAAAGTTATAAATACTTTCCAAGGGATTTTCAAAACATAATATTCCGTTGAATTTG
GAAGAAATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGG
TCCTTACCACCTATGGAAAGCAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTCAGCTTAG
CCTGATGATTTTTAAGAATATATA
Found at i:1660825 original size:123 final size:123
Alignment explanation
Indices: 1660601--1660845 Score: 427
Period size: 123 Copynumber: 2.0 Consensus size: 123
1660591 TTGAATTTGG
* *
1660601 AAGGAATTGGTAAGTTGAAGAATTTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGGT
1 AAGGAATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGGT
*
1660666 CCTTACCACCTATGGAAAGCAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTCC
66 CCTTACCACCTATGGAAAGAAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTCC
* * *
1660724 AAGGGATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACGCAGTCTGAAGAGTTGGT
1 AAGGAATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGGT
*
1660789 CCTTAGCACCTATGGAAAGAAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTC
66 CCTTACCACCTATGGAAAGAAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTC
1660846 AGCTTAGCCA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 115 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (123 bp):
AAGGAATTGGTAAGTGGAAGAATGTTAGAAAAATCAAATGCACTAACACAGTCTGAAGAGCTGGT
CCTTACCACCTATGGAAAGAAGGTATGGGCTCTTCGTTGTGCTATTTTACAGAATTCC
Found at i:1662106 original size:23 final size:23
Alignment explanation
Indices: 1662068--1662126 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
1662058 TATTAAAAAA
*
1662068 TTTATATT-AATATTTATATATT
1 TTTATATTAAATATTTAAATATT
1662090 TTTATAATTAAAT-TTTAAATATT
1 TTTAT-ATTAAATATTTAAATATT
1662113 TTTATTATTAAATA
1 TTTA-TATTAAATA
1662127 GTAATTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.16
23 23 0.72
24 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATATTAAATATTTAAATATT
Found at i:1666012 original size:19 final size:20
Alignment explanation
Indices: 1665988--1666025 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1665978 TTTTTTTAAA
*
1665988 TTTTAAAATA-TTTAATATT
1 TTTTAAAAAATTTTAATATT
1666007 TTTTAAAAAATTTTAATAT
1 TTTTAAAAAATTTTAATAT
1666026 ATTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAAAATTTTAATATT
Found at i:1666015 original size:20 final size:19
Alignment explanation
Indices: 1665988--1666025 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
1665978 TTTTTTTAAA
1665988 TTTT-AAAATATTTAATATT
1 TTTTAAAAAT-TTTAATATT
1666007 TTTTAAAAAATTTTAATAT
1 TTTT-AAAAATTTTAATAT
1666026 ATTTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAAAAATTTTAATATT
Found at i:1668510 original size:12 final size:12
Alignment explanation
Indices: 1668495--1668532 Score: 53
Period size: 10 Copynumber: 3.2 Consensus size: 12
1668485 AATTTATTAA
1668495 TTTAATTATATT
1 TTTAATTATATT
1668507 TTT-ATT-TATT
1 TTTAATTATATT
1668517 TTTAATATATATT
1 TTTAAT-TATATT
1668530 TTT
1 TTT
1668533 TAATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.30
11 5 0.22
12 4 0.17
13 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTAATTATATT
Found at i:1668534 original size:24 final size:23
Alignment explanation
Indices: 1668486--1668532 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1668476 GATTCTAATA
1668486 ATTTATTAATTTAATTATATTTTT
1 ATTTATT-ATTTAATTATATTTTT
1668510 ATTTATT-TTTAATATATATTTTT
1 ATTTATTATTTAAT-TATATTTTT
1668533 TAATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTATTATTTAATTATATTTTT
Found at i:1670070 original size:17 final size:17
Alignment explanation
Indices: 1670041--1670085 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
1670031 TTTTATTTTA
*
1670041 AAAATAATA-ATTTAAT
1 AAAATTATATATTTAAT
1670057 AAAATTATATATTTAAT
1 AAAATTATATATTTAAT
* *
1670074 ATAATTAAATAT
1 AAAATTATATAT
1670086 CTTACAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTATATATTTAAT
Found at i:1670727 original size:22 final size:24
Alignment explanation
Indices: 1670684--1670731 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1670674 ATATTTTATA
1670684 TTTTTATAATTAAATTTAAATAATT
1 TTTTTATAATTAAA-TTAAATAATT
*
1670709 TTTTTATATTTAAA-T-AATAATT
1 TTTTTATAATTAAATTAAATAATT
1670731 T
1 T
1670732 AAGCTGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
25 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTATAATTAAATTAAATAATT
Found at i:1670872 original size:24 final size:23
Alignment explanation
Indices: 1670816--1670882 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
1670806 TAGGCCTAGT
1670816 AATA-TTAAATATGAA-AT-AAAA
1 AATACTTAAATAT-AATATAAAAA
*
1670837 AATAGTTAAAATATAATATAAAAA
1 AATACTT-AAATATAATATAAAAA
*
1670861 AATAACTTAAATATGATATAAA
1 AAT-ACTTAAATATAATATAAA
1670883 TATACGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.10
22 4 0.10
23 8 0.21
24 20 0.51
25 3 0.08
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACTTAAATATAATATAAAAA
Found at i:1671106 original size:33 final size:30
Alignment explanation
Indices: 1671068--1671146 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 30
1671058 ATAATAATAC
1671068 AAATATTATATAAATATACGAATGTATCAAAA
1 AAATATTATATAAATATACGAATGTATC--AA
* ** *
1671100 TAAATATGATATAAAT-TATTAATTTATCAA
1 -AAATATTATATAAATATACGAATGTATCAA
1671130 AAAT-TTATATAAATATA
1 AAATATTATATAAATATA
1671147 TTATTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 9 0.22
29 6 0.15
30 2 0.05
32 9 0.22
33 14 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (30 bp):
AAATATTATATAAATATACGAATGTATCAA
Found at i:1674002 original size:12 final size:12
Alignment explanation
Indices: 1673985--1674009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1673975 AGCCAAATTT
1673985 AGTGCTTAACTC
1 AGTGCTTAACTC
1673997 AGTGCTTAACTC
1 AGTGCTTAACTC
1674009 A
1 A
1674010 AGTCAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (12 bp):
AGTGCTTAACTC
Found at i:1683258 original size:15 final size:15
Alignment explanation
Indices: 1683240--1683296 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
1683230 TTGATTTTAT
1683240 TATTATAAATTTAAA
1 TATTATAAATTTAAA
*
1683255 TATTATGAATTTAAA
1 TATTATAAATTTAAA
* *
1683270 TAAATTTTAAATATAAA
1 T--ATTATAAATTTAAA
1683287 TATTA-AAATT
1 TATTATAAATT
1683297 ATTGTTCAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.12
15 18 0.53
17 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TATTATAAATTTAAA
Found at i:1683557 original size:17 final size:17
Alignment explanation
Indices: 1683533--1683643 Score: 63
Period size: 17 Copynumber: 6.5 Consensus size: 17
1683523 TTTTTGTAAC
1683533 TAAT-AATTTAAATATT
1 TAATAAATTTAAATATT
*
1683549 TAATAAATTTATATATT
1 TAATAAATTTAAATATT
* * *
1683566 TAATTAATATT-ATTATC
1 TAATAAAT-TTAAATATT
1683583 TAATTTAAATTTAAA-ATT
1 TAA--TAAATTTAAATATT
*
1683601 AATAATAAA--TAAATAAT
1 --TAATAAATTTAAATATT
* *
1683618 AAATTAATTTAAATA-T
1 TAATAAATTTAAATATT
1683634 TATATAAATT
1 TA-ATAAATT
1683644 AATCAAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
15 5 0.07
16 10 0.14
17 38 0.54
18 10 0.14
19 5 0.07
20 3 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATAAATTTAAATATT
Found at i:1683632 original size:21 final size:22
Alignment explanation
Indices: 1683596--1683646 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1683586 TTTAAATTTA
1683596 AAATTAATAATAAATAA-ATAAT
1 AAATTAATAATAAATAATAT-AT
* *
1683618 AAATTAAT-TTAAATATTATAT
1 AAATTAATAATAAATAATATAT
1683639 AAATTAAT
1 AAATTAAT
1683647 CAAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATTAATAATAAATAATATAT
Found at i:1683998 original size:16 final size:19
Alignment explanation
Indices: 1683963--1684001 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
