Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 121 of 131
Found at i:21816974 original size:3 final size:3
Alignment explanation
Indices: 21816966--21817001 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
21816956 CTAAAATAGA
21816966 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21817002 CAAATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21817560 original size:17 final size:17
Alignment explanation
Indices: 21817538--21817650 Score: 50
Period size: 17 Copynumber: 6.5 Consensus size: 17
21817528 CCATATTTGC
21817538 AAGATTCCAGATTCACA
1 AAGATTCCAGATTCACA
* * *
21817555 AAGATTTCAAGTTTCGCA
1 AAGA-TTCCAGATTCACA
* * **
21817573 AAGATTTCAAATTCGTA
1 AAGATTCCAGATTCACA
* *
21817590 AAGTTTTCA-ATTTCACA
1 AAGATTCCAGA-TTCACA
* *
21817607 GAAG-TTTCAAATTCACA
1 -AAGATTCCAGATTCACA
* * *
21817624 AAGGTTTCAAGTTTCACA
1 AA-GATTCCAGATTCACA
21817642 AAGATTCCA
1 AAGATTCCA
21817651 AGTTTCATAG
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
16 3 0.04
17 41 0.56
18 29 0.40
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (17 bp):
AAGATTCCAGATTCACA
Found at i:21817576 original size:18 final size:17
Alignment explanation
Indices: 21817549--21817657 Score: 103
Period size: 18 Copynumber: 6.2 Consensus size: 17
21817539 AGATTCCAGA
21817549 TTCACAAAGATTTCAAGT
1 TTCACAAAGATTTCAA-T
* *
21817567 TTCGCAAAGATTTCAAA
1 TTCACAAAGATTTCAAT
** *
21817584 TTCGTAAAGTTTTCAAT
1 TTCACAAAGATTTCAAT
*
21817601 TTCACAGAAG-TTTCAAA
1 TTCACA-AAGATTTCAAT
*
21817618 TTCACAAAGGTTTCAAGT
1 TTCACAAAGATTTCAA-T
*
21817636 TTCACAAAGATTCCAAGT
1 TTCACAAAGATTTCAA-T
21817654 TTCA
1 TTCA
21817658 TAGAGGTTCT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
16 3 0.04
17 36 0.47
18 38 0.49
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (17 bp):
TTCACAAAGATTTCAAT
Found at i:21817616 original size:34 final size:35
Alignment explanation
Indices: 21817538--21817647 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
21817528 CCATATTTGC
* * *
21817538 AAGATTCCAGATTCACAAAGATTTCAAGTTTCGCA
1 AAGATTTCAAATTCACAAAGATTTCAAGTTTCACA
** *
21817573 AAGATTTCAAATTCGTAAAGTTTTCAA-TTTCACA
1 AAGATTTCAAATTCACAAAGATTTCAAGTTTCACA
*
21817607 GAAG-TTTCAAATTCACAAAGGTTTCAAGTTTCACA
1 -AAGATTTCAAATTCACAAAGATTTCAAGTTTCACA
21817642 AAGATT
1 AAGATT
21817648 CCAAGTTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
34 29 0.46
35 34 0.54
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (35 bp):
AAGATTTCAAATTCACAAAGATTTCAAGTTTCACA
Found at i:21817654 original size:87 final size:87
Alignment explanation
Indices: 21817549--21817734 Score: 223
Period size: 87 Copynumber: 2.1 Consensus size: 87
21817539 AGATTCCAGA
* * * * *
21817549 TTCACAAAGATTTCAAGTTTCGCAAAGA-TTTC-AAATTCGTAAAGTTTTCAATTTCACAGAAGT
1 TTCACAAAGATTCCAAGTTT--CAAAGAGGTTCTAAATTCGCAAAGTTCTCAATTTCACAAAAGT
21817612 TTCAAATTCACAAAGGTTTCAAGT
64 TTCAAATTCACAAAGGTTTCAAGT
* * * * **
21817636 TTCACAAAGATTCCAAGTTTCATAGAGGTTCTAAATTTGCAAGGTTCTCGATTTTGCAAAAGTTT
1 TTCACAAAGATTCCAAGTTTCAAAGAGGTTCTAAATTCGCAAAGTTCTCAATTTCACAAAAGTTT
* *
21817701 CAAATTCGCAAAGGTTTCCAGT
66 CAAATTCACAAAGGTTTCAAGT
21817723 TTCACAAAGATT
1 TTCACAAAGATT
21817735 TTCAGATTTG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 5 0.06
86 3 0.04
87 76 0.90
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (87 bp):
TTCACAAAGATTCCAAGTTTCAAAGAGGTTCTAAATTCGCAAAGTTCTCAATTTCACAAAAGTTT
CAAATTCACAAAGGTTTCAAGT
Found at i:21817817 original size:17 final size:17
Alignment explanation
Indices: 21817797--21817930 Score: 92
Period size: 17 Copynumber: 7.9 Consensus size: 17
21817787 TTCAATTTCG
21817797 CAAGAATTTTAGATTCA
1 CAAGAATTTTAGATTCA
* *
21817814 CAAGAACTTTATATTCA
1 CAAGAATTTTAGATTCA
* * *
21817831 CAAGAACTTCATATTCA
1 CAAGAATTTTAGATTCA
* **
21817848 CAA-AATCTTCAGATTTG
1 CAAGAAT-TTTAGATTCA
* * * **
21817865 CAAGAGTTTCAAATTGG
1 CAAGAATTTTAGATTCA
* *
21817882 CAAGAACTTTAGGTTCA
1 CAAGAATTTTAGATTCA
21817899 CAAGAATTTTA-AGTTCA
1 CAAGAATTTTAGA-TTCA
*
21817916 CAAGAGTTTTAGATT
1 CAAGAATTTTAGATT
21817931 TGTAAAAATT
Statistics
Matches: 93, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
16 2 0.02
17 88 0.95
18 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (17 bp):
CAAGAATTTTAGATTCA
Found at i:21818198 original size:37 final size:37
Alignment explanation
Indices: 21818141--21818220 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
21818131 CTCTAGAATT
* *
21818141 CAAAGATTTTTATTCAAAAAAATTGAAGGATTCACATC
1 CAAA-ATTTATATTCAAAAAAATTGAAAGATTCACATC
* * * *
21818179 CAAAATTTATATTCGAAAAATTTTAAAGATTCACATT
1 CAAAATTTATATTCAAAAAAATTGAAAGATTCACATC
21818216 CAAAA
1 CAAAA
21818221 GTAAAAACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (37 bp):
CAAAATTTATATTCAAAAAAATTGAAAGATTCACATC
Found at i:21818419 original size:93 final size:90
Alignment explanation
Indices: 21818258--21818426 Score: 203
Period size: 93 Copynumber: 1.8 Consensus size: 90
21818248 AGTTTCACAT
* * **
21818258 ATTTCAAAAATTCACATTTAAAAACTTTAACATTTCACAACCAAAATTTCAAAGATTCTTATTCT
1 ATTTCAAAAATTCACATTTAAAAACTTTAACAATTCACAACCAAAATTTCAAAAATTCACATTCT
21818323 AAAAGTTTTTAGGTCTCATATCCAAA
66 AAAA-TTTTTAGGTCTCATATCCAAA
* * * * * * * *
21818349 ATTTCAAATATTTCACATTTGAAAAATTTTAAGAATTCTCATCCAAAGTTTTAAAAATTCACCTT
1 ATTTCAAA-AATTCACATTT-AAAAACTTTAACAATTCACAACCAAAATTTCAAAAATTCACATT
21818414 CTAAAATTTTTAG
64 CTAAAATTTTTAG
21818427 AGGTTCACAC
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
91 8 0.12
92 17 0.27
93 39 0.61
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (90 bp):
ATTTCAAAAATTCACATTTAAAAACTTTAACAATTCACAACCAAAATTTCAAAAATTCACATTCT
AAAATTTTTAGGTCTCATATCCAAA
Found at i:21818441 original size:93 final size:91
Alignment explanation
Indices: 21818258--21818465 Score: 197
Period size: 93 Copynumber: 2.3 Consensus size: 91
21818248 AGTTTCACAT
* * **
21818258 ATTTCAAAAATTCACATTTAAAAACTTTAACATTTCACAACCAAAATTTCAAAGATTCTTATTCT
1 ATTTCAAAAATTCACATTTAAAAACTTTAACAATTCACAACCAAAATTTCAAAAATTCACATTCT
* *
21818323 AAAAGTTTTTAGGTCTCATATCCAAA
66 AAAAGTTTTTAGGTCTCACACCCAAA
* * * * * * * *
21818349 ATTTCAAATATTTCACATTTGAAAAATTTTAAGAATTCTCATCCAAAGTTTTAAAAATTCACCTT
1 ATTTCAAA-AATTCACATTT-AAAAACTTTAACAATTCACAACCAAAATTTCAAAAATTCACATT
21818414 CTAAAA-TTTTTAGAGGT-TCACACCCAAA
64 CTAAAAGTTTTT--AGGTCTCACACCCAAA
* * *
21818442 GTTT-AAAAGACTCACATTCAAAAA
1 ATTTCAAAA-ATTCACATTTAAAAA
21818466 ATTAGAGATT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
91 14 0.15
92 25 0.27
93 51 0.54
94 4 0.04
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (91 bp):
ATTTCAAAAATTCACATTTAAAAACTTTAACAATTCACAACCAAAATTTCAAAAATTCACATTCT
AAAAGTTTTTAGGTCTCACACCCAAA
Found at i:21818463 original size:22 final size:21
Alignment explanation
Indices: 21818438--21818489 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
21818428 GGTTCACACC
21818438 CAAAGTTTAAAAGACTCACATT
1 CAAAGTTT-AAAGACTCACATT
** * *
21818460 CAAAAAATTAGAGATTCACATT
1 C-AAAGTTTAAAGACTCACATT
21818482 CAAAGTTT
1 CAAAGTTT
21818490 CGAAAGTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 5 0.22
22 13 0.57
23 5 0.22
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (21 bp):
CAAAGTTTAAAGACTCACATT
Found at i:21818555 original size:22 final size:23
Alignment explanation
Indices: 21818529--21818571 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21818519 TTCACATCCA
*
21818529 AAGATTTT-CATTCAAAATTTTT
1 AAGATTTTCCATCCAAAATTTTT
21818551 AAGATTTTCCATCCAAAATTT
1 AAGATTTTCCATCCAAAATTT
21818572 CAAAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (23 bp):
AAGATTTTCCATCCAAAATTTTT
Found at i:21819617 original size:14 final size:14
Alignment explanation
Indices: 21819600--21819630 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21819590 TTTTTTACTC
21819600 TTTTTT-CTTTTTT
1 TTTTTTGCTTTTTT
21819613 TTTTTTGCTTTTTT
1 TTTTTTGCTTTTTT
21819627 TTTT
1 TTTT
21819631 CACTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTTGCTTTTTT
Found at i:21820540 original size:32 final size:33
Alignment explanation
Indices: 21820504--21820576 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 33
21820494 CATATCATGC
** * *
21820504 AATAAAT-ATAAAATCATGCAAATAAATATATT
1 AATAAATCATAAAATCACACAAAGAAATAAATT
*
21820536 AAT-AATCATATAATCACACAAAGAAATAAATT
1 AATAAATCATAAAATCACACAAAGAAATAAATT
21820568 AAT-AATCAT
1 AATAAATCAT
21820577 GCAAATAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (33 bp):
AATAAATCATAAAATCACACAAAGAAATAAATT
Found at i:21820636 original size:41 final size:40
Alignment explanation
Indices: 21820587--21820940 Score: 423
Period size: 41 Copynumber: 8.8 Consensus size: 40
21820577 GCAAATAGAT
* *
