Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 58 of 109
Found at i:11508967 original size:20 final size:19
Alignment explanation
Indices: 11508929--11508973 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11508919 TTATTAAAAG
11508929 ATTTAAATGATAGTGAAAT
1 ATTTAAATGATAGTGAAAT
* *
11508948 ATTTAATATGATATTTAAAT
1 ATTTAA-ATGATAGTGAAAT
11508968 -TTTAAA
1 ATTTAAA
11508974 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 11 0.48
20 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (19 bp):
ATTTAAATGATAGTGAAAT
Found at i:11516432 original size:23 final size:23
Alignment explanation
Indices: 11516401--11516455 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
11516391 AGATTTAAAG
11516401 TTTA-GTTTAGGATTTATG-GGGC
1 TTTAGGTTTAGGATTTA-GAGGGC
*
11516423 TTTAGGTTTAGGGTTTAGAGGGC
1 TTTAGGTTTAGGATTTAGAGGGC
11516446 TTTAGGTTTA
1 TTTAGGTTTA
11516456 TGTTTAAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.45
Consensus pattern (23 bp):
TTTAGGTTTAGGATTTAGAGGGC
Found at i:11516616 original size:18 final size:18
Alignment explanation
Indices: 11516581--11516627 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
11516571 TTAAAGTTTT
**
11516581 GGTT-AGGTTTAGGGTAA
1 GGTTAAGGTTTAGACTAA
*
11516598 GTTTAAGGTTTAGACTAA
1 GGTTAAGGTTTAGACTAA
*
11516616 GGTTAGGGTTTA
1 GGTTAAGGTTTA
11516628 TGTTTTGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.26, C:0.02, G:0.34, T:0.38
Consensus pattern (18 bp):
GGTTAAGGTTTAGACTAA
Found at i:11516654 original size:20 final size:20
Alignment explanation
Indices: 11516618--11516695 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
11516608 TAGACTAAGG
* *
11516618 TTAGGGTTTATGTTTTGATT
1 TTAGGGTTTAAGGTTTGATT
**
11516638 TTAGGGTTTAAGGTTTGGCT
1 TTAGGGTTTAAGGTTTGATT
* *
11516658 TTAGAGTTTTATGG-TTGATT
1 TTAG-GGTTTAAGGTTTGATT
11516678 TT-GGGTATTAAGGTTTGA
1 TTAGGGT-TTAAGGTTTGA
11516696 CTGTAAGGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 2 0.04
19 6 0.13
20 30 0.67
21 7 0.16
ACGTcount: A:0.18, C:0.01, G:0.29, T:0.51
Consensus pattern (20 bp):
TTAGGGTTTAAGGTTTGATT
Found at i:11516718 original size:14 final size:14
Alignment explanation
Indices: 11516699--11516729 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
11516689 GGTTTGACTG
11516699 TAAGGTTTAAAGTT
1 TAAGGTTTAAAGTT
11516713 TAAGGTTTAAAGTT
1 TAAGGTTTAAAGTT
11516727 TAA
1 TAA
11516730 CTTTGGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (14 bp):
TAAGGTTTAAAGTT
Found at i:11516748 original size:26 final size:26
Alignment explanation
Indices: 11516710--11516761 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11516700 AAGGTTTAAA
*
11516710 GTTTAAGGTTTAAAGTTTAACTTTGG
1 GTTTAAGGGTTAAAGTTTAACTTTGG
* * *
11516736 GTTTTAGGGTTAAGGTTTGACTTTGG
1 GTTTAAGGGTTAAAGTTTAACTTTGG
11516762 TTTCATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (26 bp):
GTTTAAGGGTTAAAGTTTAACTTTGG
Found at i:11516815 original size:20 final size:20
Alignment explanation
Indices: 11516792--11516830 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11516782 AAGGTTTATG
11516792 GTTTGCCTTTAGAGTTTGAA
1 GTTTGCCTTTAGAGTTTGAA
** *
11516812 GTTTGGTTTTAGGGTTTGA
1 GTTTGCCTTTAGAGTTTGA
11516831 CTTTGAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.05, G:0.31, T:0.49
Consensus pattern (20 bp):
GTTTGCCTTTAGAGTTTGAA
Found at i:11516841 original size:20 final size:20
Alignment explanation
Indices: 11516799--11517065 Score: 135
Period size: 20 Copynumber: 13.5 Consensus size: 20
11516789 ATGGTTTGCC
* *
11516799 TTTAGAGTTTGAAGTTTG-GT
1 TTTAGGGTTTG-ACTTTGAGT
*
11516819 TTTAGGGTTTGACTTTGAAT
1 TTTAGGGTTTGACTTTGAGT
* * * *
11516839 TTT-GAGATTTGACGTTAGGGG
1 TTTAG-GGTTTGAC-TTTGAGT
* * *
11516860 TTTAGGGTTTGATTTTAATATT
1 TTTAGGGTTTGACTTT--GAGT
* *
11516882 TTTAGTGTTTGACTTT-AGGG
1 TTTAGGGTTTGACTTTGA-GT
* *
11516902 TTTAGGATTTGACTATTGGGT
1 TTTAGGGTTTGACT-TTGAGT
* *
11516923 TTTAAGGTTTGACTTTGGGT
1 TTTAGGGTTTGACTTTGAGT
**
11516943 TTTA--G---GA-TTT-AAC
1 TTTAGGGTTTGACTTTGAGT
*
11516956 TTTAGGGTTTGACTTTGTGT
1 TTTAGGGTTTGACTTTGAGT
* *
11516976 TTTAGTGTTTGACTTTG-GG
1 TTTAGGGTTTGACTTTGAGT
11516995 TTTAGGGTTTGACTTTGAGT
1 TTTAGGGTTTGACTTTGAGT
* * *
11517015 TTTAGAGTTTGACTTTATAAT
1 TTTAGGGTTTGACTTT-GAGT
**
11517036 TTTAGCATTTGACTTTG-GCT
1 TTTAGGGTTTGACTTTGAG-T
11517056 TTTAGGGTTT
1 TTTAGGGTTT
11517066 TCCATATTTT
Statistics
Matches: 184, Mismatches: 44, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
13 4 0.02
14 3 0.02
15 3 0.02
18 3 0.02
19 27 0.15
20 86 0.47
21 43 0.23
22 15 0.08
ACGTcount: A:0.18, C:0.05, G:0.27, T:0.51
Consensus pattern (20 bp):
TTTAGGGTTTGACTTTGAGT
Found at i:11516903 original size:42 final size:41
Alignment explanation
Indices: 11516819--11516915 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 41
11516809 GAAGTTTGGT
*
11516819 TTTAGGGTTTGACTTTGAATTTTGAGATTTGACGTTAGGGG
1 TTTAGGGTTTGACTTTAAATTTTGAGATTTGACGTTAGGGG
* * * *
11516860 TTTAGGGTTTGATTTTAATATTTTTAGTGTTTGACTTTA-GGG
1 TTTAGGGTTTGACTTTAA-ATTTTGAG-ATTTGACGTTAGGGG
*
11516902 TTTAGGATTTGACT
1 TTTAGGGTTTGACT
11516916 ATTGGGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 16 0.34
42 22 0.47
43 9 0.19
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (41 bp):
TTTAGGGTTTGACTTTAAATTTTGAGATTTGACGTTAGGGG
Found at i:11516937 original size:41 final size:41
Alignment explanation
Indices: 11516888--11516965 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
11516878 TATTTTTAGT
*
11516888 GTTTGACTTTAGGG-TTTAGGATTTGACTATT-GGGTTTTAAG
1 GTTTGACTTT-GGGTTTTAGGATTTAACT-TTAGGGTTTTAAG
11516929 GTTTGACTTTGGGTTTTAGGATTTAACTTTAGGGTTT
1 GTTTGACTTTGGGTTTTAGGATTTAACTTTAGGGTTT
11516966 GACTTTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.18, C:0.05, G:0.28, T:0.49
Consensus pattern (41 bp):
GTTTGACTTTGGGTTTTAGGATTTAACTTTAGGGTTTTAAG
Found at i:11516970 original size:33 final size:33
Alignment explanation
Indices: 11516923--11516997 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
11516913 ACTATTGGGT
*
11516923 TTTAAGGTTTGACTTTGGGTTTTAG-GATTTAAC
1 TTTAGGGTTTGACTTTGGGTTTTAGTG-TTTAAC
* *
11516956 TTTAGGGTTTGACTTTGTGTTTTAGTGTTTGAC
1 TTTAGGGTTTGACTTTGGGTTTTAGTGTTTAAC
11516989 TTT-GGGTTT
1 TTTAGGGTTT
11516998 AGGGTTTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 6 0.16
33 31 0.82
34 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.27, T:0.53
Consensus pattern (33 bp):
TTTAGGGTTTGACTTTGGGTTTTAGTGTTTAAC
Found at i:11516988 original size:53 final size:53