1683953 TTTAAATTTT
1683963 ATTTAAATTATAAATAATA
1 ATTTAAATTATAAATAATA
1683982 ATTTAAA-TA-AAAT-ATA
1 ATTTAAATTATAAATAATA
1683998 ATTT
1 ATTT
1684002 TAACTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 4 0.20
18 2 0.10
19 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAAATTATAAATAATA
Found at i:1685452 original size:52 final size:49
Alignment explanation
Indices: 1685365--1685469 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 49
1685355 AAAATTAAAT
1685365 AATTTAAATATATAATTTATTTTATTTAGATTTATTTATTTAATAAAAGTA
1 AATTTAAATATATAATTTATTTTATTTAGATTTATTTATTT--TAAAAGTA
*
1685416 AATTTAAAT-TATATATTTAATTTTAAGTTTA-A-TTATTTATTTTAAAATTA
1 AATTTAAATATATA-ATTT-ATTTT-A-TTTAGATTTATTTATTTTAAAAGTA
1685466 AATT
1 AATT
1685470 CGAATTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
50 15 0.31
51 13 0.27
52 15 0.31
53 2 0.04
54 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (49 bp):
AATTTAAATATATAATTTATTTTATTTAGATTTATTTATTTTAAAAGTA
Found at i:1685466 original size:19 final size:20
Alignment explanation
Indices: 1685429--1685466 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1685419 TTAAATTATA
**
1685429 TATTTAATTTTAAGTTTAAT
1 TATTTAATTTTAAAATTAAT
1685449 TATTT-ATTTTAAAATTAA
1 TATTTAATTTTAAAATTAA
1685467 ATTCGAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTTAATTTTAAAATTAAT
Found at i:1685466 original size:25 final size:26
Alignment explanation
Indices: 1685396--1685469 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
1685386 TTATTTAGAT
*
1685396 TTATTTATTTAATAAAAGTAAATTTAAA
1 TTATTTATTT--TAAAATTAAATTTAAA
* ** *
1685424 TTATATA-TTTAATTTTAAGTTT-AA
1 TTATTTATTTTAAAATTAAATTTAAA
1685448 TTATTTATTTTAAAATTAAATT
1 TTATTTATTTTAAAATTAAATT
1685470 CGAATTTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
24 8 0.22
25 20 0.56
27 2 0.06
28 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (26 bp):
TTATTTATTTTAAAATTAAATTTAAA
Found at i:1688102 original size:19 final size:18
Alignment explanation
Indices: 1688078--1688114 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1688068 CTTGTCTCAT
*
1688078 TTTATTTTATATTATTTTA
1 TTTATTTTAAATT-TTTTA
1688097 TTTATTTTAAATTTTTTA
1 TTTATTTTAAATTTTTTA
1688115 AAATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTAAATTTTTTA
Found at i:1688916 original size:22 final size:21
Alignment explanation
Indices: 1688867--1688917 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
1688857 ATATTATAAT
*
1688867 ATATATTTATATTATAAAAAA
1 ATATATTTATATAATAAAAAA
* *
1688888 ATA-ATTTTTATAATAGAAAA
1 ATATATTTATATAATAAAAAA
1688908 ATACTATTTA
1 ATA-TATTTA
1688918 AATCAAGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 17 0.71
21 3 0.12
22 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATATTTATATAATAAAAAA
Found at i:1688990 original size:18 final size:17
Alignment explanation
Indices: 1688969--1689008 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1688959 ATTTCGATTC
*
1688969 TTTTTAAAATAAATTTTA
1 TTTTT-AAATAAAATTTA
*
1688987 TTTTTAATTAAAATTTA
1 TTTTTAAATAAAATTTA
1689004 TTTTT
1 TTTTT
1689009 TATTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAAATAAAATTTA
Found at i:1689006 original size:22 final size:22
Alignment explanation
Indices: 1688972--1689015 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1688962 TCGATTCTTT
1688972 TTAAAATAAATTTTATT-TTTAA
1 TTAAAATAAATTTT-TTATTTAA
**
1688994 TTAAAATTTATTTTTTATTTAA
1 TTAAAATAAATTTTTTATTTAA
1689016 ATTTTTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTAAAATAAATTTTTTATTTAA
Found at i:1689009 original size:18 final size:17
Alignment explanation
Indices: 1688978--1689019 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1688968 CTTTTTAAAA
*
1688978 TAAATTTTATTTTTAAT
1 TAAAATTTATTTTTAAT
*
1688995 TAAAATTTATTTTTTAT
1 TAAAATTTATTTTTAAT
*
1689012 TTAAATTT
1 TAAAATTT
1689020 TTTCTAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAAAATTTATTTTTAAT
Found at i:1689541 original size:26 final size:26
Alignment explanation
Indices: 1689504--1689556 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
1689494 TAAAAGTTAC
*
1689504 TAAATCATATTTTTTA-TTACATTTTT
1 TAAATCATATTTTTAACTTA-ATTTTT
1689530 TAAATACA-ATTTTTAACTTAATTTTT
1 TAAAT-CATATTTTTAACTTAATTTTT
1689556 T
1 T
1689557 TTTAATCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (26 bp):
TAAATCATATTTTTAACTTAATTTTT
Found at i:1694129 original size:12 final size:12
Alignment explanation
Indices: 1694112--1694136 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1694102 TAAATTACCC
1694112 AGAAAGCACTCT
1 AGAAAGCACTCT
1694124 AGAAAGCACTCT
1 AGAAAGCACTCT
1694136 A
1 A
1694137 AATTAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (12 bp):
AGAAAGCACTCT
Found at i:1698638 original size:23 final size:23
Alignment explanation
Indices: 1698597--1698647 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1698587 AAAATTATTT
* * *
1698597 ATTTATTATAATTATTATTGATA
1 ATTTATTAAAATAAATATTGATA
* *
1698620 ATTTATTAAAATAAATATTTATT
1 ATTTATTAAAATAAATATTGATA
1698643 ATTTA
1 ATTTA
1698648 ATTATTACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTATTAAAATAAATATTGATA
Found at i:1698662 original size:41 final size:41
Alignment explanation
Indices: 1698579--1698662 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 41
1698569 CAAATAATGT
* *
1698579 ATTTTTAAAAAATTATTTATTTATTATAATTATTATTGATA
1 ATTTTTAAAAAAATATTTATTTATTATAATTATTAATGATA
1698620 ATTTATTAAAATAAATATTTA-TTATT-TAATTATTACAT-ATA
1 ATTT-TTAAAA-AAATATTTATTTATTATAATTATTA-ATGATA
1698661 AT
1 AT
1698663 ACAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 18 0.47
42 12 0.32
43 8 0.21
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (41 bp):
ATTTTTAAAAAAATATTTATTTATTATAATTATTAATGATA
Found at i:1698751 original size:23 final size:23
Alignment explanation
Indices: 1698721--1698784 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
1698711 AATTTTATTT
1698721 ATTTATTATAAT-AATAATTTATA
1 ATTTATTATAATAAAT-ATTTATA
* *
1698744 ATTTATTAAAATAAATATTTATT
1 ATTTATTATAATAAATATTTATA
*
1698767 ATTTAATTTTAATAAATA
1 ATTT-ATTATAATAAATA
1698785 AAAAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.60
24 14 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTATTATAATAAATATTTATA
Found at i:1699055 original size:21 final size:21
Alignment explanation
Indices: 1699022--1699061 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1699012 TAATATTTAT
*
1699022 AAAAAATTAATT-AATGAATG
1 AAAAAAATAATTAAATGAATG
1699042 AAAAAAATACATTAAATGAA
1 AAAAAAATA-ATTAAATGAA
1699062 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
AAAAAAATAATTAAATGAATG
Found at i:1699334 original size:21 final size:22
Alignment explanation
Indices: 1699288--1699345 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
1699278 TATTTAATTT
*
1699288 TTATAT-AATAAAAATTATATA
1 TTATATAAATAAAAAATATATA
* *
1699309 ATATATAAATAAAAAATA-ATG
1 TTATATAAATAAAAAATATATA
*
1699330 TTATATAATTAAAAAA
1 TTATATAAATAAAAAA
1699346 AATACTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TTATATAAATAAAAAATATATA
Found at i:1700128 original size:11 final size:12
Alignment explanation
Indices: 1700112--1700140 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1700102 TCAAAATACT
1700112 ATTATTT-TAAA
1 ATTATTTATAAA
1700123 ATTATTTATAAA
1 ATTATTTATAAA
1700135 ATTATT
1 ATTATT
1700141 GCTGTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTTATAAA
Found at i:1700438 original size:32 final size:32
Alignment explanation
Indices: 1700395--1700475 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
1700385 AAGCATGCTT
* *