21820587 ATGCAATTAAAAATATAATCATGCAGTTAACAATGTAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAAT-TAAAAC
* * *
21820628 ATGTAATTAAATATCTAATCATACAATTAACAATGTAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAAT-TAAAAC
* * * *
21820669 ATACAAATAAATATATAATCATGCATTTAACAA-TAAATC
1 ATGCAATTAAATATATAATCATGCAATTAACAATTAAAAC
* *
21820708 ATGCAAATAAATATATAATCATGCAACTAACAATATAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAAT-TAAAAC
* * * *
21820749 ATGCAATTATATATATTATCATGCAATTAA-AAATACAAGAG
1 ATGCAATTAAATATATAATCATGCAATTAACAATTA-AA-AC
21820790 ATGCAATTAAATATATAATCATGCAATTAACAA--AAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATTAAAAC
* *
21820828 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAAT
1 ATGCAATTAAATATATAATCATGCAATTAACAAT-TAAAAC
* * *
21820869 ATGTAAATAAATATATTATCATGCAATTAACAA--AAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATTAAAAC
*
21820907 ATGCAATTAAATATATTATCATGCAATTAACAAT
1 ATGCAATTAAATATATAATCATGCAATTAACAAT
21820941 ATAATAATAC
Statistics
Matches: 272, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
38 68 0.25
39 39 0.14
40 5 0.02
41 158 0.58
42 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (40 bp):
ATGCAATTAAATATATAATCATGCAATTAACAATTAAAAC
Found at i:21820673 original size:21 final size:21
Alignment explanation
Indices: 21820613--21820674 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
21820603 AATCATGCAG
**
21820613 TTAACAATGTAAAACATGTAA
1 TTAACAATGTAAAACATACAA
* *
21820634 TTAA-ATATCT-AATCATACAA
1 TTAACA-ATGTAAAACATACAA
21820654 TTAACAATGTAAAACATACAA
1 TTAACAATGTAAAACATACAA
21820675 ATAAATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (21 bp):
TTAACAATGTAAAACATACAA
Found at i:21820770 original size:121 final size:119
Alignment explanation
Indices: 21820587--21820973 Score: 483
Period size: 121 Copynumber: 3.2 Consensus size: 119
21820577 GCAAATAGAT
* * * * * * *
21820587 ATGCAATTAAAAATATAATCATGCAGTTAACAATGTAAAACATGTAATTAAATATCTAATCATAC
1 ATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGTAATTAAATATATTATCATGC
* * *
21820652 AATTAACAATGTAAAACATACAAATAAATATATAATCATGCATTTAACAATAAATC
66 AATTAACAA--TAAAACATGCAATTAAATATATAATCATGCAATTAACAATAAATC
* * *
21820708 ATGCAAATAAATATATAATCATGCAACTAACAATATAAAACATGCAATTATATATATTATCATGC
1 ATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGTAATTAAATATATTATCATGC
* * *
21820773 AATTAAAAATACAAGAGATGCAATTAAATATATAATCATGCAATTAACAA-AAAAC
66 AATTAACAATA-AA-ACATGCAATTAAATATATAATCATGCAATTAACAATAAATC
* * * *
21820828 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAATATGTAAATAAATATATTATCATGC
1 ATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGTAATTAAATATATTATCATGC
* *
21820893 AATTAACAA-AAAACATGCAATTAAATATATTATCATGCAATTAACAATATAATA
66 AATTAACAATAAAACATGCAATTAAATATATAATCATGCAATTAACAATA-AATC
*
21820947 ATACAAAT-AATAATATAAATCATGCAA
1 ATGCAAATAAAT-ATAT-AATCATGCAA
21820974 ATAAACATGC
Statistics
Matches: 229, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
117 33 0.14
118 6 0.03
119 15 0.07
120 81 0.35
121 94 0.41
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.30
Consensus pattern (119 bp):
ATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGTAATTAAATATATTATCATGC
AATTAACAATAAAACATGCAATTAAATATATAATCATGCAATTAACAATAAATC
Found at i:21820854 original size:79 final size:80
Alignment explanation
Indices: 21820587--21820973 Score: 453
Period size: 79 Copynumber: 4.8 Consensus size: 80
21820577 GCAAATAGAT
* * * * * * * *
21820587 ATGCAATTAAAAATATAATCATGCAGTTAACAATGTAAAACATGTAATTAAATATCTAATCATAC
1 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATAAATATATAATCATGC
21820652 AATTAACAATGTAAAAC
66 AATTAACAA--TAAAAC
* * * * *
21820669 ATACAAATAAATATATAATCATGCATTTAAC-A-ATAAATCATGCAAATAAATATATAATCATGC
1 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATAAATATATAATCATGC
*
21820732 AACTAACAATATAAAAC
66 AATTAAC-A-ATAAAAC
* * * * * *
21820749 ATGCAATTATATATATTATCATGCAATTAAAAATACAAGAGATGCAATTAAATATATAATCATGC
1 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATAAATATATAATCATGC
21820814 AATTAACAA-AAAAC
66 AATTAACAATAAAAC
* * *
21820828 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAATATGTAAATAAATATATTATCATGC
1 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATAAATATATAATCATGC
21820893 AATTAACAA-AAAAC
66 AATTAACAATAAAAC
* *
21820907 ATGCAATTAAATATATTATCATGCAATTAACAATATAATA-ATACAAAT-AATAATATAAATCAT
1 ATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATAAAT-ATAT-AATCAT
21820970 GCAA
64 GCAA
21820974 ATAAACATGC
Statistics
Matches: 264, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.01
78 10 0.04
79 124 0.47
80 63 0.24
81 4 0.02
82 60 0.23
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.30
Consensus pattern (80 bp):
ATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATAAATATATAATCATGC
AATTAACAATAAAAC
Found at i:21821791 original size:14 final size:14
Alignment explanation
Indices: 21821772--21821800 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21821762 GACTTTTTTT
21821772 ACTAAAAAAATTAA
1 ACTAAAAAAATTAA
21821786 ACTAAAAAAATTAA
1 ACTAAAAAAATTAA
21821800 A
1 A
21821801 ATACAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
ACTAAAAAAATTAA
Found at i:21827100 original size:3 final size:3
Alignment explanation
Indices: 21827094--21827135 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
21827084 AACTTTCTAA
21827094 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21827136 TAAAAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21831631 original size:57 final size:56
Alignment explanation
Indices: 21831538--21831700 Score: 236
Period size: 57 Copynumber: 2.9 Consensus size: 56
21831528 GAGAATAACG
* * *
21831538 GGGACAGACGTGACAAAGTCTCCTTCGTCATTCATACTTCCATCCAATCCCTTGAC
1 GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATGGAC
* *
21831594 TGGGACAGACGTGACAAAGTCTCCTTCGGCATGCATACTTCCATCCAATTCATGGAC
1 -GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATGGAC
* * *
21831651 GCGAACAGACTTGACTAAGTCTCCTTCGTCATGCATACTTCCATCCAATC
1 G-GGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATC
21831701 TTTTGAGGAC
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 94 0.99
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (56 bp):
GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATGGAC
Found at i:21834309 original size:19 final size:19
Alignment explanation
Indices: 21834281--21834325 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
21834271 AAGCATCAAT
21834281 ACAAG-ATATAGGTGTACAA
1 ACAAGAATATAGGTGTAC-A
*
21834300 ACAAGGTATATAGGTGTACA
1 ACAA-GAATATAGGTGTACA
21834320 ACAAGA
1 ACAAGA
21834326 TAATTAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 6 0.26
21 12 0.52
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (19 bp):
ACAAGAATATAGGTGTACA
Found at i:21834324 original size:20 final size:21
Alignment explanation
Indices: 21834286--21834324 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21834276 TCAATACAAG
21834286 ATATAGGTGTACAAACAAGGT
1 ATATAGGTGTACAAACAAGGT
21834307 ATATAGGTGTAC-AACAAG
1 ATATAGGTGTACAAACAAG
21834325 ATAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (21 bp):
ATATAGGTGTACAAACAAGGT
Found at i:21841472 original size:22 final size:21
Alignment explanation
Indices: 21841423--21841472 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
21841413 TAACACTCTA
* * *
21841423 TTTTATTTTATTCTATTTTAT
1 TTTTAATTTATTATATTTAAT
21841444 TTATTAATTTATTATATTATAAT
1 TT-TTAATTTATTATATT-TAAT
21841467 TTTTAA
1 TTTTAA
21841473 ATATTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.71
23 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAATTTATTATATTTAAT
Found at i:21841841 original size:15 final size:15
Alignment explanation
Indices: 21841821--21841850 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21841811 ATTTAAATAA
21841821 AATATTGAAATTTGT
1 AATATTGAAATTTGT
21841836 AATATTGAAATTTGT
1 AATATTGAAATTTGT
21841851 TAAGAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
AATATTGAAATTTGT
Found at i:21842425 original size:32 final size:32
Alignment explanation
Indices: 21842354--21842425 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
21842344 TAAGTTATTT
*
21842354 TAAATTTA--AATTTATTAACAATTTGTAAAA
1 TAAATTTATTAATTTATTAACAATTTATAAAA
* * *
21842384 AAAAATTATTAATTTATTAA-ATTTTATATAAA
1 TAAATTTATTAATTTATTAACAATTTATA-AAA
21842416 TAAATTTATT
1 TAAATTTATT
21842426 TGAGCCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 6 0.18
31 6 0.18
32 21 0.64
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAAATTTATTAATTTATTAACAATTTATAAAA