Alignment explanation
Indices: 11516902--11517010 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
11516892 GACTTTAGGG
11516902 TTTAGGATTTGACTATTGGGTTTTAAGGTTTGACTTTGGGTTTTAGGATTTAAC
1 TTTAGGATTTGACTATTGGGTTTTAAGGTTTGACTTTGGG-TTTAGGATTTAAC
* * * *
11516956 TTTAGGGTTTGACT-TTGTGTTTT-AGTGTTTGACTTTGGGTTTAGGGTTTGAC
1 TTTAGGATTTGACTATTGGGTTTTAAG-GTTTGACTTTGGGTTTAGGATTTAAC
11517008 TTT
1 TTT
11517011 GAGTTTTAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 16 0.32
53 21 0.42
54 13 0.26
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.51
Consensus pattern (53 bp):
TTTAGGATTTGACTATTGGGTTTTAAGGTTTGACTTTGGGTTTAGGATTTAAC
Found at i:11517000 original size:39 final size:39
Alignment explanation
Indices: 11516956--11517030 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
11516946 AGGATTTAAC
* *
11516956 TTTAGGGTTTGACTTTGTGTTTTAGTGTTTGACTTTGGG
1 TTTAGGGTTTGACTTTGAGTTTTAGAGTTTGACTTTGGG
11516995 TTTAGGGTTTGACTTTGAGTTTTAGAGTTTGACTTT
1 TTTAGGGTTTGACTTTGAGTTTTAGAGTTTGACTTT
11517031 ATAATTTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.13, C:0.05, G:0.28, T:0.53
Consensus pattern (39 bp):
TTTAGGGTTTGACTTTGAGTTTTAGAGTTTGACTTTGGG
Found at i:11517556 original size:6 final size:7
Alignment explanation
Indices: 11517540--11517572 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
11517530 CTTTTAAAAT
11517540 AAAATCA
1 AAAATCA
11517547 AAAATCA
1 AAAATCA
11517554 AAAATCA
1 AAAATCA
*
11517561 AAAATCG
1 AAAATCA
11517568 AAAAT
1 AAAAT
11517573 TGAAAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAATCA
Found at i:11519051 original size:22 final size:23
Alignment explanation
Indices: 11519001--11519071 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
11518991 TATTAAATAC
* *
11519001 AAAATACACAAAAAATATAA-AAA
1 AAAATACA-AAAAAAAAGAACAAA
* * *
11519024 ATAATACAAAATAGAA-AACAAA
1 AAAATACAAAAAAAAAGAACAAA
11519046 AAAATACAAAAAAAAAGAACAAA
1 AAAATACAAAAAAAAAGAACAAA
11519069 AAA
1 AAA
11519072 CAAAAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.05
22 21 0.54
23 16 0.41
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (23 bp):
AAAATACAAAAAAAAAGAACAAA
Found at i:11519057 original size:10 final size:10
Alignment explanation
Indices: 11519001--11519079 Score: 61
Period size: 11 Copynumber: 7.4 Consensus size: 10
11518991 TATTAAATAC
11519001 AAAATACACAA
1 AAAATACA-AA
*
11519012 AAAATATAAAA
1 AAAATA-CAAA
11519023 AATAATACAAA
1 AA-AATACAAA
*
11519034 ATAGAAAACAAA
1 A-A-AATACAAA
11519046 AAAATACAAA
1 AAAATACAAA
* *
11519056 AAAAAAGAACA
1 AAAATACAA-A
11519067 AAAA-ACAAA
1 AAAATACAAA
11519076 AAAA
1 AAAA
11519080 ATCGAAGATG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
9 5 0.09
10 17 0.30
11 20 0.36
12 14 0.25
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.09
Consensus pattern (10 bp):
AAAATACAAA
Found at i:11519059 original size:12 final size:12
Alignment explanation
Indices: 11519001--11519071 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
11518991 TATTAAATAC
*
11519001 AAAATAC-ACAA
1 AAAATACAAAAA
*
11519012 AAAATATAAAAA
1 AAAATACAAAAA
*
11519024 ATAATACAAAATA
1 AAAATACAAAA-A
*
11519037 GAAA-AC--AAA
1 AAAATACAAAAA
11519046 AAAATACAAAAA
1 AAAATACAAAAA
*
11519058 AAAAGAACAAAAA
1 AAAA-TACAAAAA
11519071 A
1 A
11519072 CAAAAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 6 0.13
12 21 0.46
13 11 0.24
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (12 bp):
AAAATACAAAAA
Found at i:11519069 original size:20 final size:19
Alignment explanation
Indices: 11519001--11519080 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 19
11518991 TATTAAATAC
11519001 AAAATACACAAAAAATATAAAA
1 AAAATACA-AAAAAA-A-AAAA
11519023 AATAATACAAAATAGAAAACAAA
1 AA-AATACAAAA-A-AAAA-AAA
11519046 AAAATACAAAAAAAAAGAACA
1 AAAATACAAAAAAAAA-AA-A
11519067 AAAA-ACAAAAAAAA
1 AAAATACAAAAAAAA
11519081 TCGAAGATGG
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
20 16 0.31
21 6 0.12
22 15 0.29
23 13 0.25
24 2 0.04
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.09
Consensus pattern (19 bp):
AAAATACAAAAAAAAAAAA
Found at i:11519080 original size:10 final size:10
Alignment explanation
Indices: 11519019--11519080 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
11519009 CAAAAAATAT
11519019 AAAAAATAATAC
1 AAAAAA-AA-AC
11519031 AAAATAGAAAAC
1 AAAA-A-AAAAC
*
11519043 AAAAAAATAC
1 AAAAAAAAAC
*
11519053 AAAAAAAAAG
1 AAAAAAAAAC
*
11519063 AACAAAAAAC
1 AAAAAAAAAC
11519073 AAAAAAAA
1 AAAAAAAA
11519081 TCGAAGATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
10 27 0.64
11 1 0.02
12 10 0.24
13 3 0.07
14 1 0.02
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:11520539 original size:15 final size:15
Alignment explanation
Indices: 11520502--11520585 Score: 80
Period size: 15 Copynumber: 5.4 Consensus size: 15
11520492 TCTAAACCCC
*
11520502 TAAAATCCAAAATTCCC
1 TAAAATCCAAAA-T-CT
11520519 TAAAATCCAAAATCT
1 TAAAATCCAAAATCT
* *
11520534 TAAAATCCAAACTCA
1 TAAAATCCAAAATCT
*
11520549 TAAAATCTAAAATTTCT
1 TAAAATCCAAAA--TCT
*
11520566 T-AAATCCAAACTCT
1 TAAAATCCAAAATCT
11520580 TAAAAT
1 TAAAAT
11520586 TCGAATCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.07
15 28 0.50
16 9 0.16
17 15 0.27
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAATCCAAAATCT
Found at i:11520574 original size:31 final size:30
Alignment explanation
Indices: 11520519--11520585 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
11520509 CAAAATTCCC
11520519 TAAAATCCAAAATCTTAAAATCCAAACTCA
1 TAAAATCCAAAATCTTAAAATCCAAACTCA
* *
11520549 TAAAATCTAAAATTTCTT-AAATCCAAACTCT
1 TAAAATCCAAAA--TCTTAAAATCCAAACTCA
11520580 TAAAAT
1 TAAAAT
11520586 TCGAATCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 11 0.33
31 18 0.55
32 4 0.12
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAAATCCAAAATCTTAAAATCCAAACTCA
Found at i:11524317 original size:18 final size:19
Alignment explanation
Indices: 11524278--11524322 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
11524268 TGAAAAACTG
*
11524278 ATTTTAAAGAAAAAATAAA
1 ATTTAAAAGAAAAAATAAA
**
11524297 A-TTAAAAGAAAAAATTCA
1 ATTTAAAAGAAAAAATAAA
11524315 ATTTAAAA
1 ATTTAAAA
11524323 CTGATTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
ATTTAAAAGAAAAAATAAA
Found at i:11524715 original size:19 final size:19
Alignment explanation
Indices: 11524688--11524773 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 19
11524678 CAAATAATTT
*
11524688 AATAATTTTAATTAAATAA