1700395 TACCCATTTTAGCGCATCCACGTAGGATGCGC
1 TACCCACTTTAGCGCATCCACGTAGAATGCGC
1700427 TACCCACTTTAGCGCATCCACGTAGAATGCGC
1 TACCCACTTTAGCGCATCCACGTAGAATGCGC
*
1700459 TACTCACTTTAGCGCAT
1 TACCCACTTTAGCGCAT
1700476 TCTTTCTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (32 bp):
TACCCACTTTAGCGCATCCACGTAGAATGCGC
Found at i:1700844 original size:15 final size:15
Alignment explanation
Indices: 1700824--1700863 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1700814 TATTATGTGG
*
1700824 AATTAGGTTTAGTG-T
1 AATTA-GTTTAGCGAT
1700839 AATTAGTTTAGCGAT
1 AATTAGTTTAGCGAT
1700854 AATTAGTTTA
1 AATTAGTTTA
1700864 AAGCCTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (15 bp):
AATTAGTTTAGCGAT
Found at i:1710238 original size:32 final size:33
Alignment explanation
Indices: 1710192--1710253 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
1710182 TCAATTACTA
* *
1710192 TATATTTATATAAATTTTAATACGTTAATAATT
1 TATATTTACATAAATTTTAACACGTTAATAATT
1710225 TATA-TTACATAAATTTTAACACGTTAATA
1 TATATTTACATAAATTTTAACACGTTAATA
1710254 TGTCGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (33 bp):
TATATTTACATAAATTTTAACACGTTAATAATT
Found at i:1712884 original size:23 final size:21
Alignment explanation
Indices: 1712853--1712894 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
1712843 ATTTATAAAA
1712853 TTATGTTATTTTTATATTATTTT
1 TTATGTTA-TTTTA-ATTATTTT
*
1712876 TTATTTTATTTTAATTATT
1 TTATGTTATTTTAATTATT
1712895 GATCAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATGTTATTTTAATTATTTT
Found at i:1713527 original size:16 final size:16
Alignment explanation
Indices: 1713488--1713533 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1713478 ATTATTTAAT
*
1713488 TTTAATTTTAAAAATA
1 TTTAATATTAAAAATA
* *
1713504 TTTAAATATTAATATTA
1 TTT-AATATTAAAAATA
1713521 TTTAATATTAAAA
1 TTTAATATTAAAA
1713534 TAAACTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAATATTAAAAATA
Found at i:1713886 original size:32 final size:33
Alignment explanation
Indices: 1713830--1713891 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1713820 ATTTTATTTA
1713830 AAATATTATATATTTATATAAATTTTAATAAAT
1 AAATATTATATATTTATATAAATTTTAATAAAT
*
1713863 AAATAATT-TATA-TTATATCAATTTTAATA
1 AAAT-ATTATATATTTATATAAATTTTAATA
1713892 TATTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 16 0.59
33 8 0.30
34 3 0.11
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
AAATATTATATATTTATATAAATTTTAATAAAT
Found at i:1713913 original size:25 final size:27
Alignment explanation
Indices: 1713885--1713937 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1713875 TTATATCAAT
1713885 TTTAATATA-T-TTATATAAAATTTTA
1 TTTAATATATTATTATATAAAATTTTA
* * *
1713910 TTTATTTTATTATTATATAATATTTTA
1 TTTAATATATTATTATATAAAATTTTA
1713937 T
1 T
1713938 ATTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 1 0.04
27 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTAATATATTATTATATAAAATTTTA
Found at i:1713915 original size:20 final size:20
Alignment explanation
Indices: 1713866--1713916 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1713856 AATAAATAAA
*
1713866 TAATTTATATTATATCAATTT
1 TAATTTAT-TTATATAAATTT
*
1713887 TAATATATTTATATAAAATTT
1 TAATTTATTTATAT-AAATTT
1713908 T-ATTTATTT
1 TAATTTATTT
1713917 TATTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATTTATTTATATAAATTT
Found at i:1713918 original size:21 final size:20
Alignment explanation
Indices: 1713868--1713919 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
1713858 TAAATAAATA
* *
1713868 ATTTATATTATATCAATTTT
1 ATTTATTTTATATAAATTTT
*
1713888 A-ATATATTTATATAAAATTTT
1 ATTTAT-TTTATAT-AAATTTT
1713909 ATTTATTTTAT
1 ATTTATTTTAT
1713920 TATTATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 3 0.12
20 7 0.28
21 12 0.48
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTATTTTATATAAATTTT
Found at i:1713942 original size:20 final size:21
Alignment explanation
Indices: 1713917--1713965 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
1713907 TTATTTATTT
*
1713917 TATTATTATATAA-TATTTTA
1 TATTATAATATAATTATTTTA
* *
1713937 TATTATAATTTAATTATTTTT
1 TATTATAATATAATTATTTTA
*
1713958 TAATATAA
1 TATTATAA
1713966 GGTGGTAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATAATATAATTATTTTA
Found at i:1713954 original size:39 final size:39
Alignment explanation
Indices: 1713887--1713964 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
1713877 ATATCAATTT
* *
1713887 TAATATATTTATATAAAATTTTATTTATTTTATTATTATA
1 TAATATATTTATATAAAATTTTAATTATTTT-TTAATATA
*
1713927 TAATAT-TTTATATTATAA-TTTAATTATTTTTTAATATA
1 TAATATATTTATA-TAAAATTTTAATTATTTTTTAATATA
1713965 AGGTGGTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.21
39 17 0.50
40 10 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (39 bp):
TAATATATTTATATAAAATTTTAATTATTTTTTAATATA
Found at i:1714213 original size:7 final size:7
Alignment explanation
Indices: 1714201--1714229 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1714191 TAAAATAAAA
1714201 TAAATTT
1 TAAATTT
1714208 TAAATTT
1 TAAATTT
1714215 TAAATTT
1 TAAATTT
1714222 TAAATTT
1 TAAATTT
1714229 T
1 T
1714230 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAAATTT
Found at i:1714455 original size:21 final size:22
Alignment explanation
Indices: 1714403--1714501 Score: 50
Period size: 21 Copynumber: 4.6 Consensus size: 22
1714393 TTATTTTAAT
* *
1714403 ATATTA-ATAATTTATATCAATAA
1 ATATTATAT-ATTTATAT-ATTTA
*
1714426 ATTTTATATA-TT-TATATATTA
1 ATATTATATATTTATATAT-TTA
*
1714447 ATA-T-TATATTTATA-ACTTTT
1 ATATTATATATTTATATA-TTTA
* * *
1714467 ATATTAT-TTTTTATTTATTTT
1 ATATTATATATTTATATATTTA
1714488 ATATTATATATTTA
1 ATATTATATATTTA
1714502 AAATTATTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
19 4 0.07
20 10 0.17
21 28 0.47
22 9 0.15
23 6 0.10
24 2 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTATATATTTATATATTTA
Found at i:1714487 original size:9 final size:10
Alignment explanation
Indices: 1714426--1714494 Score: 51
Period size: 11 Copynumber: 7.2 Consensus size: 10
1714416 ATATCAATAA
1714426 ATTTTATA-T
1 ATTTTATATT
1714435 A-TTTATA-T
1 ATTTTATATT
*
1714443 A-TTAATATT
1 ATTTTATATT
1714452 ATATTTATA--
1 AT-TTTATATT
1714461 ACTTTTATATT
1 A-TTTTATATT
*
1714472 ATTTTTTATTT
1 ATTTTATA-TT
1714483 ATTTTATATT
1 ATTTTATATT
1714493 AT
1 AT
1714495 ATATTTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 13 0.27
9 10 0.20
10 11 0.22
11 15 0.31
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTATATT
Found at i:1714490 original size:36 final size:36
Alignment explanation
Indices: 1714389--1714497 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 36
1714379 CTTTCTTTGT
**
1714389 ATTTT-TAT-TTTAATATATTAATAATTTATATCAATAA
1 ATTTTATATATTT-ATATATTAAT--TTTATATTTATAA
*
1714426 ATTTTATATATTTATATATTAATATTATATTTATAA
1 ATTTTATATATTTATATATTAATTTTATATTTATAA
* * *
1714462 CTTTTATATTATTT-TTTATTTATTTTATATTATATA
1 ATTTTATA-TATTTATATATTAATTTTATATT-TATA
1714498 TTTAAAATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
36 31 0.51
37 14 0.23
38 13 0.21
39 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (36 bp):
ATTTTATATATTTATATATTAATTTTATATTTATAA
Found at i:1714508 original size:55 final size:58
Alignment explanation
Indices: 1714426--1714543 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 58
1714416 ATATCAATAA
* * *
1714426 ATTTTATATATTTATATATTAATATTATATTTA-TAACTTTT-A-T-ATTATTTTTTATTT
1 ATTTTATATATATATATATTAAAATTAT-TTGATTAA-TTTTCATTCATTATTTTTT-TTT
1714483 ATTTTATAT-TATATAT-TTAAAATTATTTGATTAATTTTCATTCATTATTTTTTTTT
1 ATTTTATATATATATATATTAAAATTATTTGATTAATTTTCATTCATTATTTTTTTTT
1714539 ATTTT