Found at i:21847185 original size:25 final size:23
Alignment explanation
Indices: 21847137--21847193 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
21847127 TACCAATGGT
21847137 AAAAAAAGAAGTGTGAATAGTAA
1 AAAAAAAGAAGTGTGAATAGTAA
*
21847160 AAAAAAAGAAGTGTGAATAG-ACT
1 AAAAAAAGAAGTGTGAATAGTA-A
21847183 AAAAAAAGAAG
1 AAAAAAAGAAG
21847194 CGAGGCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.63, C:0.02, G:0.21, T:0.14
Consensus pattern (23 bp):
AAAAAAAGAAGTGTGAATAGTAA
Found at i:21850258 original size:1 final size:1
Alignment explanation
Indices: 21850252--21850277 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21850242 ATGCTAATAA
21850252 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
21850278 ATGTTGGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:21851743 original size:17 final size:20
Alignment explanation
Indices: 21851721--21851758 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21851711 GTGGCATGAG
21851721 TTTCC-ATG-TGTCAT-TCT
1 TTTCCAATGCTGTCATCTCT
21851738 TTTCCAATGCTGTCATCTCT
1 TTTCCAATGCTGTCATCTCT
21851758 T
1 T
21851759 CAGTTATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 6 0.33
20 4 0.22
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCCAATGCTGTCATCTCT
Found at i:21853799 original size:15 final size:14
Alignment explanation
Indices: 21853765--21853824 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 14
21853755 TAAATTAAAC
*
21853765 CAAAATACAGAATA
1 CAAAATACAAAATA
21853779 CTAAAATACAAAATA
1 C-AAAATACAAAATA
*
21853794 GCAAAA-A-AATATA
1 -CAAAATACAAAATA
21853807 -AAAATACAAAATA
1 CAAAATACAAAATA
21853820 CAAAA
1 CAAAA
21853825 AAAAACAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
11 4 0.11
12 1 0.03
13 10 0.26
14 6 0.16
15 16 0.42
16 1 0.03
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (14 bp):
CAAAATACAAAATA
Found at i:21853825 original size:8 final size:7
Alignment explanation
Indices: 21853765--21853824 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
21853755 TAAATTAAAC
21853765 CAAAATA
1 CAAAATA
*
21853772 CAGAATA
1 CAAAATA
21853779 CTAAAATA
1 C-AAAATA
21853787 CAAAATA
1 CAAAATA
21853794 GCAAAA-A
1 -CAAAATA
*
21853801 -AATATA
1 CAAAATA
21853807 -AAAATA
1 CAAAATA
21853813 CAAAATA
1 CAAAATA
21853820 CAAAA
1 CAAAA
21853825 AAAAACAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.07
6 6 0.13
7 25 0.56
8 11 0.24
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (7 bp):
CAAAATA
Found at i:21853835 original size:26 final size:26
Alignment explanation
Indices: 21853781--21853836 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
21853771 ACAGAATACT
* *
21853781 AAAATACAAAATAGCAAAAAAATATA
1 AAAATACAAAATAGCAAAAAAAAAAA
21853807 AAAATACAAAATA-CAAAAAAAAACAA
1 AAAATACAAAATAGCAAAAAAAAA-AA
21853833 AAAA
1 AAAA
21853837 GAGGGGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.11
Consensus pattern (26 bp):
AAAATACAAAATAGCAAAAAAAAAAA
Found at i:21857826 original size:20 final size:19
Alignment explanation
Indices: 21857781--21857817 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21857771 AATCTCCATC
21857781 TTTTTTATATTTAATTAAA
1 TTTTTTATATTTAATTAAA
* *
21857800 TTTTTTATTTTTTATTAA
1 TTTTTTATATTTAATTAA
21857818 GTATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATATTTAATTAAA
Found at i:21858560 original size:36 final size:37
Alignment explanation
Indices: 21858493--21858566 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
21858483 GTGGACAATT
21858493 AGAAGACTTAACTTGACAATTTTGCACGGCCAGTTGG
1 AGAAGACTTAACTTGACAATTTTGCACGGCCAGTTGG
*
21858530 AGAAGACTTAACTTGATAA-TTTGCACGGCCAGTTGG
1 AGAAGACTTAACTTGACAATTTTGCACGGCCAGTTGG
21858566 A
1 A
21858567 ATACAAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 18 0.50
37 18 0.50
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (37 bp):
AGAAGACTTAACTTGACAATTTTGCACGGCCAGTTGG
Found at i:21858828 original size:15 final size:14
Alignment explanation
Indices: 21858782--21858830 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
21858772 TAAATTTATC
21858782 AAATAAAAAAACAA
1 AAATAAAAAAACAA
*
21858796 AAGTAAAATAAA-ATA
1 AAATAAAA-AAACA-A
21858811 AAATAAAAGAAACAA
1 AAATAAAA-AAACAA
21858826 AAATA
1 AAATA
21858831 TCAAAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 8 0.28
15 20 0.69
16 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (14 bp):
AAATAAAAAAACAA
Found at i:21859742 original size:316 final size:315
Alignment explanation
Indices: 21859167--21859783 Score: 866
Period size: 316 Copynumber: 2.0 Consensus size: 315
21859157 TATTAATTGA
* * * * *
21859167 TAGATTATTACTATAAGTATTATATATCGTTGAAAGCTTATTGAATTTATTTTCTAACAAAATAA
1 TAGATTATTACTATAAGTATTATATATCATTGAAAACTTATTGAATCTACTTTCTAACAAAACAA
** * * **
21859232 ATAGAAGTTGATTTTGAATTTTCTATGAAAATTTTTAATTTTTACTTAAGAATATGCCAACTGTA
66 ATAGAAGTCAATTTTGAATTTTCTATGAAAATGTCTAATTTTTACTTAAGAATATGCCAACTACA
* * * *
21859297 TAGCATAGCATCAGTGATGAATTTCAAAAATTTTCTTAAATTTTATACAAGAAATTACAAATTGA
131 TAGCACAACATCAGTGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGAAATTACAAATTGA
* *
21859362 GCTTTACATTTTTTATGAAAAGTTTATTAAGTCTATTTTCCAACGAAACAAGCAAAACTGAATTT
196 GCTTTACA-TTTTTATGAAAAGGTTATTAAGTCTACTTTCCAACGAAACAAGCAAAACTGAATTT
*
21859427 GGAGTCTCTTGTGAATAACTATGTAATTTTTATTA-AAAGTTTACATACTATCTGG
260 GGAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGTTTACATACTATCTGG
*
21859482 TAGATTATTACTATAAGTATTATATATCATTGGAAAACTTGTTGAATCTACTTTCTAACAAAACA
1 TAGATTATTACTATAAGTATTATATATCATT-GAAAACTTATTGAATCTACTTTCTAACAAAACA
* *
21859547 AATAGAAGTCAATTTTGAATTTTCTATGAAGAGCTGTCTAATTTTTACTTAATG-ATGTG-CAGA
65 AATAGAAGTCAATTTTGAATTTTCTATGAA-A-ATGTCTAATTTTTACTTAA-GAATATGCCA-A
* * *
21859610 CTACATGGCAACAACATTAGTGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGGAATTACA
126 CTACATAGC-ACAACATCAGTGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGAAATTACA
* * * ** *
21859675 AATTGAGCTTTACA-TTTT-TGAAAAGGTTATTAAGTCTACTTTCTAATGAAATAAGTGAAATTG
190 AATTGAGCTTTACATTTTTATGAAAAGGTTATTAAGTCTACTTTCCAACGAAACAAGCAAAACTG
21859738 AATTTGGAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGT
255 AATTTGGAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGT
21859784 ATATAGGCTA
Statistics
Matches: 265, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
315 30 0.11
316 132 0.50
317 12 0.05
318 27 0.10
319 64 0.24
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (315 bp):
TAGATTATTACTATAAGTATTATATATCATTGAAAACTTATTGAATCTACTTTCTAACAAAACAA
ATAGAAGTCAATTTTGAATTTTCTATGAAAATGTCTAATTTTTACTTAAGAATATGCCAACTACA
TAGCACAACATCAGTGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGAAATTACAAATTGA
GCTTTACATTTTTATGAAAAGGTTATTAAGTCTACTTTCCAACGAAACAAGCAAAACTGAATTTG
GAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGTTTACATACTATCTGG
Found at i:21867431 original size:16 final size:16
Alignment explanation
Indices: 21867402--21867442 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
21867392 AGGGTTAGTA
*
21867402 AAAAAATGATATATAC
1 AAAAAATAATATATAC
*
21867418 AAAGAATAATATATAC
1 AAAAAATAATATATAC
21867434 AAAAAATAA
1 AAAAAATAA
21867443 AATGTTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAAAATAATATATAC
Found at i:21868848 original size:16 final size:15
Alignment explanation
Indices: 21868816--21868905 Score: 67
Period size: 16 Copynumber: 5.7 Consensus size: 15
21868806 AATAATAAGC
*
21868816 AAAAAT-AAAACATA
1 AAAAATAAAAAAATA
21868830 AAAAATAAATAAAATA
1 AAAAATAAA-AAAATA
* *
21868846 AAAAGATGAAAAGATGA
1 AAAA-ATAAAAAAAT-A
*
21868863 AAAAACAAAACAAA-A
1 AAAAATAAAA-AAATA
21868878 GAAAAATCAAATAAAATA
1 -AAAAAT-AAA-AAAATA
21868896 AAAAATAAAA
1 AAAAATAAAA
21868906 TGAAATATGA
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
14 6 0.10
15 4 0.07
16 25 0.42
17 23 0.38
18 2 0.03
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:21868906 original size:17 final size:17
Alignment explanation
Indices: 21868817--21868912 Score: 65
Period size: 17 Copynumber: 5.6 Consensus size: 17
21868807 ATAATAAGCA
21868817 AAAATAAAACATAAAAAAT
1 AAAAT-AAA-ATAAAAAAT
21868836 -AAATAAAATAAAAAGAT
1 AAAATAAAATAAAAA-AT
* * *
21868853 -GAA-AAGATGAAAAAAC
1 AAAATAAAAT-AAAAAAT
* *
21868869 AAAACAAAA-GAAAAAT
1 AAAATAAAATAAAAAAT
*
21868885 CAAATAAAATAAAAAAT
1 AAAATAAAATAAAAAAT
*
21868902 AAAATGAAATA
1 AAAATAAAATA
21868913 TGAAAAATGA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
16 24 0.40
17 29 0.48
18 7 0.12
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:21869974 original size:3 final size:3
Alignment explanation
Indices: 21869966--21870000 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21869956 CTAAAACAGA