1 AATATTTTTAATTAAATAA
*
11524707 AATATTTTTAATATAAATTA
1 AATATTTTTAAT-TAAATAA
* * *
11524727 CAT-TTTAATTATACATAAATAT
1 AATATTT--TTA-A-TTAAATAA
11524749 AATATTTTT-ATTAAATTAA
1 AATATTTTTAATTAAA-TAA
11524768 AATATT
1 AATATT
11524774 AAATAATAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.08
19 23 0.45
20 8 0.16
21 5 0.10
22 8 0.16
23 3 0.06
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AATATTTTTAATTAAATAA
Found at i:11524814 original size:4 final size:4
Alignment explanation
Indices: 11524771--11524829 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
11524761 AAATTAAAAT
* *
11524771 ATTA AATA A-TA ATTTA ATTA ATATA ATT- TTTA TATATA ATTA ATTA
1 ATTA ATTA ATTA A-TTA ATTA AT-TA ATTA ATTA -AT-TA ATTA ATTA
11524817 ATTA ATTA ATTA A
1 ATTA ATTA ATTA A
11524830 AAATACTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
3 5 0.11
4 29 0.63
5 10 0.22
6 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:11524824 original size:12 final size:13
Alignment explanation
Indices: 11524762--11524829 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 13
11524752 ATTTTTATTA
*
11524762 AATTAAAAT-ATT
1 AATTAATATAATT
* *
11524774 AAATAATA-ATTT
1 AATTAATATAATT
11524786 AATTAATATAATT
1 AATTAATATAATT
*
11524799 -TTTATATATAATT
1 AATTA-ATATAATT
11524812 AATTAAT-TAATT
1 AATTAATATAATT
11524824 AATTAA
1 AATTAA
11524830 AAATACTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
12 29 0.64
13 13 0.29
14 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATATAATT
Found at i:11525813 original size:18 final size:18
Alignment explanation
Indices: 11525784--11525829 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11525774 TCAAATTAAA
*
11525784 TTAAATTATTTAT-TTTT
1 TTAAATTTTTTATATTTT
*
11525801 ATTAACTTTTTTATATTTT
1 -TTAAATTTTTTATATTTT
11525820 TTAAATTTTT
1 TTAAATTTTT
11525830 GTAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTAAATTTTTTATATTTT
Found at i:11525876 original size:20 final size:21
Alignment explanation
Indices: 11525851--11525907 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
11525841 ATAATTATTT
* *
11525851 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
11525871 TATATTAAAAATTATATTAAAA
1 TATATTAAAAATTATATT-AAA
11525893 TAATATATAAAAATT
1 T-ATAT-TAAAAATT
11525908 TTAAAAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 4 0.13
23 4 0.13
24 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:11526059 original size:13 final size:13
Alignment explanation
Indices: 11526041--11526080 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
11526031 TTTAATTTGA
11526041 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
11526054 ATTAAATGTATAT
1 ATTAAATTTAAAT
11526067 ATTAAATTTAAAT
1 ATTAAATTTAAAT
11526080 A
1 A
11526081 AAAAAGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:11526152 original size:19 final size:20
Alignment explanation
Indices: 11526115--11526158 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
11526105 TTAAAATTAA
* *
11526115 TTATATATTTTTATTAATTT
1 TTATACATTTTTATAAATTT
11526135 TTATACATTTTT-TAAATTT
1 TTATACATTTTTATAAATTT
11526154 TTATA
1 TTATA
11526159 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATACATTTTTATAAATTT
Found at i:11526160 original size:10 final size:10
Alignment explanation
Indices: 11526115--11526160 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
11526105 TTAAAATTAA
*
11526115 TTATATATTT
1 TTATAAATTT
*
11526125 TTATTAATTT
1 TTATAAATTT
*
11526135 TTATACATTT
1 TTATAAATTT
11526145 TT-TAAATTT
1 TTATAAATTT
11526154 TTATAAA
1 TTATAAA
11526161 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATAAATTT
Found at i:11526202 original size:20 final size:22
Alignment explanation
Indices: 11526177--11526228 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
11526167 ATAATTATTC
*
11526177 TATATTTAAATT-TATTTAAA-
1 TATATTTAAATTATATTAAAAT
*
11526197 TATATTAAAATTATATTAAAAT
1 TATATTTAAATTATATTAAAAT
*
11526219 TATATATAAA
1 TATATTTAAA
11526229 AAATAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATTTAAATTATATTAAAAT
Found at i:11526213 original size:11 final size:11
Alignment explanation
Indices: 11526177--11526229 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
11526167 ATAATTATTC
*
11526177 TATATTTAAAT
1 TATATTAAAAT
*
11526188 T-TATTTAAA-
1 TATATTAAAAT
11526197 TATATTAAAAT
1 TATATTAAAAT
11526208 TATATTAAAAT
1 TATATTAAAAT
11526219 TATATATAAAA
1 TATAT-TAAAA
11526230 AATAAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
9 1 0.03
10 15 0.39
11 17 0.45
12 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATTAAAAT
Found at i:11526287 original size:20 final size:20
Alignment explanation
Indices: 11526254--11526291 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11526244 GTCAATAAAC
*
11526254 TAAATTAAAATAATTTAATT
1 TAAATCAAAATAATTTAATT
*
11526274 TAAATCAAATTAATTTAA
1 TAAATCAAAATAATTTAA
11526292 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATCAAAATAATTTAATT
Found at i:11526312 original size:19 final size:19
Alignment explanation
Indices: 11526290--11526326 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11526280 AAATTAATTT
*
11526290 AAAAAATTAAAATTTATAG
1 AAAAAATTAAAAATTATAG
*
11526309 AAAAATTTAAAAATTATA
1 AAAAAATTAAAAATTATA
11526327 ATATTATATA
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:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAAATTAAAAATTATAG
Found at i:11528259 original size:35 final size:36
Alignment explanation
Indices: 11528202--11528272 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
11528192 AAGAAAGATC
11528202 GATTTGCATGAAAATATAAAAGATTTTACAAATTTT
1 GATTTGCATGAAAATATAAAAGATTTTACAAATTTT
11528238 GATTTGCATG-AAATATAAAAGATTTTACAAATTTT
1 GATTTGCATGAAAATATAAAAGATTTTACAAATTTT
11528273 TTAAAGGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 25 0.71
36 10 0.29
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (36 bp):
GATTTGCATGAAAATATAAAAGATTTTACAAATTTT
Found at i:11533532 original size:2 final size:2
Alignment explanation
Indices: 11533525--11533554 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11533515 TTTATTTAAA
*
11533525 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11533555 CCAAGATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11534133 original size:17 final size:17
Alignment explanation
Indices: 11534113--11534148 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11534103 TGATAATATA
*
11534113 ATTATTGAAATGATCTT
1 ATTATTAAAATGATCTT