1 ATTTT
1714544 CTTTGGTGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
54 7 0.13
55 13 0.24
56 15 0.28
57 19 0.35
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (58 bp):
ATTTTATATATATATATATTAAAATTATTTGATTAATTTTCATTCATTATTTTTTTTT
Found at i:1714681 original size:11 final size:11
Alignment explanation
Indices: 1714655--1714687 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
1714645 CATATTTCAT
1714655 TATTTTTAAAA
1 TATTTTTAAAA
1714666 T-TTTTTAAAA
1 TATTTTTAAAA
*
1714676 TATTTTAAAAA
1 TATTTTTAAAA
1714687 T
1 T
1714688 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:1715347 original size:3 final size:3
Alignment explanation
Indices: 1715339--1715373 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1715329 CATTCTTTTA
1715339 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1715374 ATTTTCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1716668 original size:18 final size:15
Alignment explanation
Indices: 1716635--1716677 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
1716625 TAATGAACGC
1716635 AATATAAAAATATAA
1 AATATAAAAATATAA
1716650 AATATAATAAATATTTAA
1 AATATAA-AAATA--TAA
1716668 AATA-AAAAAT
1 AATATAAAAAT
1716678 TGTAATAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 2 0.08
18 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAAATATAA
Found at i:1723139 original size:3 final size:3
Alignment explanation
Indices: 1723131--1723156 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1723121 TTGATTTAAA
1723131 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1723157 AATGCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1723272 original size:32 final size:32
Alignment explanation
Indices: 1723236--1723300 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
1723226 TAAATTTAAA
* * *
1723236 ATATTTATAAATATTTTAAA-ATTTATATTATT
1 ATATTTATAAA-AATATAAATATTTAAATTATT
*
1723268 ATATTTTTAAAAATATAAATATTTAAATTATT
1 ATATTTATAAAAATATAAATATTTAAATTATT
1723300 A
1 A
1723301 ACATACGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
ATATTTATAAAAATATAAATATTTAAATTATT
Found at i:1723284 original size:22 final size:22
Alignment explanation
Indices: 1723233--1723284 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1723223 TTATAAATTT
1723233 AAAATAT-TTATAAATATTTTA
1 AAAATATATTATAAATATTTTA
* *
1723254 AAATTTATATTAT-TATATTTTTA
1 AAA-ATATATTATAAATA-TTTTA
1723277 AAAATATA
1 AAAATATA
1723285 AATATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
23 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATATATTATAAATATTTTA
Found at i:1724594 original size:70 final size:70
Alignment explanation
Indices: 1724513--1724654 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
1724503 TTTTATGTTA
*
1724513 ATTATTTATTATAATATTTTTATGCATTATTTTTTTTAATTTTATGAATTATTTTATTATTTAAA
1 ATTATTTATTATAATATTTTTATACATTATTTTTTTTAATTTTATGAATTATTTTATTATTTAAA
1724578 AGACC
66 AGACC
1724583 ATTATTTATTATAATATTTTTATACATTATTTTTTTTAATTTTATGAATTATTTTATTATTTAAA
1 ATTATTTATTATAATATTTTTATACATTATTTTTTTTAATTTTATGAATTATTTTATTATTTAAA
1724648 AGACC
66 AGACC
1724653 AT
1 AT
1724655 CTCTCTTACA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (70 bp):
ATTATTTATTATAATATTTTTATACATTATTTTTTTTAATTTTATGAATTATTTTATTATTTAAA
AGACC
Found at i:1724645 original size:25 final size:24
Alignment explanation
Indices: 1724503--1724646 Score: 90
Period size: 22 Copynumber: 6.0 Consensus size: 24
1724493 TTTTGAATTT
* *
1724503 TTTTATGTTAATTATTTATTATAATAT
1 TTTTATG--AATTATTTATTAT-TTAA
*
1724530 TTTTATGCATTATTT-TT-TTTAA
1 TTTTATGAATTATTTATTATTTAA
1724552 TTTTATGAATTATTTTATTATTTAA
1 TTTTATGAATTA-TTTATTATTTAA
* * *
1724577 ----AAGACCATTATTTATTATAATAT
1 TTTTATGA--ATTATTTATTAT-TTAA
1724600 TTTTAT-ACATTATTT-TT-TTTAA
1 TTTTATGA-ATTATTTATTATTTAA
1724622 TTTTATGAATTATTTTATTATTTAA
1 TTTTATGAATTA-TTTATTATTTAA
1724647 AAGACCATCT
Statistics
Matches: 93, Mismatches: 10, Indels: 30
0.70 0.08 0.23
Matches are distributed among these distances:
21 3 0.03
22 33 0.35
23 15 0.16
24 8 0.09
25 25 0.27
26 1 0.01
27 8 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATGAATTATTTATTATTTAA
Found at i:1726510 original size:512 final size:512
Alignment explanation
Indices: 1725563--1726513 Score: 1141
Period size: 517 Copynumber: 1.9 Consensus size: 512
1725553 ATTTTAGATC
*
1725563 TTATATCAATTTTGATACATTAATAATTTGAGTTATATATATTTTAAGTTATGTATTCATATCAT
1 TTATATCAATTTTGATACATTAATAATTTGAGTTATATAGATTTTAAGTTATGTATTCATATCAT
* * * * * *
1725628 ATCATATCATGTTTTGATGACTCTATAGGTGTCATATTCGTTTAATTGTATATAAAATTATCAAG
66 ATCATATCATGTTTTAATGACTCTATACGTATCATATTCATGTAATTATATATAAAATTATCAAG
*
1725693 TCTGGTTTTTTTTCTTATCCATAAACACATTATCATAAATATCACAACTCGAAAAAGGTTGAAAT
131 TCTAGTTTTTTTTCTTATCCATAAACACA-TATCATAAATATCACAACTCGAAAAAGGTTGAAAT
* * **
1725758 CTTAATAGACTAAAATAAAAAGTTTAATCCTGATCTATTCAAGTATTAATAAGTTTTGATCCCAA
195 CTTAATAGACTAAAATAAAAAGTTTAATCCTGATCCACTCAAGTACAAATAAGTTTTGATCCCAA
* * * *
1725823 ATTGCATGTTTCGTCTGTACCTTTTAAGATATCTTCAAAAATAAAAATAAATTATATATATATGA
260 ATTGCACGTTTCGTCTATACCTTTTAAGATATCTT--AAAATAAAAATAAATGAAATATATATGA
* * * * *
1725888 TAATCTTTTAAGTTCACTTGTGAAATTGAAAAACTCAAAAATGAATGTACAAAAAAATTAACTTG
323 TAATCTCTTAAATTCACTTGTGAAATTAAAAAACTCAAAAATGAATGTACAAAAAAACTAACTCG
* * *
1725953 GCGTATCACTCACTTTTTTAAGGGATATTTCGTAAACTCAAAATTTTTATAGACCTAACAATGCG
388 ACGTATCACTCACATTTTTAAGGGACATTTCGTAAACTCAAAATTTTTATAGACCTAACAATGCG
1726018 TTGTATTCATATTATGATCGTGTATTTATCATGTCATAATTATCTTTAAGGTATTTATAT
453 TTGTATTCATATTATGATCGTGTATTTATCATGTCATAATTATCTTTAAGGTATTTATAT
* * *
1726078 TTATATCAACTTTTG-TACATTAATAATTTGTGTTATATAGATTTTAAGTTATGTATT-TTATCG
1 TTATATCAA-TTTTGATACATTAATAATTTGAGTTATATAGATTTTAAGTTATGTATTCATATCA
* ** * ** * * *
1726141 TGTTTTGTGGTGTTTTAATGACTTTATACGTATCATATTCATGTAATTATATCTAAAATTGTCAA
65 TATCATATCATGTTTTAATGACTCTATACGTATCATATTCATGTAATTATATATAAAATTATCAA
* * * * **
1726206 GTCTAATTTTTTTTTAACACTTGTCCGTAAACAC-TATTATAAATATCACAACTCGAAAAATTTT
130 GTCT-AGTTTTTTTT----CTTATCCATAAACACATATCATAAATATCACAACTCGAAAAAGGTT
* * * ** * * *
1726270 GAAGTTTTAATTGACTGGAATAAAATA-TTTGATCTTGATCCACTCAAGTACAAATAGGTTTTGA
190 GAAATCTTAATAGACTAAAATAAAA-AGTTTAATCCTGATCCACTCAAGTACAAATAAGTTTTGA
* * * * * **
1726334 TCCCAAATTGCGCGTTTGGTCTATATCTTTTATGGTA-CTT-TTA-AAAAATAAATGAAATATAT
254 TCCCAAATTGCACGTTTCGTCTATACCTTTTAAGATATCTTAAAATAAAAATAAATGAAATATAT
* * * *
1726396 ATGATAGTGTCTTAAATTTACTTGTGAAATTAAAAAACTCAAAAACT-AATGTA-TAAAAAACTA
319 ATGATAATCTCTTAAATTCACTTGTGAAATTAAAAAACTCAAAAA-TGAATGTACAAAAAAACTA
*
1726459 ACTCGACGTATCCCAT-ACATTTTTAAGGGACATTTTCGTAAA-TCTAAAATTTTTA
383 ACTCGACGTATCAC-TCACATTTTTAAGGGACA-TTTCGTAAACTC-AAAATTTTTA
1726514 AATTATTTTT
Statistics
Matches: 363, Mismatches: 62, Indels: 25
0.81 0.14 0.06
Matches are distributed among these distances:
511 35 0.10
512 82 0.23
513 2 0.01
514 58 0.16
515 57 0.16
516 8 0.02
517 107 0.29
518 1 0.00
519 13 0.04
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (512 bp):
TTATATCAATTTTGATACATTAATAATTTGAGTTATATAGATTTTAAGTTATGTATTCATATCAT
ATCATATCATGTTTTAATGACTCTATACGTATCATATTCATGTAATTATATATAAAATTATCAAG
TCTAGTTTTTTTTCTTATCCATAAACACATATCATAAATATCACAACTCGAAAAAGGTTGAAATC
TTAATAGACTAAAATAAAAAGTTTAATCCTGATCCACTCAAGTACAAATAAGTTTTGATCCCAAA
TTGCACGTTTCGTCTATACCTTTTAAGATATCTTAAAATAAAAATAAATGAAATATATATGATAA
TCTCTTAAATTCACTTGTGAAATTAAAAAACTCAAAAATGAATGTACAAAAAAACTAACTCGACG
TATCACTCACATTTTTAAGGGACATTTCGTAAACTCAAAATTTTTATAGACCTAACAATGCGTTG
TATTCATATTATGATCGTGTATTTATCATGTCATAATTATCTTTAAGGTATTTATAT
Found at i:1728041 original size:18 final size:19
Alignment explanation
Indices: 1727997--1728044 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