21869966 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21870001 AAAAAAAAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21874501 original size:57 final size:57
Alignment explanation
Indices: 21874395--21874502 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
21874385 AGAAAATAAC
* * * * *
21874395 GGGGACAGATGTGACAAAGTTTCCTTCGTCATGCATGCTTCTACTCAATCCATTGAT
1 GGGGACAGACGTGACAAAGCTTCCTTCGGCATGCATACTTCCACTCAATCCATTGAT
*
21874452 GGGGACAGACGTGGCAAAGACTT-CTTCGGCATGCATACTTCCA-TCCAATCC
1 GGGGACAGACGTGACAAAG-CTTCCTTCGGCATGCATACTTCCACT-CAATCC
21874503 TTCGAGGACA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
56 1 0.02
57 40 0.93
58 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (57 bp):
GGGGACAGACGTGACAAAGCTTCCTTCGGCATGCATACTTCCACTCAATCCATTGAT
Found at i:21882892 original size:4 final size:4
Alignment explanation
Indices: 21882883--21882925 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
21882873 ATTTTACATC
* *
21882883 TTAT TTAT TTAT TTA- TTAT TTAT CTAT TTAC TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
21882926 GGGTTTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:21882953 original size:3 final size:3
Alignment explanation
Indices: 21882945--21882973 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21882935 TTTTTGGTTG
21882945 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
21882974 CTCTGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21883585 original size:24 final size:25
Alignment explanation
Indices: 21883548--21883595 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
21883538 TGGGAAGTTT
21883548 AAAAGGAGAAAGAGAGAAA-AAAGGG
1 AAAAGGAGAAAGAG-GAAATAAAGGG
*
21883573 AAAA-GAGAGAGAGGAAATAAAGG
1 AAAAGGAGAAAGAGGAAATAAAGG
21883596 AAGTTTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.02
Consensus pattern (25 bp):
AAAAGGAGAAAGAGGAAATAAAGGG
Found at i:21883882 original size:16 final size:16
Alignment explanation
Indices: 21883857--21883898 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21883847 AAACCCTTTT
* *
21883857 TTTTTTTTTTTTTTAG
1 TTTTTATTTTATTTAG
21883873 TTTTTATTTTATTTAG
1 TTTTTATTTTATTTAG
21883889 TTATTTATTT
1 TT-TTTATTT
21883899 ATGTATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTATTTAG
Found at i:21883899 original size:16 final size:15
Alignment explanation
Indices: 21883858--21883914 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
21883848 AACCCTTTTT
* *
21883858 TTTTTTTTTTTTTAG
1 TTTTTATTTATTTAG
21883873 TTTTTATTTTATTTAG
1 TTTTTA-TTTATTTAG
* *
21883889 TTATTTATTTATGTAT
1 TT-TTTATTTATTTAG
21883905 TTGTTTATTT
1 TT-TTTATTT
21883915 TTAGGGGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 5 0.14
16 26 0.74
17 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTATTTATTTAG
Found at i:21884163 original size:13 final size:13
Alignment explanation
Indices: 21884145--21884169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21884135 TAATTAAAAC
21884145 AAAAATAAAAATA
1 AAAAATAAAAATA
21884158 AAAAATAAAAAT
1 AAAAATAAAAAT
21884170 TTAATAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:21888554 original size:13 final size:13
Alignment explanation
Indices: 21888532--21888562 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21888522 CATTAGTAAT
21888532 AAAAAGGAAAAGA
1 AAAAAGGAAAAGA
*
21888545 AAAAATGAAAAGA
1 AAAAAGGAAAAGA
21888558 AAAAA
1 AAAAA
21888563 AATAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AAAAAGGAAAAGA
Found at i:21888575 original size:18 final size:18
Alignment explanation
Indices: 21888552--21888596 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
21888542 AGAAAAAATG
*
21888552 AAAAGAAAAAAAATAGAA
1 AAAAGAAAAAAAAGAGAA
*
21888570 AGAAG-AAAAAAAGAGAA
1 AAAAGAAAAAAAAGAGAA
21888587 AAAAGAAAAA
1 AAAAGAAAAA
21888597 TGAAAGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAAAGAGAA
Found at i:21888579 original size:31 final size:31
Alignment explanation
Indices: 21888541--21888604 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
21888531 TAAAAAGGAA
*
21888541 AAGAAAAAATGA-AAAGAAA-AAAAATAGAAAG
1 AAGAAAAAAAGAGAAA-AAAGAAAAAT-GAAAG
21888572 AAGAAAAAAAGAGAAAAAAGAAAAATGAAAG
1 AAGAAAAAAAGAGAAAAAAGAAAAATGAAAG
21888603 AA
1 AA
21888605 ATGTAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 21 0.70
32 9 0.30
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (31 bp):
AAGAAAAAAAGAGAAAAAAGAAAAATGAAAG
Found at i:21889332 original size:71 final size:71
Alignment explanation
Indices: 21889216--21889397 Score: 276
Period size: 71 Copynumber: 2.6 Consensus size: 71
21889206 CTTGTGAAAT
* * *
21889216 GTGATCAAATGATGGAAATAATATGGATCAGTGGATGAAATTCATGGTTAGTACTGAAAAGCCTA
1 GTGATCAAATGATGGAAATAATGTGGATCAGTGGATGAAATTCATGGCTAATACTGAAAAGCCTA
21889281 TGAATG
66 TGAATG
** *
21889287 GTGATCAAATGATGGAAATAATGTGGATCAGTGGATGAAATTCATGGCTAATGTTGAGAAGCCTA
1 GTGATCAAATGATGGAAATAATGTGGATCAGTGGATGAAATTCATGGCTAATACTGAAAAGCCTA
21889352 TGAATG
66 TGAATG
* *
21889358 GTGATCAAATGAT-GAATATAATGTGGATCATTAGATGAAA
1 GTGATCAAATGATGGAA-ATAATGTGGATCAGTGGATGAAA
21889398 CACATGACTT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
70 3 0.03
71 99 0.97
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.29
Consensus pattern (71 bp):
GTGATCAAATGATGGAAATAATGTGGATCAGTGGATGAAATTCATGGCTAATACTGAAAAGCCTA
TGAATG
Found at i:21890612 original size:43 final size:44
Alignment explanation
Indices: 21890520--21890612 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 44
21890510 TAGAGAAACC
* * * * * *
21890520 TTTATTTTTCTAAAGTTTTTTAGCCTCTGTTTATAGGAGCTTTG
1 TTTATTTTTCAAAAGTTTGTGAGCCTCTGCTTAGAGGAGCTTTA
21890564 TTTATTTTTCAAAAG-TTGTGAGCCTCTGCTTAGAGGAG-TTTA
1 TTTATTTTTCAAAAGTTTGTGAGCCTCTGCTTAGAGGAGCTTTA
21890606 TATTATT
1 T-TTATT
21890613 CAACAAGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.10
43 24 0.57
44 14 0.33
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.51
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTTTGTGAGCCTCTGCTTAGAGGAGCTTTA
Found at i:21890857 original size:4 final size:4
Alignment explanation
Indices: 21890848--21890890 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
21890838 TATTTTACAT
* *
21890848 TTTA TTTA TTTA TTTA TCTA TTTA CTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
21890891 TTGGGCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:21892038 original size:26 final size:24
Alignment explanation
Indices: 21891978--21892041 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
21891968 ATAATTATCC
*
21891978 AATGATGAAATTTTTAGAAATTTTA
1 AATGA-GAAATTTTAAGAAATTTTA
*
21892003 AATGACAAATTTCTAAGAAATTTTTA
1 AATGAGAAATTT-TAAGAAA-TTTTA
**
21892029 GGTGAGAAATTTT
1 AATGAGAAATTTT
21892042 TTCTAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 6 0.19
25 12 0.38
26 14 0.44
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (24 bp):
AATGAGAAATTTTAAGAAATTTTA
Found at i:21902339 original size:57 final size:56
Alignment explanation
Indices: 21902209--21902374 Score: 181
Period size: 57 Copynumber: 2.9 Consensus size: 56
21902199 GAGAGAATAC
* * *
21902209 CGGGAACAGACGTGACAAAGTCCCCTTCGTCATGCATACTTCCATCCAATCCATTGA
1 CGGGAACAAACGTGACAAAGT-TCCTTCGTCATGCATACTTCCATCCAATCCATGGA
* * *
21902266 CTGGAACAAACGTGACAAAGTGTCCTTCGGCATGCATACTTCCATCCAATTCATGGA
1 CGGGAACAAACGTGACAAAGT-TCCTTCGTCATGCATACTTCCATCCAATCCATGGA
* ** * * *
21902323 CGGGGACGGACTTGACAAA-TTCCTCTTCGTCATGTATACTTCCATTCAATCC
1 CGGGAACAAACGTGACAAAGTT-C-CTTCGTCATGCATACTTCCATCCAATCC
21902375 TTTGAGGACG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
55 1 0.01
56 2 0.02
57 88 0.97
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (56 bp):
CGGGAACAAACGTGACAAAGTTCCTTCGTCATGCATACTTCCATCCAATCCATGGA
Found at i:21906860 original size:5 final size:5
Alignment explanation
Indices: 21906852--21906882 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
21906842 CTTTACAATA
21906852 CAACT CAACT CAACT CAACT CAACT CAACT C
1 CAACT CAACT CAACT CAACT CAACT CAACT C
21906883 GTTAATCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CAACT
Found at i:21916882 original size:3 final size:3
Alignment explanation
Indices: 21916874--21916908 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21916864 ATTTTTTCGT
21916874 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
21916909 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21916913 original size:3 final size:3
Alignment explanation
Indices: 21916907--21916964 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
21916897 AATAATAATA
* *
21916907 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21916955 ATT ATT ATT A
1 ATT ATT ATT A