11534130 ATTATTAAAATGATCTT
1 ATTATTAAAATGATCTT
11534147 AT
1 AT
11534149 CATTCGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (17 bp):
ATTATTAAAATGATCTT
Found at i:11536666 original size:20 final size:20
Alignment explanation
Indices: 11536641--11536678 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11536631 CAAAAATAGT
*
11536641 CAATAATTGAGAAATTGATG
1 CAATAATTAAGAAATTGATG
11536661 CAATAATTAAGAAATTGA
1 CAATAATTAAGAAATTGA
11536679 CCTATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (20 bp):
CAATAATTAAGAAATTGATG
Found at i:11543606 original size:22 final size:23
Alignment explanation
Indices: 11543581--11543623 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11543571 ATTATATATC
*
11543581 CTTTTCTTAAGA-TTAAAAAAGG
1 CTTTTCTTAAAATTTAAAAAAGG
*
11543603 CTTTTTTTAAAATTTAAAAAA
1 CTTTTCTTAAAATTTAAAAAA
11543624 AATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (23 bp):
CTTTTCTTAAAATTTAAAAAAGG
Found at i:11546484 original size:23 final size:23
Alignment explanation
Indices: 11546458--11546512 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
11546448 TTTGGTTATG
11546458 ATTTATTTATCATTTATAAATAT
1 ATTTATTTATCATTTATAAATAT
* *
11546481 ATTTATTTATTATTTATGAATAT
1 ATTTATTTATCATTTATAAATAT
11546504 ATTTATTTA
1 ATTTATTTA
11546513 CATATATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTATTTATCATTTATAAATAT
Found at i:11549596 original size:2 final size:2
Alignment explanation
Indices: 11549589--11549613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11549579 AATTACCACT
11549589 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 T
11549614 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11549618 original size:2 final size:2
Alignment explanation
Indices: 11549613--11549656 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
11549603 TCTCTCTCTC
11549613 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
11549655 TA
1 TA
11549657 ATGCTTAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11555012 original size:93 final size:93
Alignment explanation
Indices: 11554803--11554988 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
11554793 GTAGCAACCC
* *
11554803 AAACAAAAGCACGATACATTGAGGAAAACAGGCCTTGGAGGTGCGGGCTATCGATCCCCGTACCT
1 AAACAAAAGCACGATAAATTGAGGAAAACAGGCCTTGGAGATGCGGGCTATCGATCCCCGTACCT
11554868 CTGGCATGCTAAGCGAACGCTCTAGCAT
66 CTGGCATGCTAAGCGAACGCTCTAGCAT
11554896 AAACAAAAGCACGATAAATTGAGGAAAACAGGCCTTGGAGATGCGGGCTATCGATCCCCGTACCT
1 AAACAAAAGCACGATAAATTGAGGAAAACAGGCCTTGGAGATGCGGGCTATCGATCCCCGTACCT
11554961 CTGGCATGCTAAGCGAACGCTCTAGCAT
66 CTGGCATGCTAAGCGAACGCTCTAGCAT
11554989 CTGAACTACA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (93 bp):
AAACAAAAGCACGATAAATTGAGGAAAACAGGCCTTGGAGATGCGGGCTATCGATCCCCGTACCT
CTGGCATGCTAAGCGAACGCTCTAGCAT
Found at i:11556369 original size:3 final size:3
Alignment explanation
Indices: 11556361--11556398 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11556351 GGAGAAAACT
11556361 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11556399 TTGTGATTAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11566724 original size:18 final size:18
Alignment explanation
Indices: 11566690--11566727 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11566680 ATTTTATAAC
*
11566690 TTAAAAAAAAATTATTTT
1 TTAAAAAAAAATAATTTT
11566708 TTAAAAAAATAA-AATTTT
1 TTAAAAAAA-AATAATTTT
11566726 TT
1 TT
11566728 GATAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAAAAAAATAATTTT
Found at i:11566733 original size:21 final size:20
Alignment explanation
Indices: 11566692--11566735 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
11566682 TTTATAACTT
*
11566692 AAAAAAAAATTATTTTTTAA
1 AAAAAAAAATTATTTTATAA
11566712 AAAAATAAAATT-TTTTGATAA
1 AAAAA-AAAATTATTTT-ATAA
11566733 AAA
1 AAA
11566736 TTACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAAAAATTATTTTATAA
Found at i:11568572 original size:23 final size:23
Alignment explanation
Indices: 11568544--11568599 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
11568534 TTTGGTTATG
*
11568544 ATTTATTTATCATTTATAAATAT
1 ATTTATTTATCATTTAGAAATAT
* *
11568567 ATTTATTTATTATTTAGGAATAT
1 ATTTATTTATCATTTAGAAATAT
11568590 ATTTATTTAT
1 ATTTATTTAT
11568600 ATATATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTTATTTATCATTTAGAAATAT
Found at i:11570552 original size:44 final size:44
Alignment explanation
Indices: 11570489--11570582 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
11570479 AGCTGCCTGC
11570489 TACCAAGTAGAGATTTAAAGGAATGCTTCCAATACTGGTCCGTG
1 TACCAAGTAGAGATTTAAAGGAATGCTTCCAATACTGGTCCGTG
11570533 TACCAAGTAGAGATTTAAAGGAATGCTTCCAATACTGGTCCGTG
1 TACCAAGTAGAGATTTAAAGGAATGCTTCCAATACTGGTCCGTG
11570577 T-CCAAG
1 TACCAAG
11570583 AAACACTGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 5 0.10
44 45 0.90
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
TACCAAGTAGAGATTTAAAGGAATGCTTCCAATACTGGTCCGTG
Found at i:11571591 original size:1 final size:1
Alignment explanation
Indices: 11571585--11571609 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11571575 TAATATTCAT
11571585 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
11571610 CTTTACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11571718 original size:2 final size:2
Alignment explanation
Indices: 11571711--11571737 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11571701 AATTACCACT
11571711 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 T
11571738 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11571742 original size:2 final size:2
Alignment explanation
Indices: 11571737--11571764 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11571727 TCTCTCTCTC
11571737 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
11571765 ATGCTTAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11578436 original size:3 final size:3
Alignment explanation
Indices: 11578428--11578461 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11578418 TGAGAAAACT
11578428 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11578462 TTGTGATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11578449 original size:17 final size:17
Alignment explanation
Indices: 11578427--11578461 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11578417 TTGAGAAAAC
11578427 TATAATAATAATAATAA
1 TATAATAATAATAATAA
11578444 TATAATAATAATAATAA
1 TATAATAATAATAATAA
11578461 T
1 T
11578462 TTGTGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:11578450 original size:14 final size:14