1727987 TTTTTATTTA
1727997 ATTTTAATTATAAAATATAT
1 ATTTTAA-TATAAAATATAT
*
1728017 ATATTAATATAAAA-ATAT
1 ATTTTAATATAAAATATAT
*
1728035 TTTTTAATAT
1 ATTTTAATAT
1728045 TTTATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.48
19 7 0.28
20 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTAATATAAAATATAT
Found at i:1728363 original size:11 final size:11
Alignment explanation
Indices: 1728347--1728392 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
1728337 AAAAATATAT
1728347 TTAAATATAAA
1 TTAAATATAAA
*
1728358 TTAAATATTAA
1 TTAAATATAAA
*
1728369 --AAATAT-AT
1 TTAAATATAAA
1728377 TTAAATATAAA
1 TTAAATATAAA
1728388 TTAAA
1 TTAAA
1728393 AATTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 6 0.21
10 6 0.21
11 16 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TTAAATATAAA
Found at i:1728412 original size:29 final size:30
Alignment explanation
Indices: 1728335--1728427 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
1728325 TAAATTTATT
*
1728335 TTAAAAATATATTTAAATATAAATTAAATA
1 TTAAAAATATATTTAAATATAAATTAAAAA
1728365 TTAAAAATATATTTAAATATAAATTAAAAA
1 TTAAAAATATATTTAAATATAAATTAAAAA
* * * *
1728395 TT-TAAATTTATTTGAATATAAATTAAAAG
1 TTAAAAATATATTTAAATATAAATTAAAAA
1728424 TTAA
1 TTAA
1728428 CAATTAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.45
30 31 0.55
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
TTAAAAATATATTTAAATATAAATTAAAAA
Found at i:1729001 original size:24 final size:22
Alignment explanation
Indices: 1728932--1729003 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 22
1728922 TTAAAATTAC
* *
1728932 TATTTAAAA-TATAA-TAAAAA
1 TATTTAAAATTTTAATTTAAAA
*
1728952 TATTTAAAATTTTATTTTAATTAA
1 TATTTAAAATTTTAATTTAA--AA
*
1728976 TATTTATATATTTATAATTTAAAA
1 TATTTA-AAATTT-TAATTTAAAA
1729000 TATT
1 TATT
1729004 ATTTTAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.22
21 3 0.07
22 3 0.07
24 14 0.34
25 5 0.12
26 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTAAAATTTTAATTTAAAA
Found at i:1729893 original size:23 final size:23
Alignment explanation
Indices: 1729867--1729937 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
1729857 TGATACTAAC
1729867 ATAATATATATT-TTAAAATATAT
1 ATAATATATATTATTAAAATAT-T
* **
1729890 ATAATATAAATTATTAACGTATT
1 ATAATATATATTATTAAAATATT
* *
1729913 ATAATTTATATAAATATAAAATATT
1 ATAATATATAT-TAT-TAAAATATT
1729938 TTAAAAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 21 0.57
24 9 0.24
25 7 0.19
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (23 bp):
ATAATATATATTATTAAAATATT
Found at i:1732234 original size:50 final size:50
Alignment explanation
Indices: 1732154--1732286 Score: 196
Period size: 50 Copynumber: 2.7 Consensus size: 50
1732144 AGTTGCTTAG
* * *
1732154 AGTCAACAATTACGG-TCACATCTGTTGATTGTTAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCT-ACCTCTCTTGATTGTTAAAGGTTGGTCAAGAAT
* *
1732204 AGTCAACAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTCAAGAAT
1 AGTCAACAATTACGGCTACCTCTCTTGATTGTTAAAGGTTGGTCAAGAAT
*
1732254 AGTCAACAATTACGGCCACCTCTCTTGATTGTT
1 AGTCAACAATTACGGCTACCTCTCTTGATTGTT
1732287 CATGCTGATT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 73 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (50 bp):
AGTCAACAATTACGGCTACCTCTCTTGATTGTTAAAGGTTGGTCAAGAAT
Found at i:1736665 original size:50 final size:50
Alignment explanation
Indices: 1736503--1736664 Score: 207
Period size: 50 Copynumber: 3.2 Consensus size: 50
1736493 AATTGCTTAG
* * * *
1736503 AGTCAACAATTACGGTCACCCCTTTCTATTGTCAAAAGTTGGTGAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAAAAT
* * *
1736553 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTAGTGAAAAAT
1 AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAAAAT
* * * * * *
1736603 AATCAATAATTATGATCACTTCTCTCGATTGTTAAAAGTTGGTGAAAAAT
1 AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAAAAT
1736653 AGTCAACAATTA
1 AGTCAACAATTA
1736665 TAACCACCTT
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 94 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (50 bp):
AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAAAAT
Found at i:1736767 original size:50 final size:50
Alignment explanation
Indices: 1736690--1736967 Score: 299
Period size: 50 Copynumber: 5.6 Consensus size: 50
1736680 GCTTAGAGCC
1736690 AACAATTACGATCACCTCTCTCT-ATTGTCAAAGGTTGGTGAAGAATAGTT
1 AACAATTACGATCACCTCTCT-TGATTGTCAAAGGTTGGTGAAGAATAGTT
* * * * * *
1736740 AACAATTATGATAAACTCTCTTGATTGTTAAAGGTTGGTGAAGAATAATC
1 AACAATTACGATCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTT
** * *
1736790 AACAATTACGGCCACCTCTCTTGATTGTGAAAGGTTGGTAAAGAATAGTT
1 AACAATTACGATCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTT
* * ***
1736840 AACAATTAC-AGTCACCTCTCTCGATTGTCAAAAGTCAATGAAGAATAGTT
1 AACAATTACGA-TCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTT
* * * * * * *
1736890 AACAATTACGACCACATCTCTCGATTATCAAAAGTTGATGAAGAATAGTC
1 AACAATTACGATCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTT
* * *
1736940 AACAATTACGACCACATCTCTCGATTGT
1 AACAATTACGATCACCTCTCTTGATTGT
1736968 TAAAAATTAA
Statistics
Matches: 194, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 192 0.99
51 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (50 bp):
AACAATTACGATCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTT
Found at i:1736794 original size:133 final size:133
Alignment explanation
Indices: 1736556--1736797 Score: 369
Period size: 133 Copynumber: 1.8 Consensus size: 133
1736546 GAAGAATAGT
* *
1736556 CAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAATAATTATGATCA
1 CAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAACAATTATGATAA
*
1736621 CTTCTCTCGATTGTTAAAAGTTGGTGAAAAATAGTCAACAATTATAACCACCTTATGTTGCTTAG
66 CTTCTCTCGATTGTTAAAAGTTGGTGAAAAATAATCAACAATTATAACCACCTTATGTTGCTTAG
1736686 AGC
131 AGC
* * * * *
1736689 CAACAATTACGATCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTATGATAA
1 CAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAACAATTATGAT-A
* * *
1736754 AC-TCTCTTGATTGTTAAAGGTTGGTGAAGAATAATCAACAATTA
65 ACTTCTCTCGATTGTTAAAAGTTGGTGAAAAATAATCAACAATTA
1736798 CGGCCACCTC
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
133 95 0.98
134 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (133 bp):
CAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAACAATTATGATAA
CTTCTCTCGATTGTTAAAAGTTGGTGAAAAATAATCAACAATTATAACCACCTTATGTTGCTTAG
AGC
Found at i:1736846 original size:183 final size:183
Alignment explanation
Indices: 1736495--1736847 Score: 476
Period size: 183 Copynumber: 1.9 Consensus size: 183
1736485 CATGCTTAAA
* * *
1736495 TTGCTTAGAGTCAACAATTACGGTCACCCCTTTCTATTGTCAAAAGTTGGTGAAGAATAGTCAAC
1 TTGCTTAGAGCCAACAATTACGATCACCCCTCTCTATTGTCAAAAGTTGGTGAAGAATAGTCAAC
* * * * * *
1736560 AATTACGACCACCTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAATAATTATGATCACTTC
66 AATTACGACAAACTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAACAATTACGACCACCTC
*
1736625 TCTCGATTGTTAAAAGTTGGTGAAAAATAGTCAACAATTATAACCACCTTATG
131 TCTCGATTGTGAAAAGTTGGTGAAAAATAGTCAACAATTATAACCACCTTATG
* * *
1736678 TTGCTTAGAGCCAACAATTACGATCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATAGTTAAC
1 TTGCTTAGAGCCAACAATTACGATCACCCCTCTCTATTGTCAAAAGTTGGTGAAGAATAGTCAAC
* * * * * *
1736743 AATTATGATAAACTCTCT-TGATTGTTAAAGGTTGGTGAAGAATAATCAACAATTACGGCCACCT
66 AATTACGACAAACTCTCTCT-ATTGTCAAAGGTTAGTGAAAAATAATCAACAATTACGACCACCT
* * *
1736807 CTCTTGATTGTGAAAGGTTGGT-AAAGAATAGTTAACAATTA
130 CTCTCGATTGTGAAAAGTTGGTGAAA-AATAGTCAACAATTA
1736848 CAGTCACCTC
Statistics
Matches: 146, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