21916965 CCGATTGGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21918258 original size:52 final size:52
Alignment explanation
Indices: 21918127--21918269 Score: 164
Period size: 52 Copynumber: 2.8 Consensus size: 52
21918117 AAACTTGCTC
* * * *
21918127 ATTAAGAATCT-TTCTCATCTTAGAACTCTTTTCTTGTAAGTTAAACTTGTCT
1 ATTAAGAATCTCTT-TCATCTTAGAATTCTTTTCTTGCAAGTCAAACTTATCT
* * * * *
21918179 ATTAAAAATCTCTTTCTTTTTAAAATTCTTCTCTTGCAAGTCAAACTTATCT
1 ATTAAGAATCTCTTTCATCTTAGAATTCTTTTCTTGCAAGTCAAACTTATCT
*
21918231 ATTAAGAATCCTCTTTC-TCTTAGAATTCTTTTTTTGCAA
1 ATTAAGAAT-CTCTTTCATCTTAGAATTCTTTTCTTGCAA
21918270 ATCTTCTTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 66 0.88
53 9 0.12
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (52 bp):
ATTAAGAATCTCTTTCATCTTAGAATTCTTTTCTTGCAAGTCAAACTTATCT
Found at i:21919248 original size:20 final size:20
Alignment explanation
Indices: 21919225--21919270 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21919215 TCATTAATGT
*
21919225 TTTTAATTATTATATTATAA
1 TTTTAAATATTATATTATAA
*
21919245 TTTTAAATATTTTATTAT--
1 TTTTAAATATTATATTATAA
21919263 TTTTAAAT
1 TTTTAAAT
21919271 TAAATATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAAATATTATATTATAA
Found at i:21927917 original size:19 final size:17
Alignment explanation
Indices: 21927883--21927929 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
21927873 AATATTTTAT
21927883 AATTTATATTTTAATTA
1 AATTTATATTTTAATTA
21927900 AATTTATTATTATTAATTA
1 AATTTA-TATT-TTAATTA
* *
21927919 ATTTTAAATTT
1 AATTTATATTT
21927930 GATGCTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATATTTTAATTA
Found at i:21928424 original size:24 final size:24
Alignment explanation
Indices: 21928377--21928424 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21928367 TATTCACATT
*
21928377 TCCTTTTTTTTTTTTTTCTCAGTA
1 TCCTTTTTTTTTTTTTTCTAAGTA
21928401 TCCTTTTTTTTATTTTTT-TAAGTA
1 TCCTTTTTTTT-TTTTTTCTAAGTA
21928425 AAATTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (24 bp):
TCCTTTTTTTTTTTTTTCTAAGTA
Found at i:21929688 original size:17 final size:19
Alignment explanation
Indices: 21929668--21929702 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21929658 AGTTCAAATT
21929668 TACAA-ACA-AAAAAAAAG
1 TACAAGACATAAAAAAAAG
21929685 TACAAGACATAAAAAAAA
1 TACAAGACATAAAAAAAA
21929703 AAAAGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (19 bp):
TACAAGACATAAAAAAAAG
Found at i:21930169 original size:13 final size:13
Alignment explanation
Indices: 21930153--21930177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21930143 TTTTTTCATA
21930153 TTATTTTTATATT
1 TTATTTTTATATT
21930166 TTATTTTTATAT
1 TTATTTTTATAT
21930178 CATTATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:21933454 original size:57 final size:57
Alignment explanation
Indices: 21933365--21933533 Score: 248
Period size: 57 Copynumber: 3.0 Consensus size: 57
21933355 GAGAATAACG
21933365 GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATTGACT
1 GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATTGACT
* * * * *
21933422 GGGACAGACGTGACAAACTCTCCTTCGGCATGCATACTTCCATCCAATTCATGGAGT
1 GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATTGACT
* * * * *
21933479 GGAACAGACTTGACAAAGACTCCTTCGTCATGCATACTTCCATGCAATCCTTTGA
1 GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATTGA
21933534 GGACGTTTGA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 98 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (57 bp):
GGGACAGACGTGACAAAGTCTCCTTCGTCATGCATACTTCCATCCAATCCATTGACT
Found at i:21941936 original size:3 final size:3
Alignment explanation
Indices: 21941923--21941964 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
21941913 ATTTTTCTGT
*
21941923 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21941965 TTATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:21941969 original size:3 final size:3
Alignment explanation
Indices: 21941963--21941992 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21941953 ATAATAATAA
21941963 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21941993 CAATTGGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21943605 original size:3 final size:3
Alignment explanation
Indices: 21943597--21943632 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
21943587 AAGTTTTCCG
21943597 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21943633 TATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21943637 original size:3 final size:3
Alignment explanation
Indices: 21943631--21943668 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21943621 AATAATAATA
21943631 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
21943669 GATCATCATC
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21943858 original size:2 final size:2
Alignment explanation
Indices: 21943851--21943880 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21943841 GATCATGCAT
21943851 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
21943881 AAAGCAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21944930 original size:25 final size:23
Alignment explanation
Indices: 21944902--21944952 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
21944892 TAATACTCTA
* *
21944902 TTTTATTTTATTTTATTCATTAATT
1 TTTTAATTTATTATATT-A-TAATT
21944927 TTTTAATTTATTATATTATAATT
1 TTTTAATTTATTATATTATAATT
21944950 TTT
1 TTT
21944953 AAATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 1 0.04
25 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTAATTTATTATATTATAATT
Found at i:21944944 original size:21 final size:20
Alignment explanation
Indices: 21944907--21944975 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
21944897 CTCTATTTTA
* *
21944907 TTTTATTTTATTCATTAATT
1 TTTTAATTTATTTATTAATT
*
21944927 TTTTAATTTATTATATTATAAT
1 TTTTAATTTATT-TATTA-ATT
*
21944949 TTTTAA-ATATTTTATT-ATT
1 TTTTAATTTA-TTTATTAATT
*
21944968 TTTAAATT
1 TTTTAATT
21944976 AAATATGTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 7 0.18
20 11 0.29
21 10 0.26
22 10 0.26
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAATTTATTTATTAATT
Found at i:21946012 original size:1 final size:1
Alignment explanation
Indices: 21946006--21946037 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
21945996 TGAGGCCTGT
21946006 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
21946038 AAATTACGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:21950702 original size:24 final size:24
Alignment explanation
Indices: 21950654--21950706 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
21950644 TACCAATGGT
* *
21950654 AAAAAAAGAAGTGTGAAATAGTAA
1 AAAAAAAGAAGTGTGAAAGACTAA
*
21950678 AAAAAAAGAAGTGTGATAGACTAA
1 AAAAAAAGAAGTGTGAAAGACTAA
21950702 AAAAA
1 AAAAA
21950707 GAAAGCGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.64, C:0.02, G:0.19, T:0.15
Consensus pattern (24 bp):
AAAAAAAGAAGTGTGAAAGACTAA
Found at i:21955227 original size:17 final size:20
Alignment explanation
Indices: 21955205--21955242 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21955195 GTGGCATGAG
21955205 TTTCC-ATG-TGTCAT-TCT
1 TTTCCAATGCTGTCATCTCT
21955222 TTTCCAATGCTGTCATCTCT
1 TTTCCAATGCTGTCATCTCT
21955242 T
1 T
21955243 CAGTTATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 6 0.33
20 4 0.22
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCCAATGCTGTCATCTCT
Found at i:21957254 original size:15 final size:15
Alignment explanation
Indices: 21957234--21957270 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21957224 ATTAAATTAA
*
21957234 ACCAAAATACAGAAT
1 ACCAAAATACAAAAT
21957249 ACCAAAATACAAAAT
1 ACCAAAATACAAAAT
*
21957264 AGCAAAA
1 ACCAAAA
21957271 AAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.05, T:0.11
Consensus pattern (15 bp):
ACCAAAATACAAAAT
Found at i:21957269 original size:8 final size:7
Alignment explanation
Indices: 21957236--21957295 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
21957226 TAAATTAAAC
21957236 CAAAATA
1 CAAAATA
*
21957243 CAGAATA
1 CAAAATA
21957250 CCAAAATA
1 -CAAAATA
21957258 CAAAATA
1 CAAAATA
21957265 GCAAAA-A
1 -CAAAATA
*
21957272 -AATATA
1 CAAAATA
21957278 -AAAATA
1 CAAAATA
*
21957284 CTAAATA
1 CAAAATA
21957291 CAAAA
1 CAAAA
21957296 AATAAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 3 0.07
6 6 0.14
7 23 0.53
8 11 0.26
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.15
Consensus pattern (7 bp):
CAAAATA
Found at i:21957306 original size:26 final size:26
Alignment explanation
Indices: 21957252--21957307 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
21957242 ACAGAATACC
* *