Alignment explanation
Indices: 11578431--11578459 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11578421 GAAAACTATA
11578431 ATAATAATAATAAT
1 ATAATAATAATAAT
11578445 ATAATAATAATAAT
1 ATAATAATAATAAT
11578459 A
1 A
11578460 ATTTGTGATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:11579234 original size:32 final size:31
Alignment explanation
Indices: 11579182--11579245 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
11579172 ACATGCTGAC
**
11579182 AAAGTTTTTTTTTTTTTTTATTCAAGGAAGA
1 AAAGTTTTTTTTTTCCTTTATTCAAGGAAGA
*
11579213 AAAGTTTTTCTTTTTCCTTTATTCGAGGAAGA
1 AAAGTTTTT-TTTTTCCTTTATTCAAGGAAGA
11579245 A
1 A
11579246 GAGACTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (31 bp):
AAAGTTTTTTTTTTCCTTTATTCAAGGAAGA
Found at i:11579374 original size:2 final size:2
Alignment explanation
Indices: 11579369--11579393 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11579359 TCTCTCTCTC
11579369 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11579394 TAGTATCATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11579804 original size:23 final size:23
Alignment explanation
Indices: 11579778--11579835 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
11579768 AGATGACATG
**
11579778 ATATAAAATCGTTACAATTAAAA
1 ATATAAAATCAATACAATTAAAA
* * *
11579801 ATATGAAAGCAATACAATTTAAA
1 ATATAAAATCAATACAATTAAAA
11579824 AT-TAAAAT-AATA
1 ATATAAAATCAATA
11579836 TATGCATTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 20 0.71
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (23 bp):
ATATAAAATCAATACAATTAAAA
Found at i:11579952 original size:14 final size:16
Alignment explanation
Indices: 11579933--11579969 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
11579923 ATTTGGTATA
11579933 AAATTTATAAA-TAT-
1 AAATTTATAAATTATC
11579947 AAATTTATAAATTATC
1 AAATTTATAAATTATC
11579963 AAATTTA
1 AAATTTA
11579970 ATATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTTATAAATTATC
Found at i:11581926 original size:18 final size:18
Alignment explanation
Indices: 11581873--11581928 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
11581863 ACTTGTTTGT
*
11581873 TTGGATTGAAAAGTTTGAG
1 TTGGATTGAAAA-TTTGAA
11581892 TTGGATTGAAGAATTTGAA
1 TTGGATTGAA-AATTTGAA
11581911 TTGGACTT-AAAATTTGAA
1 TTGGA-TTGAAAATTTGAA
11581929 GTTGAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.24
19 22 0.65
20 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.38
Consensus pattern (18 bp):
TTGGATTGAAAATTTGAA
Found at i:11583960 original size:48 final size:48
Alignment explanation
Indices: 11583875--11583974 Score: 128
Period size: 48 Copynumber: 2.1 Consensus size: 48
11583865 AGATAAAAAA
* * *
11583875 AAAAAGAAAATTTCTAAATAGACCTAAATTATGAAAAATTTAGAAATT
1 AAAAAGAAAATTTCTAAATAGACCCAAATGATGAAAAATTTAGAAATG
* * * * *
11583923 AAAAAGAAAATTTTTAAATAGGCCCAACTGGTTAAAAATTTAGAAATG
1 AAAAAGAAAATTTCTAAATAGACCCAAATGATGAAAAATTTAGAAATG
11583971 AAAA
1 AAAA
11583975 TAAAAATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (48 bp):
AAAAAGAAAATTTCTAAATAGACCCAAATGATGAAAAATTTAGAAATG
Found at i:11593801 original size:43 final size:43
Alignment explanation
Indices: 11593698--11594050 Score: 296
Period size: 43 Copynumber: 8.3 Consensus size: 43
11593688 CATGATTATT
* * * *
11593698 GAAGAGCCTTATTTATTTTTTAAAAATTGTTGGGCCTCTGTTTG
1 GAAGAGCCTTATTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTA
** *
11593742 GAAGAG---TA-TTATTTTTCAAAGTCATTGAACCTCTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTA
* * *
11593781 GAATAGCCTTGTTTATTTTTCAAAGTTGTTGAGCCTTTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTA
* *
11593824 GAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCTTCTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTA
* *
11593867 GAGGAGCCTTATTTATATTTT-AAAGTTGTTGAGCCTCTGCTTA
1 GAAGAGCCTTATTTAT-TTTTCAAAGTTGTTGAGCCTCTGTTTA
* * * *
11593910 G-AGAAACTTTATTTATTTTTCTAAAGTCGTTGAGCCTCTATTTA
1 GAAG-AGCCTTATTTATTTTTC-AAAGTTGTTGAGCCTCTGTTTA
* * * * * * *
11593954 GATGAG-C---TTTATTTTTTAAAATCGTTAAACCTCTGCTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTA
* ** * *
11593993 GAGGAGTTTTATTTATTTTTCTAAA-TTCGTTAAGCCTCTATTTA
1 GAAGAGCCTTATTTATTTTTC-AAAGTT-GTTGAGCCTCTGTTTA
*
11594037 GAAGAGCTTTATTT
1 GAAGAGCCTTATTT
11594051 TTTAAAATCG
Statistics
Matches: 250, Mismatches: 44, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
39 48 0.19
40 12 0.05
41 2 0.01
42 6 0.02
43 122 0.49
44 59 0.24
45 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (43 bp):
GAAGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTA
Found at i:11593866 original size:86 final size:83
Alignment explanation
Indices: 11593750--11594125 Score: 364
Period size: 83 Copynumber: 4.5 Consensus size: 83
11593740 TGGAAGAGTA
* * * * * * *
11593750 TTATTTTTC-AAAGTCATTGAACCTCTGTTTAGAATAGCCTTGTTTATTTTTCAAAGTTGTTGAG
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAAGAG-C---TTTATTTTTTAAAATCGTTAAG
* * *
11593814 CCTTTGTTTAGAGGAGCCTTAT
62 CCTCTGCTTAGAGGAGCTTTAT
* * * * * * *
11593836 TTATTTTTC-AAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATATTTTAAAGTTGTTGAG
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAAGAG-C---TTTATTTTTTAAAATCGTTAAG
* *
11593900 CCTCTGCTTAGAGAAACTTTAT
62 CCTCTGCTTAGAGGAGCTTTAT
* * *
11593922 TTATTTTTCTAAAGTCGTTGAGCCTCTATTTAGATGAGCTTTATTTTTTAAAATCGTTAAACCTC
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTATTTTTTAAAATCGTTAAGCCTC
*
11593987 TGCTTAGAGGAGTTTTAT
66 TGCTTAGAGGAGCTTTAT
* * *
11594005 TTATTTTTCTAAATTCGTTAAGCCTCTATTTAGAAGAGCTTTATTTTTTAAAATCGTTAAGCCT-
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTATTTTTTAAAATCGTTAAGCCTC
* *
11594069 TGTTTA-AGGAGTTTTAT
66 TGCTTAGAGGAGCTTTAT
* * * *
11594086 TTATTTTTCTAAAGTCGTTAAGCTTTTGTTTAGAGGAGCT
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAAGAGCT
11594126 NNNNNNNNNN
Statistics
Matches: 253, Mismatches: 36, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
81 46 0.18
82 5 0.02
83 96 0.38
86 82 0.32
87 24 0.09
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (83 bp):
TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTATTTTTTAAAATCGTTAAGCCTC
TGCTTAGAGGAGCTTTAT
Found at i:11593987 original size:39 final size:40
Alignment explanation
Indices: 11593921--11594068 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 40
11593911 AGAAACTTTA
* * *
11593921 TTTATTTTTCTAAAGTCGTTGAGCCTCTATTTAGATGAGC