182 4 0.03
183 142 0.97
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (183 bp):
TTGCTTAGAGCCAACAATTACGATCACCCCTCTCTATTGTCAAAAGTTGGTGAAGAATAGTCAAC
AATTACGACAAACTCTCTCTATTGTCAAAGGTTAGTGAAAAATAATCAACAATTACGACCACCTC
TCTCGATTGTGAAAAGTTGGTGAAAAATAGTCAACAATTATAACCACCTTATG
Found at i:1736866 original size:100 final size:100
Alignment explanation
Indices: 1736689--1736995 Score: 339
Period size: 100 Copynumber: 3.1 Consensus size: 100
1736679 TGCTTAGAGC
* * *
1736689 CAACAATTACGATCACCTCTCTCT-ATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTATGATA
1 CAACAATTACGACCACCTCTCT-TGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGATC
* * * ***
1736753 AACTCTCTTGATTGTTAAAGGTTGGTGAAGAATAAT
65 ACCTCTCTCGATTGTTAAAAGTCAATGAAGAATAAT
* * *
1736789 CAACAATTACGGCCACCTCTCTTGATTGTGAAAGGTTGGTAAAGAATAGTTAACAATTAC-AGTC
1 CAACAATTACGACCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGA-TC
* *
1736853 ACCTCTCTCGATTGTCAAAAGTCAATGAAGAATAGT
65 ACCTCTCTCGATTGTTAAAAGTCAATGAAGAATAAT
* * * * * * * *
1736889 TAACAATTACGACCACATCTCTCGATTATCAAAAGTTGATGAAGAATAGTCAACAATTACGACCA
1 CAACAATTACGACCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGATCA
* * * * *
1736954 CATCTCTCGATTGTTAAAAATTAATAAAAAATAAT
66 CCTCTCTCGATTGTTAAAAGTCAATGAAGAATAAT
1736989 CAACAAT
1 CAACAAT
1736996 GATAATATCT
Statistics
Matches: 171, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
99 2 0.01
100 168 0.98
101 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (100 bp):
CAACAATTACGACCACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGATCA
CCTCTCTCGATTGTTAAAAGTCAATGAAGAATAAT
Found at i:1736966 original size:150 final size:150
Alignment explanation
Indices: 1736690--1736967 Score: 371
Period size: 150 Copynumber: 1.9 Consensus size: 150
1736680 GCTTAGAGCC
* * *** * *
1736690 AACAATTACGATCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTATGATAAA
1 AACAATTACGATCACCTCTCTCGATTGTCAAAAGTCAATGAAGAATAGTTAACAATTACGACAAA
* * * * * * * *
1736755 CTCTCTTGATTGTTAAAGGTTGGTGAAGAATAATCAACAATTACGGCCACCTCTCTTGATTGTGA
66 CTCTCTCGATTATCAAAAGTTGATGAAGAATAATCAACAATTACGACCACATCTCTCGATTGTGA
1736820 AAGGTTGGTAAAGAATAGTT
131 AAGGTTGGTAAAGAATAGTT
*
1736840 AACAATTAC-AGTCACCTCTCTCGATTGTCAAAAGTCAATGAAGAATAGTTAACAATTACGAC-C
1 AACAATTACGA-TCACCTCTCTCGATTGTCAAAAGTCAATGAAGAATAGTTAACAATTACGACAA
*
1736903 ACATCTCTCGATTATCAAAAGTTGATGAAGAATAGTCAACAATTACGACCACATCTCTCGATTGT
65 AC-TCTCTCGATTATCAAAAGTTGATGAAGAATAATCAACAATTACGACCACATCTCTCGATTGT
1736968 TAAAAATTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 3 0.03
150 106 0.97
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (150 bp):
AACAATTACGATCACCTCTCTCGATTGTCAAAAGTCAATGAAGAATAGTTAACAATTACGACAAA
CTCTCTCGATTATCAAAAGTTGATGAAGAATAATCAACAATTACGACCACATCTCTCGATTGTGA
AAGGTTGGTAAAGAATAGTT
Found at i:1738189 original size:19 final size:19
Alignment explanation
Indices: 1738147--1738190 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1738137 TTTTTTTAAA
* *
1738147 AAATATTTTTTTTTATATT
1 AAATATTTTTATATATATT
* *
1738166 TAATATTTTTATATATGTT
1 AAATATTTTTATATATATT
1738185 AAATAT
1 AAATAT
1738191 AAATATCAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
AAATATTTTTATATATATT
Found at i:1738447 original size:2 final size:2
Alignment explanation
Indices: 1738440--1738484 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1738430 ACATACAAAC
1738440 AT 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 AT
1738482 AT A
1 AT A
1738485 CTTCTATGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1742012 original size:32 final size:32
Alignment explanation
Indices: 1741976--1742040 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1741966 TTAATTATAG
1741976 TACAGAAATATTTATATTAATTTATCAAAAAT
1 TACAGAAATATTTATATTAATTTATCAAAAAT
*
1742008 TACAGAAGTATTTATATTAATTTATCAAAAAT
1 TACAGAAATATTTATATTAATTTATCAAAAAT
1742040 T
1 T
1742041 TCGAATAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (32 bp):
TACAGAAATATTTATATTAATTTATCAAAAAT
Found at i:1744507 original size:2 final size:2
Alignment explanation
Indices: 1744500--1744527 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1744490 GGGGGTGTTC
1744500 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1744528 ATGCCTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:1746524 original size:33 final size:33
Alignment explanation
Indices: 1746480--1746548 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
1746470 GTGCGATTTT
1746480 ATCCAACTTTATTTTGTCAAGAACGTTTATCTC
1 ATCCAACTTTATTTTGTCAAGAACGTTTATCTC
*
1746513 ATCCAATTTTATTTTGTCAAGAACGTTTATCTC
1 ATCCAACTTTATTTTGTCAAGAACGTTTATCTC
1746546 ATC
1 ATC
1746549 TTTATAGGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (33 bp):
ATCCAACTTTATTTTGTCAAGAACGTTTATCTC
Found at i:1746951 original size:67 final size:67
Alignment explanation
Indices: 1746843--1746982 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 67
1746833 CCTATTACTG
* * * * * * *
1746843 TTCTTATCATCTTTAGCTTTCCCCAATTGAGACATTGTGTCTGATAGTCATCATCTTTTTCC-GT
1 TTCTTATCATCTTTAACTTTCCCCAAATAAGACATTGTGTCTAATAATCACCATC-TCTTCCTGT
1746907 CTA
65 CTA
*
1746910 TTCTTATCATCTTTAACTTTCCCGAAATAAGACATTGTGTCTAATAATCACCATCTCTTCCTGTC
1 TTCTTATCATCTTTAACTTTCCCCAAATAAGACATTGTGTCTAATAATCACCATCTCTTCCTGTC
1746975 TA
66 TA
1746977 TTCTTA
1 TTCTTA
1746983 AGCTACGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 5 0.08
67 59 0.92
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (67 bp):
TTCTTATCATCTTTAACTTTCCCCAAATAAGACATTGTGTCTAATAATCACCATCTCTTCCTGTC
TA
Found at i:1751960 original size:13 final size:14
Alignment explanation
Indices: 1751929--1751961 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1751919 AATTCTGAAT
1751929 TATCTTCCTAGCAG
1 TATCTTCCTAGCAG
*
1751943 AATCTTCC-AGCAG
1 TATCTTCCTAGCAG
1751956 TATCTT
1 TATCTT
1751962 GTAACAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (14 bp):
TATCTTCCTAGCAG
Found at i:1756028 original size:2 final size:2
Alignment explanation
Indices: 1756021--1756077 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
1756011 CTGGCACTTT
1756021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1756063 TA TG TA TA TG TA TA T
1 TA TA TA TA TA TA TA T
1756078 TTTAAAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1768803 original size:24 final size:23
Alignment explanation
Indices: 1768761--1768805 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1768751 AAATTAAAAT
*
1768761 TAATTTATTTATTAATATATTAA
1 TAATTTATTTATGAATATATTAA
*
1768784 TAATTTATATTATGATTATATT
1 TAATTTAT-TTATGAATATATT
1768806 TTTATGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATTTATTTATGAATATATTAA
Found at i:1768836 original size:18 final size:18
Alignment explanation
Indices: 1768799--1768836 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1768789 TATATTATGA
*
1768799 TTATATTTTTATGTTAAT
1 TTATATTTTTATATTAAT
1768817 TTATA-TTTTATATTACAT
1 TTATATTTTTATATTA-AT
1768835 TT
1 TT
1768837 TAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TTATATTTTTATATTAAT
Found at i:1771758 original size:20 final size:17
Alignment explanation
Indices: 1771731--1771769 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 17
1771721 TTTTAATTTA
1771731 AAATTTAATTATAAAATAT
1 AAATTTAA-TATAAAA-AT
1771750 AAATATTAATATAAAAAT
1 AAAT-TTAATATAAAAAT
1771768 AA
1 AA
1771770 TTTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTAATATAAAAAT
Found at i:1772132 original size:26 final size:25
Alignment explanation
Indices: 1772103--1772161 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
1772093 TTTAAAAAAT