21957252 AAAATACAAAATAGCAAAAAAATATA
1 AAAATACAAAATAGCAAAAAAAAAAA
*
21957278 AAAATACTAAATA-CAAAAAATAAAAA
1 AAAATACAAAATAGCAAAAAA-AAAAA
21957304 AAAA
1 AAAA
21957308 GAGGGGGCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (26 bp):
AAAATACAAAATAGCAAAAAAAAAAA
Found at i:21958811 original size:12 final size:12
Alignment explanation
Indices: 21958783--21958816 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
21958773 CAAAAGTTTA
21958783 AATTAAT-AAAT
1 AATTAATAAAAT
21958794 -ATTAATAAAAT
1 AATTAATAAAAT
21958805 AATTAATAAAAT
1 AATTAATAAAAT
21958817 TTCTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 4 0.19
12 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AATTAATAAAAT
Found at i:21961206 original size:29 final size:30
Alignment explanation
Indices: 21961158--21961214 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
21961148 TATATAGTTT
* *
21961158 TTTTTATTAAATTAGGATAT-TAAATAATA
1 TTTTTATTAAAATAAGATATATAAATAATA
*
21961187 TTTTTATTAAAATAATATATATAAATAA
1 TTTTTATTAAAATAAGATATATAAATAA
21961215 AATAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTTTATTAAAATAAGATATATAAATAATA
Found at i:21962720 original size:19 final size:19
Alignment explanation
Indices: 21962688--21962724 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21962678 TTTTTCCTAC
21962688 TTTCTTCTCATTTATAAATA
1 TTTCTTCTCATTTA-AAATA
21962708 TTTCTTC-CATTTAAAAT
1 TTTCTTCTCATTTAAAAT
21962725 TCTCTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTCTTCTCATTTAAAATA
Found at i:21962722 original size:17 final size:19
Alignment explanation
Indices: 21962688--21962732 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 19
21962678 TTTTTCCTAC
21962688 TTTCTTCTCATTTATAAATA
1 TTTCTTCTCATTTATAAA-A
21962708 TTTCTTC-CA-TT-TAAAA
1 TTTCTTCTCATTTATAAAA
21962724 TTCTCTTCT
1 TT-TCTTCT
21962733 TTAATTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 2 0.09
19 2 0.09
20 7 0.30
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTCTTCTCATTTATAAAA
Found at i:21964122 original size:20 final size:20
Alignment explanation
Indices: 21964088--21964139 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
21964078 AATTAAATTA
* *
21964088 AAAAACTAAATAAAAA-GGT
1 AAAAACTAAAAAAAAATAGT
*
21964107 AAAAAGTAAAAAAAAATAGT
1 AAAAACTAAAAAAAAATAGT
21964127 AAAAACTAAAAAA
1 AAAAACTAAAAAA
21964140 TTAAAATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAACTAAAAAAAAATAGT
Found at i:21964761 original size:316 final size:318
Alignment explanation
Indices: 21964166--21964784 Score: 897
Period size: 316 Copynumber: 2.0 Consensus size: 318
21964156 TATTAATAGA
* * * *
21964166 TAGATTATTATTATAAGTATTATATATCGTTGGAAAGCTTATTGAATTTACTTTCTAACAAAATA
1 TAGATTATTACTATAAGTATTATATATCATTGGAAAACTTATTGAATTTACTTTCTAACAAAACA
* * *
21964231 AACAGAAGTTGAATTTTGAATTTTCTATGAAGAATTTTTAATTTTTACTTAAGAATGTGCCAACT
66 AACAGAAGTCGAATTTTGAATTTTCTATGAAGAATGTCTAATTTTTACTTAAGAATGTGCCAACT
* * * * * * *
21964296 GCATAGCAATAGCATCAATGATGAATTTCAAAATTTGTGTTAAATTTTATACAAGGAATTACGAA
131 ACATAGCAACAACATCAATGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGGAATTACAAA
*
21964361 TTAAGCTTTACATTTTTTAAAAAGGTTATTAAGTCTATTTTCCAATGAAACAAGCAAAACTGAAT
196 TTAAGCTTTACATTTTTTAAAAAGGTTATTAAGTCTACTTTCCAATGAAACAAGCAAAACTGAAT
*
21964426 TTGGAGTCTCTTGTGAATAACTATGTAATTTTTATTA-AAAGTTTACATACTATCTGG
261 TTGGAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGTTTACATACTATCTGG
*
21964483 TAGATTATTACTATAAGTATTATATATCATTGGAAAACTTGTTGAATTTACTTTCTAACAAAACA
1 TAGATTATTACTATAAGTATTATATATCATTGGAAAACTTATTGAATTTACTTTCTAACAAAACA
* *
21964548 AATAGAAGTCG-ATTTTGAATTTTCTATGAAGAGCTGTCTAATTTTTACTTAATG-ATGTG-CAG
66 AACAGAAGTCGAATTTTGAATTTTCTATGAAGA-ATGTCTAATTTTTACTTAA-GAATGTGCCA-
* * *
21964610 ACTACATGGCAACAACATTAGTGATGAATTTAAAAAATTGTCTTAAA-TTTATACAAGGAATTAC
128 ACTACATAGCAACAACATCAATGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGGAATTAC
* * * * * ** *
21964674 AAATTGAGCTTTACATTTTTTGAAAAGGTTATTAGGTCTACTTTCTAATGAAATAAGTGAAATTG
193 AAATTAAGCTTTACATTTTTTAAAAAGGTTATTAAGTCTACTTTCCAATGAAACAAGCAAAACTG
*
21964739 AATTTGGAGTGTCTTATGAATAACTATGTAATTTTTATTAGAAAGT
258 AATTTGGAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGT
21964785 ATATAGGCTA
Statistics
Matches: 267, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
316 133 0.50
317 133 0.50
318 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (318 bp):
TAGATTATTACTATAAGTATTATATATCATTGGAAAACTTATTGAATTTACTTTCTAACAAAACA
AACAGAAGTCGAATTTTGAATTTTCTATGAAGAATGTCTAATTTTTACTTAAGAATGTGCCAACT
ACATAGCAACAACATCAATGATGAATTTAAAAAATTGTCTTAAATTTTATACAAGGAATTACAAA
TTAAGCTTTACATTTTTTAAAAAGGTTATTAAGTCTACTTTCCAATGAAACAAGCAAAACTGAAT
TTGGAGTCTCTTATGAATAACTATGTAATTTTTATTAGAAAGTTTACATACTATCTGG
Found at i:21965016 original size:33 final size:33
Alignment explanation
Indices: 21964974--21965041 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
21964964 GGCTACAAGA
**
21964974 TTAGTTAGTTGAGTTAACTCTTGTATAACTTAG
1 TTAGTTAGTTGAGTTAACTCTCATATAACTTAG
21965007 TTAGTTAGTTGAGTTAACTCTCATATAACTTAG
1 TTAGTTAGTTGAGTTAACTCTCATATAACTTAG
21965040 TT
1 TT
21965042 GTTTTTAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (33 bp):
TTAGTTAGTTGAGTTAACTCTCATATAACTTAG
Found at i:21968725 original size:29 final size:30
Alignment explanation
Indices: 21968666--21968725 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21968656 AGTTTCATTG
* *
21968666 AATAAAAATAAATATTTAAAAATTTAATTA
1 AATAAAAATAAATATTTAAAAAGTCAATTA
* *
21968696 AATAAAAATATATATTT-AAAAGTCAGTTA
1 AATAAAAATAAATATTTAAAAAGTCAATTA
21968725 A
1 A
21968726 TTTAGAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (30 bp):
AATAAAAATAAATATTTAAAAAGTCAATTA
Found at i:21968788 original size:19 final size:20
Alignment explanation
Indices: 21968754--21968791 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21968744 TGATTTAATT
21968754 ATTTATAATAAATATTAAAA
1 ATTTATAATAAATATTAAAA
*
21968774 ATTTA-AATAATTATTAAA
1 ATTTATAATAAATATTAAA
21968792 TTTTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTATAATAAATATTAAAA
Found at i:21968797 original size:19 final size:20
Alignment explanation
Indices: 21968750--21968798 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
21968740 TTCATGATTT
21968750 AATTATTTATAATAAATATTA
1 AATT-TTTATAATAAATATTA
** *
21968771 AAAATTTA-AATAATTATTA
1 AATTTTTATAATAAATATTA
21968790 AATTTTTAT
1 AATTTTTAT
21968799 TTGAGCGTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 16 0.73
20 4 0.18
21 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTTTATAATAAATATTA
Found at i:21969133 original size:13 final size:13
Alignment explanation
Indices: 21969115--21969163 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
21969105 AAAATAAATT
21969115 AAATTAAATTAAA
1 AAATTAAATTAAA
21969128 AAATTAAA-TAAA
1 AAATTAAATTAAA
* *
21969140 AAGTTAAAGGTAAA
1 AAATTAAA-TTAAA
*
21969154 AAAATAAATT
1 AAATTAAATT
21969164 TAACAAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 11 0.37
13 9 0.30
14 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (13 bp):
AAATTAAATTAAA
Found at i:21970712 original size:16 final size:16
Alignment explanation
Indices: 21970664--21970720 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
21970654 TAAAGGATGG
*
21970664 ATAATAAAAAATTAAA
1 ATAACAAAAAATTAAA
*
21970680 TTAA-AAAACAATTAAA
1 ATAACAAAA-AATTAAA
*
21970696 ATAACAAAAAATAAAA
1 ATAACAAAAAATTAAA
21970712 ATAACAAAA
1 ATAACAAAA
21970721 CCACCTAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 4 0.11
16 28 0.78
17 4 0.11
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAACAAAAAATTAAA
Found at i:21973628 original size:22 final size:22
Alignment explanation
Indices: 21973585--21973630 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
21973575 AAATATATCT
* * *
21973585 AATTAAAGTATGAATAATAAAA
1 AATTAAAGTATAAACAAAAAAA
*
21973607 AATTAAATTATAAACAAAAAAA
1 AATTAAAGTATAAACAAAAAAA
21973629 AA
1 AA
21973631 AAAACAACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AATTAAAGTATAAACAAAAAAA
Found at i:21981377 original size:16 final size:14
Alignment explanation
Indices: 21981354--21981389 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
21981344 AAAAGTAATT
21981354 AAAAAATTTTATTTA
1 AAAAAATTTT-TTTA
21981369 AAAATAATTTTTTTA
1 AAAA-AATTTTTTTA
21981384 AAAAAA
1 AAAAAA
21981390 ATGTGAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAAATTTTTTTA
Found at i:21983796 original size:22 final size:22
Alignment explanation
Indices: 21983770--21983813 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21983760 CTGTATATTT
*
21983770 ATATTTGTATCTCTAAAATTAA
1 ATATTTGTATCCCTAAAATTAA
*