1 TTTATTTTTCTAAAATCGTTAAGCCTCTATTTAGAAGAGC
* ** * *
11593961 TTTATTTTT-TAAAATCGTTAAACCTCTGCTTAGAGGAGTTTTA
1 TTTATTTTTCTAAAATCGTTAAGCCTCTATTTAGAAGAG----C
*
11594004 TTTATTTTTCTAAATTCGTTAAGCCTCTATTTAGAAGAGC
1 TTTATTTTTCTAAAATCGTTAAGCCTCTATTTAGAAGAGC
11594044 TTTATTTTT-TAAAATCGTTAAGCCT
1 TTTATTTTTCTAAAATCGTTAAGCCT
11594069 TGTTTAAGGA
Statistics
Matches: 89, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
39 38 0.43
40 18 0.20
43 9 0.10
44 24 0.27
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (40 bp):
TTTATTTTTCTAAAATCGTTAAGCCTCTATTTAGAAGAGC
Found at i:11595835 original size:28 final size:30
Alignment explanation
Indices: 11595794--11595854 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
11595784 ACATGCAGAC
11595794 AAAGTTTTT-TTTT-TTTATTCGAGGAAGA
1 AAAGTTTTTCTTTTCTTTATTCGAGGAAGA
11595822 AAAGTTTTTCTTTTTCCTTTATTCGAGGAAGA
1 AAAGTTTTTC-TTTT-CTTTATTCGAGGAAGA
11595854 A
1 A
11595855 GAGACTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 9 0.31
30 4 0.14
32 16 0.55
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (30 bp):
AAAGTTTTTCTTTTCTTTATTCGAGGAAGA
Found at i:11600545 original size:48 final size:48
Alignment explanation
Indices: 11600459--11600558 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
11600449 TAAGATAAAA
* * *
11600459 AAAAAGAAAATTTCTAAATAGACCTAAATTGTGAAAAATTTAGAAATT
1 AAAAAGAAAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATG
* *
11600507 AAAAAGAAAATTTTTAAATA-AGCCCAACTGGTTG-AAAATTTAGAAATG
1 AAAAAGAAAATTTCTAAATAGA-CCCAAATGG-TGAAAAATTTAGAAATG
11600555 AAAA
1 AAAA
11600559 TAAAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 42 0.93
49 2 0.04
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (48 bp):
AAAAAGAAAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATG
Found at i:11603445 original size:10 final size:10
Alignment explanation
Indices: 11603430--11603455 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11603420 CAACAACCAC
11603430 TTAATTACAT
1 TTAATTACAT
11603440 TTAATTACAT
1 TTAATTACAT
11603450 TTAATT
1 TTAATT
11603456 GCTCTTATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (10 bp):
TTAATTACAT
Found at i:11610377 original size:43 final size:43
Alignment explanation
Indices: 11610274--11611060 Score: 513
Period size: 43 Copynumber: 18.7 Consensus size: 43
11610264 CATGATTATT
* * * ** *
11610274 GAAGAGCCTTATTTATTTTTTAAAAATTGTTGGGCCTCTGTTTG
1 GAAGAGCCTTATTTA-TTTTTCAAAGTCGTTGAACCTCTGTTTA
*
11610318 GAAGAG---TA-TTATTTTTCAAAGTCATTGAACCTCTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * * * *
11610357 GAATAGCCTTGTTTATTTTTCAAAGTTGTTGAGCCTTTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * * *
11610400 GAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCTTCTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * * *
11610443 GAGGAGCCTTATTTATATTTT-AAAGTTGTTGAGCCTCTGCTTA
1 GAAGAGCCTTATTTAT-TTTTCAAAGTCGTTGAACCTCTGTTTA
* * * *
11610486 G-AGAAACTTTATTTATTTTTCTAAAGTCGTTGAGCCTCTATTTA
1 GAAG-AGCCTTATTTATTTTTC-AAAGTCGTTGAACCTCTGTTTA
* * * * *
11610530 GATGAG-C---TTTATTTTTTAAAATCGTTAAACCTCTGCTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* ** * *
11610569 GAGGAGTTTTATTTATTTTTCTAAATTCGTT-AAGCCTCTATTTA
1 GAAGAGCCTTATTTATTTTTC-AAAGTCGTTGAA-CCTCTGTTTA
* * *
11610613 GAAGAG-C---TTTATTTTTTAAAATCGTT-AAGCCTTTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAA-CCTCTGTTTA
** * *
11610652 -AAGGAGTTTTATTTATTTTTCTAAAGTCGTT-AAGCTTTTGTTTA
1 GAA-GAGCCTTATTTATTTTTC-AAAGTCGTTGAA-CCTCTGTTTA
* * * * *
11610696 GAGGAG-C---TTTATTTTTTAAAGTCATTCAACC-CTGCTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * * *
11610734 GAGGAGCTTTATTTATTTTTCTAAAGTCGTTGAGCCTTTGTTTA
1 GAAGAGCCTTATTTATTTTTC-AAAGTCGTTGAACCTCTGTTTA
* *
11610778 GAAGAG-C---TTTATTTTTCAAAGTCATTGAACTTCTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * *
11610817 GAAGAGTCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * *
11610860 GAGGAGCCTTATTTATTTTTCAAAGTCGTTAAACCTCTGCTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
* * * * *
11610903 GAGGAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTTTGTTTA
1 GAAGAGCCTTATTTATTTTTC-AAAGTCGTTGAACCTCTGTTTA
* * * * **
11610947 GAGGAG----ATTTATTTTTAAAAGTCGTT-ATGCATCTACTTA
1 GAAGAGCCTTATTTATTTTTCAAAGTCGTTGA-ACCTCTGTTTA
* * * ** * *
11610986 GAGGAGCTTTATTTAATTTTTTAAAGTTATTAAACCTCTATTTA
1 GAAGAGCCTTATTT-ATTTTTCAAAGTCGTTGAACCTCTGTTTA
* *
11611030 GAGGAGCCTTATTTACTTTTCCAAAGTCGTT
1 GAAGAGCCTTATTTA-TTTTTCAAAGTCGTT
11611061 AAGCCTCCAC
Statistics
Matches: 597, Mismatches: 104, Indels: 84
0.76 0.13 0.11
Matches are distributed among these distances:
38 14 0.02
39 124 0.21
40 53 0.09
41 2 0.00
42 15 0.03
43 233 0.39
44 153 0.26
45 3 0.01
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (43 bp):
GAAGAGCCTTATTTATTTTTCAAAGTCGTTGAACCTCTGTTTA
Found at i:11610570 original size:83 final size:83
Alignment explanation
Indices: 11610326--11611130 Score: 744
Period size: 83 Copynumber: 9.6 Consensus size: 83
11610316 TGGAAGAGTA
* * ** * * * *
11610326 TTATTTTTC-AAAGTCATTGAACCTCTGTTTAGAATAGCCTTGTTTATTTTTCAAAGTTGTTGAG
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAG-C---TTTATTTTTTAAAGTCGTTAAA
* * *
11610390 CCTTTGTTTAGAGGAGCCTTAT
62 CCTCTGCTTAGAGGAGCTTTAT
* * * * * *
11610412 TTATTTTTC-AAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATATTTTAAAGTTGTTGAG
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAG-C---TTTATTTTTTAAAGTCGTTAAA
* *
11610476 CCTCTGCTTAGAGAAACTTTAT
62 CCTCTGCTTAGAGGAGCTTTAT
* * *
11610498 TTATTTTTCTAAAGTCGTTGAGCCTCTATTTAGATGAGCTTTATTTTTTAAAATCGTTAAACCTC
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTTTTAAAGTCGTTAAACCTC
*
11610563 TGCTTAGAGGAGTTTTAT
66 TGCTTAGAGGAGCTTTAT
* * * * * * *
11610581 TTATTTTTCTAAATTCGTTAAGCCTCTATTTAGAAGAGCTTTATTTTTTAAAATCGTTAAGCCTT
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTTTTAAAGTCGTTAAACCTC
* * *
11610646 TGTTTAAAGGAGTTTTAT
66 TGCTTAGAGGAGCTTTAT
* * * * *
11610664 TTATTTTTCTAAAGTCGTTAAGCTTTTGTTTAGAGGAGCTTTATTTTTTAAAGTCATTCAACC-C
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTTTTAAAGTCGTTAAACCTC
11610728 TGCTTAGAGGAGCTTTAT
66 TGCTTAGAGGAGCTTTAT
* * * * * *
11610746 TTATTTTTCTAAAGTCGTTGAGCCTTTGTTTAGAAGAGCTTTATTTTTCAAAGTCATTGAACTTC
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTTTTAAAGTCGTTAAACCTC
* *
11610811 TGTTTAGAAGAG-TCTTAT
66 TGCTTAGAGGAGCT-TTAT
* *
11610829 TTATTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAGTCGTTAAA
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAG-C---TTTATTTTTTAAAGTCGTTAAA
11610893 CCTCTGCTTAGAGGAGCTTTAT
62 CCTCTGCTTAGAGGAGCTTTAT
* * * * ** *
11610915 TTATTTTTCTAAAGTCATTGAGCCTTTGTTTAGAGGAGATTTATTTTTAAAAGTCGTTATGCATC
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTTTTAAAGTCGTTAAACCTC
*
11610980 TACTTAGAGGAGCTTTAT
66 TGCTTAGAGGAGCTTTAT
** * * * *
11610998 TTAATTTTT-TAAAGTTATTAAACCTCTATTTAGAGGAGCCTTATTTACTTTTCCAAAGTCGTTA
1 TT-ATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTA-TT--TTTT--AAAGTCGTTA
* **
11611062 AGCCTCCACTT-GATGG-GCTTTAT
60 AACCTCTGCTTAGA-GGAGCTTTAT
* * * * *
11611085 TTATTTTTCTAAAGTCATTGAGCCTCTATTGAAAGGAGCTATATTT
1 TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTT
11611131 ACTATTCCAA
Statistics
Matches: 613, Mismatches: 89, Indels: 36
0.83 0.12 0.05
Matches are distributed among these distances:
82 98 0.16
83 259 0.42
84 9 0.01
86 139 0.23
87 88 0.14
88 20 0.03
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (83 bp):
TTATTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTTTTAAAGTCGTTAAACCTC
TGCTTAGAGGAGCTTTAT
Found at i:11611099 original size:43 final size:44
Alignment explanation
Indices: 11610368--11611131 Score: 515
Period size: 43 Copynumber: 18.1 Consensus size: 44
11610358 AATAGCCTTG
* * * ** *
11610368 TTTATTTTTC-AAAGTTGTTGAGCCTTTGTTTAGAGGAGCCTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * * ** *
11610411 TTTATTTTTC-AAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * * * * *
11610454 TTTATATTT-TAAAGTTGTTGAGCCTCTGCTTAGAGAAACTTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * *
11610497 TTTATTTTTCTAAAGTCGTTGAGCCTCTATTTAGATGAGC----
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * * *
11610537 TTTATTTTT-TAAAATCGTTAAACCTCTGCTTAGAGGAGTTTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * *
11610580 TTTATTTTTCTAAATTCGTTAAGCCTCTATTTAGAAGAGC----
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * ** * *
11610620 TTTATTTTT-TAAAATCGTTAAGCCTTTGTTTAAAGGAGTTTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * **
11610663 TTTATTTTTCTAAAGTCGTTAAGCTTTTGTTTAGAGGAGC----
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* *
11610703 TTTATTTTT-TAAAGTCATTCAA-CC-CTGCTTAGAGGAGCTTTA
1 TTTATTTTTCTAAAGTCGTT-AAGCCTCTACTTAGAGGAGCTTTA
* * ** *
11610745 TTTATTTTTCTAAAGTCGTTGAGCCTTTGTTTAGAAGAGC----
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * ** *
11610785 TTTATTTTTC-AAAGTCATTGAA-CTTCTGTTTAGAAGAG-TCTTA
1 TTTATTTTTCTAAAGTCGTT-AAGCCTCTACTTAGAGGAGCT-TTA
* * ** *
11610828 TTTATTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* *
11610871 TTTATTTTTC-AAAGTCGTTAAACCTCTGCTTAGAGGAGCTTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * * **
11610914 TTTATTTTTCTAAAGTCATTGAGCCTTTGTTTAGAGGAG----A
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * *
11610954 TTTATTTTT-AAAAGTCGTTATGCATCTACTTAGAGGAGCTTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
** * * *
11610997 TTTAATTTTT-TAAAGTTATTAAACCTCTATTTAGAGGAGCCTTA
1 TTT-ATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
* * *
11611041 TTTACTTTTCCAAAGTCGTTAAGCCTCCACTT-GATGG-GCTTTA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGA-GGAGCTTTA
* * * *
11611084 TTTATTTTTCTAAAGTCATTGAGCCTCTA-TTGAAAGGAGCTATA
1 TTTATTTTTCTAAAGTCGTTAAGCCTCTACTT-AGAGGAGCTTTA
11611128 TTTA
1 TTTA
11611132 CTATTCCAAA
Statistics
Matches: 584, Mismatches: 98, Indels: 77
0.77 0.13 0.10
Matches are distributed among these distances:
38 12 0.02
39 100 0.17
40 50 0.09
42 13 0.02
43 238 0.41
44 171 0.29
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (44 bp):
TTTATTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTA
Found at i:11611483 original size:19 final size:19
Alignment explanation
Indices: 11611455--11611499 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11611445 ACTTGTTTGT
* *
11611455 TTGGATTGAAGAGTTTGAA
1 TTGGACTGAAAAGTTTGAA
11611474 TTGGACTGAAAAGTTTGAA
1 TTGGACTGAAAAGTTTGAA
*
11611493 TTAGACT
1 TTGGACT
11611500 TAAATTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (19 bp):
TTGGACTGAAAAGTTTGAA
Found at i:11612468 original size:13 final size:12
Alignment explanation
Indices: 11612435--11612459 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11612425 AATTTTAAAA
11612435 AATAAAAATTTT
1 AATAAAAATTTT
11612447 AATAAAAATTTT
1 AATAAAAATTTT
11612459 A
1 A
11612460 GAAATAAATA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAAAAATTTT
Found at i:11612887 original size:45 final size:45
Alignment explanation
Indices: 11612815--11612912 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 45
11612805 AAGATAAGAT
*
11612815 AAAAAAATTTTAAATAGACCAAATAGTG-AAAATTTAGAAATTAA
1 AAAAAAATTTTAAATAGACCAAATAGTGAAAAATTTAGAAATGAA
* *
11612859 AAAAAAATTTTAAATAGGCCCATATAGTGAAAAATTTAGAAATGAA
1 AAAAAAATTTTAAATA-GACCAAATAGTGAAAAATTTAGAAATGAA
11612905 AATAAAAA
1 AA-AAAAA
11612913 ATAAAAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
44 16 0.33
45 10 0.21
46 17 0.35
47 5 0.10
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (45 bp):
AAAAAAATTTTAAATAGACCAAATAGTGAAAAATTTAGAAATGAA
Found at i:11618237 original size:122 final size:122
Alignment explanation
Indices: 11618125--11618347 Score: 306
Period size: 123 Copynumber: 1.8 Consensus size: 122
11618115 AAAATATTGT
* ** **
11618125 GGATTATTTAAGACGTTTTTTTTTTAGAAATGCCTTAAATAA-TCT-ATTTTTTTAAAAGGGATT
1 GGATTATTTAAGAC-TTTTTTATCCA-AAAAACCTTAAATAACTCTAATTTTTTTAAAAGGGATT
*
11618188 ATTTAAGGTATTTTTAATCCAAAAACGCCTTAAATAAATACCATTTAAAAAATATAAGA
64 ATTTAAGGCATTTTTAATCCAAAAACGCCTTAAATAAATACCATTTAAAAAATATAAGA
* *
11618247 GGATTATTTAAGGCTTTTTTATCCAAAAAACCTTAAATAATCTCTAATTTTTTTAAAGGGGATTA
1 GGATTATTTAAGACTTTTTTATCCAAAAAACCTTAAATAA-CTCTAATTTTTTTAAAAGGGATTA
** *
11618312 TTTAAGGCATTTTTGGTCCAAAAATGCCTTAAATAA
65 TTTAAGGCATTTTTAATCCAAAAACGCCTTAAATAA
11618348 TCTTTAATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
120 13 0.15
121 8 0.09
122 16 0.18
123 50 0.57
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (122 bp):
GGATTATTTAAGACTTTTTTATCCAAAAAACCTTAAATAACTCTAATTTTTTTAAAAGGGATTAT
TTAAGGCATTTTTAATCCAAAAACGCCTTAAATAAATACCATTTAAAAAATATAAGA
Found at i:11624681 original size:36 final size:36
Alignment explanation
Indices: 11624641--11624733 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
11624631 ATCGCATCCA
*
11624641 ACACCATCGACAAATGTTGGCCCATTATTGCCTCAG
1 ACACCATCGACAGATGTTGGCCCATTATTGCCTCAG
* * * *
11624677 ACACCATCGCCAGATGTTAGCCCTTTGTTGCCTCAG