1772103 ATTAAATTTAAATTAATT-ATTATTAA
1 ATTAAATTTAAATT-ATTAATTATT-A
1772129 ATTAAATTTAAATTATTAAATTATTA
1 ATTAAATTTAAATTATT-AATTATTA
1772155 ATTAAAT
1 ATTAAAT
1772162 AAAGTCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 3 0.10
26 22 0.71
27 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTAAATTTAAATTATTAATTATTA
Found at i:1772604 original size:17 final size:17
Alignment explanation
Indices: 1772564--1772598 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1772554 ATTAAAAATT
* *
1772564 TAAAATATATATTTATA
1 TAAAACATATATTAATA
1772581 TAAAACATATATTAATA
1 TAAAACATATATTAATA
1772598 T
1 T
1772599 TTAACAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAACATATATTAATA
Found at i:1772621 original size:36 final size:37
Alignment explanation
Indices: 1772550--1772621 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
1772540 AATTTTTTAA
*
1772550 ATATATTAAAAATTTAAAATATATATTTATATAAAAC
1 ATATATTAAAAATTTAAAATATATATTAATATAAAAC
*
1772587 ATATATT-AATATTTAACAATCATAT-TTAAT-TAAAA
1 ATATATTAAAAATTTAA-AAT-ATATATTAATATAAAA
1772622 TAATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 13 0.42
37 14 0.45
38 4 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (37 bp):
ATATATTAAAAATTTAAAATATATATTAATATAAAAC
Found at i:1776743 original size:25 final size:26
Alignment explanation
Indices: 1776715--1776778 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
1776705 ATATTTAATT
1776715 TTATTTAAATTTTAA-ATAATTATAA
1 TTATTTAAATTTTAATATAATTATAA
* *
1776740 TTATTTAAA-TTTAATTTAATTTTAA
1 TTATTTAAATTTTAATATAATTATAA
*
1776765 TAATTTATAATTTT
1 TTATTTA-AATTTT
1776779 TATAATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.15
25 23 0.70
26 2 0.06
27 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTTAAATTTTAATATAATTATAA
Found at i:1776745 original size:35 final size:33
Alignment explanation
Indices: 1776696--1776780 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 33
1776686 ATTTAGATAT
*
1776696 TAATTA-AATATATTTAATTTTATTTAAATTTTAAA
1 TAATTATAAT-TATTTAATTTAATTT-AATTTT-AA
1776731 TAATTATAATTATTTAAATTTAATTTAATTTTAA
1 TAATTATAATTATTT-AATTTAATTTAATTTTAA
1776765 TAATTTATAATT-TTTA
1 TAA-TTATAATTATTTA
1776781 TAATATTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 1 0.02
34 8 0.17
35 25 0.54
36 12 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TAATTATAATTATTTAATTTAATTTAATTTTAA
Found at i:1776783 original size:16 final size:16
Alignment explanation
Indices: 1776717--1776784 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
1776707 ATTTAATTTT
1776717 ATTTA-AATTTTAAATA
1 ATTTATAATTTT-AATA
*
1776733 A-TTATAATTATTTA-A
1 ATTTATAATT-TTAATA
1776748 ATTTAATTTAATTTTAATA
1 ATTT-A--TAATTTTAATA
*
1776767 ATTTATAATTTTTATA
1 ATTTATAATTTTAATA
1776783 AT
1 AT
1776785 ATTAAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
15 5 0.12
16 20 0.48
17 3 0.07
18 4 0.10
19 10 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTATAATTTTAATA
Found at i:1776807 original size:44 final size:43
Alignment explanation
Indices: 1776754--1776861 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
1776744 TTAAATTTAA
* * * * *
1776754 TTTAATTTTAATAATTT-ATAATTTTTATAATATTAAATAAAAAT
1 TTTATTTTTAATAATTTAAAAATTTTAAAAATA-T-AATAAAAAG
*
1776798 TTTATTTTTAAATTATTTAAAAATTTTAAAAATATAATAAAAAG
1 TTTATTTTT-AATAATTTAAAAATTTTAAAAATATAATAAAAAG
1776842 TTTATTTTT--TAATTTAAAAA
1 TTTATTTTTAATAATTTAAAAA
1776862 ATTGATGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 10 0.18
44 25 0.45
45 8 0.15
46 12 0.22
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (43 bp):
TTTATTTTTAATAATTTAAAAATTTTAAAAATATAATAAAAAG
Found at i:1777713 original size:2 final size:2
Alignment explanation
Indices: 1777706--1777744 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1777696 AGTCTTTCTT
1777706 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1777745 TTAGGAAGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1780269 original size:31 final size:30
Alignment explanation
Indices: 1780203--1780269 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
1780193 CATTGAATTG
* * *
1780203 ATTTAAAAATTTATTTTATTATTTATTATA
1 ATTTAAAAATTAATTATATTATTAATTATA
1780233 A-TTAAAATATTAATATATATTATTAATTA-A
1 ATTTAAAA-ATTAAT-TATATTATTAATTATA
1780263 ATTTAAA
1 ATTTAAA
1780270 TAAAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 6 0.19
30 8 0.26
31 17 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTAAAAATTAATTATATTATTAATTATA
Found at i:1780277 original size:27 final size:30
Alignment explanation
Indices: 1780218--1780291 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 30
1780208 AAAATTTATT
1780218 TTATTATTTATTATAATTAAAATATTAATATA
1 TTATTATTTATTA-AATTAAAATA-TAATATA
* *
1780250 -TATTATTAATTAAATTTAAATA-AA-ATA
1 TTATTATTTATTAAATTAAAATATAATATA
1780277 TTATT-TTTATTAAAT
1 TTATTATTTATTAAAT
1780292 AATAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 12 0.32
28 6 0.16
30 9 0.24
31 11 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATTATTTATTAAATTAAAATATAATATA
Found at i:1780582 original size:11 final size:11
Alignment explanation
Indices: 1780510--1780584 Score: 59
Period size: 10 Copynumber: 7.0 Consensus size: 11
1780500 TAAAAAATTT
1780510 ATATAATATAA
1 ATATAATATAA
*
1780521 ATTATTAATATTA
1 A-TA-TAATATAA
*
1780534 A-ATAATAT-T
1 ATATAATATAA
*
1780543 TTA-AATATAA
1 ATATAATATAA
* *
1780553 TTATAATAAAA
1 ATATAATATAA
1780564 ATAT-ATATAA
1 ATATAATATAA
1780574 ATATAATATAA
1 ATATAATATAA
1780585 TAACATAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 5 0.10
10 19 0.37
11 17 0.33
12 2 0.04
13 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATAATATAA
Found at i:1780668 original size:12 final size:13
Alignment explanation
Indices: 1780642--1780674 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1780632 ATTTTTTTAC
*
1780642 TTTTTAAAAATAA
1 TTTTTATAAATAA
1780655 TTTTTATAAA-AA
1 TTTTTATAAATAA
1780667 TTTTTATA
1 TTTTTATA
1780675 TTCTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTTATAAATAA
Found at i:1784590 original size:23 final size:23
Alignment explanation
Indices: 1784560--1784605 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1784550 GAGCTCAAGT
*
1784560 ATAAAAAATTAATTTGAAGTTAA
1 ATAAAAAATCAATTTGAAGTTAA
1784583 ATAAAAAATCAATTTGAAGTTAA
1 ATAAAAAATCAATTTGAAGTTAA
1784606 TTATGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
ATAAAAAATCAATTTGAAGTTAA
Found at i:1785351 original size:15 final size:15
Alignment explanation
Indices: 1785331--1785373 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
1785321 ATTTAAAAAA
1785331 ATTAAATATATTTAT
1 ATTAAATATATTTAT
1785346 ATTAAATATATTTTTAT
1 ATTAAATATA--TTTAT
*
1785363 ATTTAATATAT
1 ATTAAATATAT
1785374 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
17 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTAAATATATTTAT
Found at i:1785356 original size:17 final size:17
Alignment explanation
Indices: 1785336--1785377 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1785326 AAAAAATTAA
1785336 ATATATTTATATTAAAT
1 ATATATTTATATTAAAT
* *
1785353 ATATTTTTATATTTAAT
1 ATATATTTATATTAAAT
1785370 ATATATTT
1 ATATATTT
1785378 TTATATTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTTATATTAAAT
Found at i:1785375 original size:19 final size:19
Alignment explanation
Indices: 1785336--1785389 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1785326 AAAAAATTAA
*
1785336 ATATATTTATA-TTAA-AT
1 ATATTTTTATATTTAATAT
1785353 ATATTTTTATATTTAATAT
1 ATATTTTTATATTTAATAT
*
1785372 ATATTTTTATATTCAATA
1 ATATTTTTATATTTAATA
1785390 CTTACTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.30