21983792 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCCTAAAATTAA
21983814 TGACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATTTGTATCCCTAAAATTAA
Found at i:21984018 original size:15 final size:15
Alignment explanation
Indices: 21983995--21984024 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21983985 GAGGGGAGGG
21983995 GAAAGAAAGGAAAGT
1 GAAAGAAAGGAAAGT
*
21984010 GAAATAAAGGAAAGT
1 GAAAGAAAGGAAAGT
21984025 AATGGAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (15 bp):
GAAAGAAAGGAAAGT
Found at i:21984244 original size:18 final size:20
Alignment explanation
Indices: 21984207--21984244 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
21984197 AAAGACTATT
*
21984207 ACATTCATATTTTTATTATG
1 ACATTCATATTTTGATTATG
21984227 ACATT-ATA-TTTGATTATG
1 ACATTCATATTTTGATTATG
21984245 TAACTGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (20 bp):
ACATTCATATTTTGATTATG
Found at i:21988756 original size:22 final size:22
Alignment explanation
Indices: 21988716--21988758 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21988706 TGTATGTTTA
*
21988716 TATTTGTATCTCTATAATTAAG
1 TATTTGTATCTCTAGAATTAAG
21988738 TATTTGTATCAT-TAGAATTAA
1 TATTTGTATC-TCTAGAATTAA
21988759 TGGTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (22 bp):
TATTTGTATCTCTAGAATTAAG
Found at i:21991107 original size:2 final size:2
Alignment explanation
Indices: 21991102--21991126 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21991092 AAAAAAAAAA
21991102 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
21991127 CAATATTTAA
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:21995459 original size:27 final size:27
Alignment explanation
Indices: 21995423--21995476 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
21995413 AAAAATAAAA
*
21995423 TTTGATAACTTTTAATATAATTTTGAT
1 TTTGATAACTTTTAATAAAATTTTGAT
*
21995450 TTTGATAACTTTTGATAAAATTTTGAT
1 TTTGATAACTTTTAATAAAATTTTGAT
21995477 AATATTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTGATAACTTTTAATAAAATTTTGAT
Found at i:21995474 original size:21 final size:21
Alignment explanation
Indices: 21995448--21995579 Score: 83
Period size: 21 Copynumber: 6.2 Consensus size: 21
21995438 TATAATTTTG
*
21995448 ATTTTGATAACTTTTGATAAA
1 ATTTTGATAACTTTTGATATA
**
21995469 ATTTTGATAA-TATTTGATACG
1 ATTTTGATAACT-TTTGATATA
* * *
21995490 ATTTTGGTAACATTTCATATTA
1 ATTTTGATAACTTTTGATA-TA
* * *
21995512 A-TTTGGTAACTTATAATATA
1 ATTTTGATAACTTTTGATATA
**
21995532 ATTTT-AGTAACAATTGAT-TAA
1 ATTTTGA-TAACTTTTGATAT-A
*
21995553 ATTTTGATAATCTCTTGATATA
1 ATTTTGATAA-CTTTTGATATA
21995575 ATTTT
1 ATTTT
21995580 AGTAATTAAC
Statistics
Matches: 85, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
20 5 0.06
21 65 0.76
22 14 0.16
23 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (21 bp):
ATTTTGATAACTTTTGATATA
Found at i:21995585 original size:22 final size:22
Alignment explanation
Indices: 21995527--21995585 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
21995517 GTAACTTATA
21995527 ATATAATTTTAGTAA-CAATTG
1 ATATAATTTTAGTAATCAATTG
**
21995548 AT-TAAATTTT-GATAATCTCTTG
1 ATAT-AATTTTAG-TAATCAATTG
21995570 ATATAATTTTAGTAAT
1 ATATAATTTTAGTAAT
21995586 TAACCTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.06
21 11 0.35
22 16 0.52
23 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (22 bp):
ATATAATTTTAGTAATCAATTG
Found at i:21995628 original size:21 final size:21
Alignment explanation
Indices: 21995590--21995629 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21995580 AGTAATTAAC
*
21995590 CTTTTAGTAATTTATAATATA
1 CTTTTAGTAATATATAATATA
21995611 CTTTTAGTAATCAT-TAATA
1 CTTTTAGTAAT-ATATAATA
21995630 AAATTTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
CTTTTAGTAATATATAATATA
Found at i:21995772 original size:13 final size:14
Alignment explanation
Indices: 21995743--21995774 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21995733 TCATTCAAAT
21995743 TTAAAATTTTTTCA
1 TTAAAATTTTTTCA
21995757 TTAAAATTTTTT-A
1 TTAAAATTTTTTCA
21995770 TTAAA
1 TTAAA
21995775 TAGATTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAAAATTTTTTCA
Found at i:21996018 original size:22 final size:22
Alignment explanation
Indices: 21995990--21996038 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
21995980 AATAGCATTG
* *
21995990 ATTTACTGCTAATTTATGAATA
1 ATTTACTGCTAAGTTATAAATA
*
21996012 ATTTACTTCTAAGTTATAAATA
1 ATTTACTGCTAAGTTATAAATA
21996034 ATTTA
1 ATTTA
21996039 TTACTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTACTGCTAAGTTATAAATA
Found at i:21996045 original size:22 final size:22
Alignment explanation
Indices: 21995998--21996116 Score: 64
Period size: 22 Copynumber: 5.4 Consensus size: 22
21995988 TGATTTACTG
* *
21995998 CTAATTTATGAATAATTTACTT-
1 CTAAATTATAAATAATTTA-TTA
*
21996020 CTAAGTTATAAATAATTTATTA
1 CTAAATTATAAATAATTTATTA
** * **
21996042 CTAAATTATTGATGATTTGCTA
1 CTAAATTATAAATAATTTATTA
* * * *
21996064 CTAAGTTATTAATGATTTGTTA
1 CTAAATTATAAATAATTTATTA
21996086 -TAAAATTATAACA-AATTTATTA
1 CT-AAATTATAA-ATAATTTATTA
* *
21996108 TTAATTTAT
1 CTAAATTAT
21996117 TGATGATTTA
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.04
22 72 0.94
23 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (22 bp):
CTAAATTATAAATAATTTATTA
Found at i:21996230 original size:44 final size:44
Alignment explanation
Indices: 21996182--21996278 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
21996172 ATTTTTTATG
** * * *
21996182 CTAAATTATCACTAATTTATAACTACATTATTAGTGATTTACTA
1 CTAAATTATCAAAAATTTACAACTAAATTATTAATGATTTACTA
* *
21996226 CTAAATAATCAAAAATTTACATCTAAATTATTAATGATTTACTA
1 CTAAATTATCAAAAATTTACAACTAAATTATTAATGATTTACTA
21996270 -TAATATTAT
1 CTAA-ATTAT
21996279 TATACATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 3 0.07
44 41 0.93
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.42
Consensus pattern (44 bp):
CTAAATTATCAAAAATTTACAACTAAATTATTAATGATTTACTA
Found at i:21996265 original size:22 final size:21
Alignment explanation
Indices: 21996208--21996280 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
21996198 TTATAACTAC
*
21996208 ATTATTAGTGATTTACTACTAA
1 ATTATTAATGATTTACT-CTAA
* * **
21996230 ATAATCAAAAATTTACATCTAA
1 ATTATTAATGATTTAC-TCTAA
*
21996252 ATTATTAATGATTTACTATAA
1 ATTATTAATGATTTACTCTAA
21996273 TATTATTA
1 -ATTATTA
21996281 TACATATACT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTATTAATGATTTACTCTAA
Found at i:21996312 original size:22 final size:22
Alignment explanation
Indices: 21996260--21996346 Score: 54
Period size: 22 Copynumber: 4.0 Consensus size: 22
21996250 AAATTATTAA
*
21996260 TGATTTACTATAATATTATTAT
1 TGATTTACTATAATATTATCAT
** * * *
21996282 ACATATACTATTATGTTATCAT
1 TGATTTACTATAATATTATCAT
* *
21996304 TGATTTACTACTTAAT-TTTTGAT
1 TGATTTACTA--TAATATTATCAT
21996327 T-ATTTACTATAA-ATTCATCA
1 TGATTTACTATAATATT-ATCA
21996347 CAAATTTATT
Statistics
Matches: 47, Mismatches: 14, Indels: 9
0.67 0.20 0.13
Matches are distributed among these distances:
20 5 0.11
21 2 0.04
22 31 0.66
23 6 0.13
24 3 0.06
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (22 bp):
TGATTTACTATAATATTATCAT
Found at i:21996431 original size:22 final size:22
Alignment explanation
Indices: 21996392--21996541 Score: 112
Period size: 22 Copynumber: 6.8 Consensus size: 22
21996382 ACGTTATCGT
21996392 TAATTTA-TATTCAA-TTATTTA
1 TAATTTACTATT-AAGTTATTTA
*
21996413 TAATTTACTATTAAGTTATTAA
1 TAATTTACTATTAAGTTATTTA
* *
21996435 TAATTAACTACTATTAAATTATAT-
1 TAATT---TACTATTAAGTTATTTA
*
21996459 TAATTTACTTTTAAGTT-TTTAA
1 TAATTTACTATTAAGTTATTT-A
* * * *
21996481 TTATTAATTATTAAATTA-TTA
1 TAATTTACTATTAAGTTATTTA
* *
21996502 TTGATTTACTATTAAGTTATTCA
1 -TAATTTACTATTAAGTTATTTA
*
21996525 TAATTTACTACTAAGTT
1 TAATTTACTATTAAGTT
21996542 TATCAATTAA
Statistics
Matches: 100, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
20 2 0.02
21 20 0.20
22 58 0.58
23 2 0.02
24 5 0.05
25 13 0.13
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (22 bp):
TAATTTACTATTAAGTTATTTA
Found at i:21996446 original size:25 final size:23
Alignment explanation
Indices: 21996406--21996590 Score: 106
Period size: 22 Copynumber: 8.3 Consensus size: 23
21996396 TTATATTCAA
*
21996406 TTATTTATAATT-TACTATTAAG
1 TTATTAATAATTATACTATTAAG
*
21996428 TTATTAATAATTAACTACTATTAAA
1 TTATTAATAATT-A-TACTATTAAG
* *
21996453 TTA-TATTAATT-TACTTTTAAG
1 TTATTAATAATTATACTATTAAG
* * * *
21996474 TTTTTAATTATTA-ATTATTAAA
1 TTATTAATAATTATACTATTAAG
* *
21996496 TTATTATTGATT-TACTATTAAG
1 TTATTAATAATTATACTATTAAG
* *
21996518 TTATTCATAATT-TACTACTAAG
1 TTATTAATAATTATACTATTAAG
*
21996540 TTTATCAATTAATTATTACTA--AA-