18 4 0.12
19 19 0.58
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTTATATTTAATAT
Found at i:1791804 original size:11 final size:11
Alignment explanation
Indices: 1791783--1791829 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
1791773 GATATATTCA
1791783 TATTAATATTTT
1 TATT-ATATTTT
1791795 TATTATATTTT
1 TATTATATTTT
*
1791806 ATTTTATATTTT
1 -TATTATATTTT
*
1791818 AATTAT-TTTT
1 TATTATATTTT
1791828 TA
1 TA
1791830 ATTTTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 5 0.17
11 11 0.37
12 14 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATATTTT
Found at i:1791814 original size:23 final size:23
Alignment explanation
Indices: 1791732--1791843 Score: 82
Period size: 23 Copynumber: 4.7 Consensus size: 23
1791722 GTTAATAAAA
* *
1791732 TATTTTATATTTTTAAATAAAATTT
1 TATTTTATATTTTT--ATTATATTT
* *
1791757 TAATTTTA-AATTTTATGATATATT
1 T-ATTTTATATTTTTATTATAT-TT
* *
1791781 CATATTAATATTTTTATTATATTT
1 TAT-TTTATATTTTTATTATATTT
* *
1791805 TATTTTATATTTTAATTATTTTT
1 TATTTTATATTTTTATTATATTT
*
1791828 TAATTTTATATATTTA
1 T-ATTTTATATTTTTA
1791844 CATTATTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
23 25 0.36
24 21 0.30
25 17 0.25
26 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (23 bp):
TATTTTATATTTTTATTATATTT
Found at i:1791830 original size:11 final size:11
Alignment explanation
Indices: 1791788--1791832 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
1791778 ATTCATATTA
*
1791788 ATATTTTTATT
1 ATATTTTAATT
*
1791799 ATATTTTATTTT
1 ATATTTTA-ATT
1791811 ATATTTTAATT
1 ATATTTTAATT
*
1791822 ATTTTTTAATT
1 ATATTTTAATT
1791833 TTATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATATTTTAATT
Found at i:1791841 original size:17 final size:18
Alignment explanation
Indices: 1791797--1791842 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
1791787 AATATTTTTA
*
1791797 TTATATTTTATTTTATATT
1 TTATATATT-TTTTATATT
1791816 TTA-ATTATTTTTTA-ATT
1 TTATA-TATTTTTTATATT
1791833 TTATATATTT
1 TTATATATTT
1791843 ACATTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 11 0.46
18 7 0.29
19 6 0.25
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATATATTTTTTATATT
Found at i:1796756 original size:18 final size:18
Alignment explanation
Indices: 1796735--1796849 Score: 64
Period size: 18 Copynumber: 6.4 Consensus size: 18
1796725 AAAATAAGAT
1796735 AAAATATTATATAATATA
1 AAAATATTATATAATATA
* *
1796753 AAAATATAATACAAATATA
1 AAAATATTATA-TAATATA
*
1796772 ATATAGATA-TATA-AATATT
1 A-A-A-ATATTATATAATATA
**
1796791 TCAATATCTATATAATAT-
1 AAAATAT-TATATAATATA
* *
1796809 AAATTATTA-A-AATATT
1 AAAATATTATATAATATA
1796825 AAAAT-TTATATAA-ATA
1 AAAATATTATATAATATA
1796841 TAAAATATT
1 -AAAATATT
1796850 TTAAATATGA
Statistics
Matches: 74, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
15 8 0.11
16 11 0.15
17 10 0.14
18 20 0.27
19 17 0.23
20 1 0.01
21 4 0.05
22 3 0.04
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
AAAATATTATATAATATA
Found at i:1796781 original size:6 final size:5
Alignment explanation
Indices: 1796701--1796889 Score: 52
Period size: 5 Copynumber: 37.0 Consensus size: 5
1796691 ATTAAACATG
* * * * *
1796701 ATATA ATTATG ATATA AAATA AT-TA AAATAA GATAAA ATATT ATATA
1 ATATA A-TATA ATATA ATATA ATATA ATAT-A -ATATA ATATA ATATA
*
1796748 ATATA A-A-A ATATA ATACAA ATATA ATATA GATAT- ATA-A ATATTTCA
1 ATATA ATATA ATATA ATA-TA ATATA ATATA -ATATA ATATA ATA--T-A
* * * * * *
1796794 ATATCT ATATA ATATA A-ATT AT-TA AAATA TTAAA AT-TT ATATAA ATATA
1 ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A ATATA
* * * * * *
1796843 AAATA TTTTAA ATATGA TTATA ATATA ATAAA ATATA CTATA ATATA
1 ATATA ATAT-A ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA
1796890 GATACTAAAA
Statistics
Matches: 129, Mismatches: 37, Indels: 36
0.64 0.18 0.18
Matches are distributed among these distances:
3 2 0.02
4 18 0.14
5 72 0.56
6 31 0.24
7 2 0.02
8 4 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:1797979 original size:23 final size:22
Alignment explanation
Indices: 1797944--1797987 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1797934 AAATTATAAA
1797944 TATTAAAATTTAAAATTTAAAAT
1 TATTAAAATTT-AAATTTAAAAT
*
1797967 TATT-AAATATTAATTTTAAAA
1 TATTAAAAT-TTAAATTTAAAA
1797988 AAATGATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTAAAATTTAAATTTAAAAT
Found at i:1798152 original size:2 final size:2
Alignment explanation
Indices: 1798147--1798172 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1798137 ATTTTTTTTA
1798147 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
1798173 GTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1799671 original size:15 final size:16
Alignment explanation
Indices: 1799645--1799675 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1799635 TTTTCAAAAG
1799645 TAAAAAATATATTTAT
1 TAAAAAATATATTTAT
1799661 TAAAAAA-ATATTTAT
1 TAAAAAATATATTTAT
1799676 ATTATTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAAATATATTTAT
Found at i:1799852 original size:3 final size:3
Alignment explanation
Indices: 1799844--1799881 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1799834 CCATTATATC
1799844 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1799882 ACGCTTCGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1800351 original size:16 final size:16
Alignment explanation
Indices: 1800330--1800374 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1800320 ATAAATATGT
1800330 ATTTTATTAATTATTA
1 ATTTTATTAATTATTA
*
1800346 ATTTTATTTATT-TTA
1 ATTTTATTAATTATTA
*
1800361 ATTTT-TTAAATATT
1 ATTTTATTAATTATT
1800375 TTTAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATTAATTATTA
Found at i:1800379 original size:18 final size:19
Alignment explanation
Indices: 1800356--1800399 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1800346 ATTTTATTTA
* *
1800356 TTTTAATTTTTTAAA-TAT
1 TTTTAATTTATAAAATTAT
1800374 TTTTAA-TTATAAAATTAT
1 TTTTAATTTATAAAATTAT
1800392 TTTTAATT
1 TTTTAATT
1800400 ACTATCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAATTTATAAAATTAT
Found at i:1800691 original size:18 final size:17
Alignment explanation
Indices: 1800670--1800709 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
1800660 TTATTATTTT
1800670 AAAAATT-TTAAAGATAA
1 AAAAATTATTAAA-ATAA
1800687 AAAAATTGATTAAAATAA
1 AAAAATT-ATTAAAATAA
1800705 AAAAA
1 AAAAA
1800710 ATAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 9 0.43
19 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
AAAAATTATTAAAATAA
Found at i:1800885 original size:18 final size:17
Alignment explanation
Indices: 1800862--1800900 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1800852 TTTGTTTATC
*
1800862 ATAATTTTTTAAATAATA
1 ATAATTTATTAAATAA-A
*
1800880 ATAATTTATTAATTAAA
1 ATAATTTATTAAATAAA
1800897 ATAA
1 ATAA
1800901 AAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTATTAAATAAA
Found at i:1800956 original size:16 final size:17
Alignment explanation
Indices: 1800922--1800953 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1800912 TAAATTTATT
1800922 TTAAAGTTAATAAATAA
1 TTAAAGTTAATAAATAA
1800939 TTAAA-TTAA-AAATAA
1 TTAAAGTTAATAAATAA
1800954 ATTTAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAGTTAATAAATAA
Found at i:1801477 original size:17 final size:17
Alignment explanation
Indices: 1801451--1801492 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
1801441 ATAAACAAAT
1801451 TATA-AAATAAAATATAA
1 TATATAAATAAAA-ATAA
1801468 TAT-TAAATAAAAATAA
1 TATATAAATAAAAATAA
1801484 TATATAAAT
1 TATATAAAT
1801493 TTATAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATATAAATAAAAATAA
Done.