1 -TTATTAA-TAATTA-TACTATTAAG
21996563 TTGA--AATTAATT-TACTATTAAG
1 TT-ATTAA-TAATTATACTATTAAG
21996585 TTATTA
1 TTATTA
21996591 TTATTTTATT
Statistics
Matches: 125, Mismatches: 22, Indels: 31
0.70 0.12 0.17
Matches are distributed among these distances:
19 5 0.04
21 21 0.17
22 61 0.49
23 7 0.06
24 14 0.11
25 12 0.10
26 5 0.04
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (23 bp):
TTATTAATAATTATACTATTAAG
Found at i:21996582 original size:11 final size:11
Alignment explanation
Indices: 21996413--21996604 Score: 56
Period size: 11 Copynumber: 17.2 Consensus size: 11
21996403 CAATTATTTA
21996413 TAATTTACTAT
1 TAATTTACTAT
* * *
21996424 TAAGTTATTAA
1 TAATTTACTAT
21996435 TAATTAACTACTAT
1 TAATT---TACTAT
*
21996449 TAAATTA-TAT
1 TAATTTACTAT
*
21996459 TAATTTACTTT
1 TAATTTACTAT
*
21996470 TAAGTTT-TTAAT
1 TAA-TTTACT-AT
* *
21996482 T-ATTAATTAT
1 TAATTTACTAT
* *
21996492 TAAATTATTAT
1 TAATTTACTAT
*
21996503 TGATTTACTAT
1 TAATTTACTAT
* *
21996514 TAAGTTATTCA-
1 TAATTTACT-AT
*
21996525 TAATTTACTAC
1 TAATTTACTAT
*
21996536 TAAGTTTATCAAT
1 TAA-TTTA-CTAT
21996549 TAATTATTACTA-
1 TAA-T-TTACTAT
* *
21996561 -AATTGA-AAT
1 TAATTTACTAT
21996570 TAATTTACTAT
1 TAATTTACTAT
* *
21996581 TAAGTTATTAT
1 TAATTTACTAT
* *
21996592 TATTTTATTAT
1 TAATTTACTAT
21996603 TA
1 TA
21996605 TGTTACCATT
Statistics
Matches: 131, Mismatches: 34, Indels: 32
0.66 0.17 0.16
Matches are distributed among these distances:
8 1 0.01
9 2 0.02
10 21 0.16
11 78 0.60
12 10 0.08
13 8 0.06
14 11 0.08
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (11 bp):
TAATTTACTAT
Found at i:21996598 original size:22 final size:22
Alignment explanation
Indices: 21996416--21996625 Score: 89
Period size: 22 Copynumber: 9.5 Consensus size: 22
21996406 TTATTTATAA
*
21996416 TTTACTATTAAGTTATTAATAAT
1 TTTACTATTAAGTTATT-ATTAT
* * *
21996439 TAACTACTATTAAATTA-TATTAA
1 T--TTACTATTAAGTTATTATTAT
* *
21996462 TTTACTTTTAAGTTTTTAATTA-
1 TTTACTATTAAGTTATT-ATTAT
* * *
21996484 TTAATTATTAAATTATTATTGA-
1 TTTACTATTAAGTTATTATT-AT
*
21996506 TTTACTATTAAGTTATTCA-TAA
1 TTTACTATTAAGTTATT-ATTAT
* *
21996528 TTTACTACTAAGTTTATCAATTAAT
1 TTTACTATTAAG-TTAT-TATT-AT
* *
21996553 TATTACTA--AA-TTGA-AATTAA
1 T-TTACTATTAAGTT-ATTATTAT
21996573 TTTACTATTAAGTTATTATTAT
1 TTTACTATTAAGTTATTATTAT
* * **
21996595 TTTATTATTATGTTACCATT-T
1 TTTACTATTAAGTTATTATTAT
21996616 TTT-CTATTAA
1 TTTACTATTAA
21996626 CCTATCATTA
Statistics
Matches: 142, Mismatches: 28, Indels: 37
0.69 0.14 0.18
Matches are distributed among these distances:
19 6 0.04
20 7 0.05
21 25 0.18
22 64 0.45
23 16 0.11
24 4 0.03
25 14 0.10
26 6 0.04
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTACTATTAAGTTATTATTAT
Found at i:21996931 original size:26 final size:26
Alignment explanation
Indices: 21996897--21996947 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21996887 CAATGACTGA
* *
21996897 TAATAAAGTTATTAATTATTTACTAT
1 TAATAAAGTAATTAATAATTTACTAT
*
21996923 TAATTAAGTAATTAATAATTTACTA
1 TAATAAAGTAATTAATAATTTACTA
21996948 CTAAATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
TAATAAAGTAATTAATAATTTACTAT
Found at i:21996966 original size:22 final size:22
Alignment explanation
Indices: 21996940--21997121 Score: 97
Period size: 22 Copynumber: 8.4 Consensus size: 22
21996930 GTAATTAATA
*
21996940 ATTTACTACTAAATTATCAATG
1 ATTTACTATTAAATTATCAATG
* * * *
21996962 ATTTACTTTTAATTTATGAGTG
1 ATTTACTATTAAATTATCAATG
* * * *
21996984 ATTGACCATTAAGTTATGAATG
1 ATTTACTATTAAATTATCAATG
* * *
21997006 ATTT-CTATTAAATTGTTAGTG
1 ATTTACTATTAAATTATCAATG
* * * *
21997027 ATCTACCACTAAGTTA-CTAATG
1 ATTTACTATTAAATTATC-AATG
*
21997049 A-TTATTA-TAAATTTAT-AATTG
1 ATTTACTATTAAA-TTATCAA-TG
*
21997070 ATTTACTATTAATTTATCAATG
1 ATTTACTATTAAATTATCAATG
* *
21997092 ATTTACTA-AAAAGTTAGCAATG
1 ATTTACTATTAAA-TTATCAATG
*
21997114 ATTAACTA
1 ATTTACTA
21997122 ATTTATTATT
Statistics
Matches: 118, Mismatches: 33, Indels: 18
0.70 0.20 0.11
Matches are distributed among these distances:
20 5 0.04
21 26 0.22
22 82 0.69
23 5 0.04
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATG
Found at i:21997040 original size:43 final size:43
Alignment explanation
Indices: 21996947--21997099 Score: 107
Period size: 43 Copynumber: 3.5 Consensus size: 43
21996937 ATAATTTACT
* * *
21996947 ACTAAATTATCAATGATTTACTTTTAATTTATGAGTGATTGACC
1 ACTAAGTTAT-AATGATTTACTATTAAATTATGAGTGATTGACC
* * *
21996991 ATTAAGTTATGAATGATTT-CTATTAAATTGTTAGTGATCT-ACC
1 ACTAAGTTAT-AATGATTTACTATTAAATTATGAGTGAT-TGACC
* * * * *
21997034 ACTAAGTTACTAATGA-TTATTA-TAAATTTATAATTGATTTACT
1 ACTAAGTTA-TAATGATTTACTATTAAA-TTATGAGTGATTGACC
* *
21997077 ATTAATTTATCAATGATTTACTA
1 ACTAAGTTAT-AATGATTTACTA
21997100 AAAAGTTAGC
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 8 0.09
43 55 0.64
44 23 0.27
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (43 bp):
ACTAAGTTATAATGATTTACTATTAAATTATGAGTGATTGACC
Found at i:21997181 original size:22 final size:22
Alignment explanation
Indices: 21997154--21997206 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
21997144 ATTTTTAATT
21997154 AAGTTATTAGTAATTTACTATC
1 AAGTTATTAGTAATTTACTATC
* * *
21997176 ATGTTATTAGTGATTTACTATT
1 AAGTTATTAGTAATTTACTATC
21997198 AAGTTATTA
1 AAGTTATTA
21997207 ACTTACTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (22 bp):
AAGTTATTAGTAATTTACTATC
Found at i:21997214 original size:19 final size:19
Alignment explanation
Indices: 21997190--21997226 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21997180 TATTAGTGAT
* *
21997190 TTACTATTAAGTTATTAAC
1 TTACTACTAAATTATTAAC
21997209 TTACTACTAAATTATTAA
1 TTACTACTAAATTATTAA
21997227 TTATTTCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (19 bp):
TTACTACTAAATTATTAAC
Found at i:21997277 original size:22 final size:21
Alignment explanation
Indices: 21997164--21997278 Score: 69
Period size: 22 Copynumber: 5.5 Consensus size: 21
21997154 AAGTTATTAG
* * *
21997164 TAATTTACTATCATGTTATTAG
1 TAATTTACTATTATATTA-TAT
* *
21997186 TGATTTACTATTA-AGT-TAT
1 TAATTTACTATTATATTATAT
* * *
21997205 TAACTTACTACTAAATTATTAAT
1 TAATTTACTATTATATTA-T-AT
*
21997228 T-ATTTCCTATTATATT-T-T
1 TAATTTACTATTATATTATAT
21997246 TATATTTACTATTATATTATCAT
1 TA-ATTTACTATTATATTAT-AT
21997269 TAATTTACTA
1 TAATTTACTA
21997279 CTTAATTTTC
Statistics
Matches: 70, Mismatches: 14, Indels: 18
0.69 0.14 0.18
Matches are distributed among these distances:
18 2 0.03
19 12 0.17
20 17 0.24
21 2 0.03
22 31 0.44
23 6 0.09
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TAATTTACTATTATATTATAT
Found at i:21997296 original size:22 final size:21
Alignment explanation
Indices: 21997226--21997297 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 21
21997216 TAAATTATTA
*
21997226 ATTATTTCCTATTATATTTTT
1 ATTATTTACTATTATATTTTT
* *
21997247 A-TATTTACTATTATATTATC
1 ATTATTTACTATTATATTTTT
21997267 ATTAATTTACTACTTA-ATTTTCT
1 ATT-ATTTACTA-TTATATTTT-T
21997290 ATTATTTA
1 ATTATTTA
21997298 TTACAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 17 0.40
21 2 0.05
22 17 0.40
23 6 0.14
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTTACTATTATATTTTT
Found at i:21997514 original size:21 final size:21
Alignment explanation
Indices: 21997472--21997539 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
21997462 ATTTTTTTAA
*
21997472 AAATTTTCAATAATTAACTACT
1 AAATTATCAATAATT-ACTACT
21997494 AAATTATCAATAATTACTACT
1 AAATTATCAATAATTACTACT
* * *
21997515 AATTTATCATTGATTTACTACT
1 AAATTATCAAT-AATTACTACT
21997537 AAA
1 AAA
21997540 CTATTTATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.38
22 25 0.62
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.41
Consensus pattern (21 bp):
AAATTATCAATAATTACTACT
Found at i:21997546 original size:26 final size:24
Alignment explanation
Indices: 21997516--21997563 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
21997506 ATTACTACTA
21997516 ATTTATCATTGATTTACTACTAAACT
1 ATTTATCATTGA-TTACTA-TAAACT
* *
21997542 ATTTATGATTTATTACTATAAA
1 ATTTATCATTGATTACTATAAA
21997564 TTAATTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 6 0.30
26 10 0.50
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (24 bp):
ATTTATCATTGATTACTATAAACT
Found at i:21997613 original size:22 final size:22
Alignment explanation
Indices: 21997588--21997648 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
21997578 ACAGAAATTG
21997588 ATTTACTATTAAATTATTACTA
1 ATTTACTATTAAATTATTACTA
* * *
21997610 ATTTACTATTAAGTTATTATTG
1 ATTTACTATTAAATTATTACTA
* *
21997632 ATTTATTACTAAATTAT
1 ATTTACTATTAAATTAT
21997649 CAATAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAATTATTACTA
Done.