1 ACACCATCGACAGATGTTGGCCCATTATTGCCTCAG
11624713 ACACCATC-ACTAGATGTTGGC
1 ACACCATCGAC-AGATGTTGGC
11624734 ACTTACAACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (36 bp):
ACACCATCGACAGATGTTGGCCCATTATTGCCTCAG
Found at i:11626739 original size:15 final size:15
Alignment explanation
Indices: 11626719--11626768 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
11626709 AGCACATCAA
11626719 ATTTATTTTAATATT
1 ATTTATTTTAATATT
*
11626734 ATTTATTTTAAAATT
1 ATTTATTTTAATATT
** * *
11626749 AAATATTTTTATTTT
1 ATTTATTTTAATATT
11626764 ATTTA
1 ATTTA
11626769 AATTAAAGTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTTTAATATT
Found at i:11626775 original size:30 final size:30
Alignment explanation
Indices: 11626722--11626781 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11626712 ACATCAAATT
**
11626722 TATTTTAATATTATTTATTTTAAAATTAAA
1 TATTTTAATATTATTTAAATTAAAATTAAA
* * *
11626752 TATTTTTATTTTATTTAAATTAAAGTTAAA
1 TATTTTAATATTATTTAAATTAAAATTAAA
11626782 CGTTTTCAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TATTTTAATATTATTTAAATTAAAATTAAA
Found at i:11629414 original size:42 final size:42
Alignment explanation
Indices: 11629367--11629449 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
11629357 AGATGATAAA
*
11629367 CTAAAATATAGAGAATAAAGCATAAGTTGAAAGGTCTATATG
1 CTAAAATATAGAGAATAAAGCACAAGTTGAAAGGTCTATATG
11629409 CTAAAATATAGAGAATAAAGCACAAGTTGAAAGGTCTATAT
1 CTAAAATATAGAGAATAAAGCACAAGTTGAAAGGTCTATAT
11629450 ACTGACTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.25
Consensus pattern (42 bp):
CTAAAATATAGAGAATAAAGCACAAGTTGAAAGGTCTATATG
Found at i:11636308 original size:65 final size:65
Alignment explanation
Indices: 11636204--11636327 Score: 239
Period size: 65 Copynumber: 1.9 Consensus size: 65
11636194 GTGACTGTAT
11636204 TAAGTTTAGAACAGAGGAAAAATAAACACATCAATTCAACCAATCAGCCTGTCAATAGACCGTAG
1 TAAGTTTAGAACAGAGGAAAAATAAACACATCAATTCAACCAATCAGCCTGTCAATAGACCGTAG
*
11636269 TAAGTTTAGAACAGAGGAATAATAAACACATCAATTCAACCAATCAGCCTGTCAATAGA
1 TAAGTTTAGAACAGAGGAAAAATAAACACATCAATTCAACCAATCAGCCTGTCAATAGA
11636328 AATTAACTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (65 bp):
TAAGTTTAGAACAGAGGAAAAATAAACACATCAATTCAACCAATCAGCCTGTCAATAGACCGTAG
Found at i:11638297 original size:208 final size:208
Alignment explanation
Indices: 11637938--11638335 Score: 697
Period size: 208 Copynumber: 1.9 Consensus size: 208
11637928 TTCCACACAT
*
11637938 CAACTAAACAAATGTGGCTTCAACATCCATTTCAACTCTCAAAGATGATAAAAACTATTCCACAT
1 CAACTAAACAAATGTGGCTTCAACATCCACTTCAACTCTCAAAGATGATAAAAACTATTCCACAT
* *
11638003 AGGTTTGACTTGAAACTACATGCTAGACGTCTGCAAACAAAACATCCTTCCACATGCCAAAACAC
66 AGCTTTGACTTGAAACTACATGCTAGACGTCTGCAAACAAAACATCCTTCCACACGCCAAAACAC
* * *
11638068 TGAAACACTAGGGGGCAAAGGTTGCCTGGCAATCAAGAATTGCCAAAGAAACAAGTGATTATCCT
131 TGAAACACTAAGGGCCAAAGGTTGCCTGGCAATCAAGAATAGCCAAAGAAACAAGTGATTATCCT
11638133 GATAATTTGAGTC
196 GATAATTTGAGTC
*
11638146 CAACTAACCAAATGTGGCTTCAACATCCACTTCAACTCTCAAAGATGATAAAAACTATTCCACAT
1 CAACTAAACAAATGTGGCTTCAACATCCACTTCAACTCTCAAAGATGATAAAAACTATTCCACAT
*
11638211 AGCTTTGACTTGAAACTACATGCTAGATGTCTGCAAACAAAACATCCTTCCACACGCCAAAACAC
66 AGCTTTGACTTGAAACTACATGCTAGACGTCTGCAAACAAAACATCCTTCCACACGCCAAAACAC
** *
11638276 TGAAATGCTAAGGGCCAAAGGTTGCTTGGCAATCAAGAATAGCCAAAGAAACAAGTGATT
131 TGAAACACTAAGGGCCAAAGGTTGCCTGGCAATCAAGAATAGCCAAAGAAACAAGTGATT
11638336 GACAAGAAAC
Statistics
Matches: 179, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
208 179 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (208 bp):
CAACTAAACAAATGTGGCTTCAACATCCACTTCAACTCTCAAAGATGATAAAAACTATTCCACAT
AGCTTTGACTTGAAACTACATGCTAGACGTCTGCAAACAAAACATCCTTCCACACGCCAAAACAC
TGAAACACTAAGGGCCAAAGGTTGCCTGGCAATCAAGAATAGCCAAAGAAACAAGTGATTATCCT
GATAATTTGAGTC
Found at i:11641082 original size:2 final size:2
Alignment explanation
Indices: 11641032--11641070 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11641022 TTCTGCCTAA
11641032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11641071 CACGTTTATA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11642892 original size:3 final size:3
Alignment explanation
Indices: 11642884--11642920 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11642874 TCTAGTCAAC
11642884 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11642921 TCAGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11645250 original size:9 final size:9
Alignment explanation
Indices: 11645236--11645269 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
11645226 CTTAATATGC
*
11645236 CAAATGTGT
1 CAAATGTCT
11645245 CAAATGTCT
1 CAAATGTCT
11645254 CAAATGTCT
1 CAAATGTCT
11645263 CAAATGT
1 CAAATGT
11645270 GGCAGATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (9 bp):
CAAATGTCT
Found at i:11647105 original size:6 final size:6
Alignment explanation
Indices: 11647089--11647120 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
11647079 TTCAATAAAT
11647089 ATATAAA ATATAA ATATAA ATATAA ATATAA A
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA A
11647121 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATATAA
Found at i:11652298 original size:40 final size:39
Alignment explanation
Indices: 11652225--11652321 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 39
11652215 TTCTTTTTGC
* * *
11652225 CATTTTGGATATAAAAAAGAAAATGATAACTTTTCATTGA
1 CATTTTGGATGTAATAAAGAAAACGATAACTTTT-ATTGA
* * * *
11652265 CATTTTGGATGTAATAAAGAATACGATAGCTTTTGTTGT
1 CATTTTGGATGTAATAAAGAAAACGATAACTTTTATTGA
**
11652304 CATTTTTTATGTAATAAA
1 CATTTTGGATGTAATAAA
11652322 CAATTTAGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
39 19 0.40
40 29 0.60
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (39 bp):
CATTTTGGATGTAATAAAGAAAACGATAACTTTTATTGA
Found at i:11653019 original size:26 final size:26
Alignment explanation
Indices: 11652988--11653038 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11652978 TCTATAAAAC
*
11652988 CATCATTATTATCTTATATAAACATA
1 CATCATTATTACCTTATATAAACATA
* * *
11653014 CATCATTTTTACCTTTTATCAACAT
1 CATCATTATTACCTTATATAAACAT
11653039 TTCTTTGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (26 bp):
CATCATTATTACCTTATATAAACATA
Found at i:11654032 original size:13 final size:13
Alignment explanation
Indices: 11653995--11654032 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
11653985 CAATGAAATA
11653995 TTAAAATAT-ATT
1 TTAAAATATAATT
11654007 TTAAAAT-TAAATT
1 TTAAAATAT-AATT
11654020 TTAAAATATAATT
1 TTAAAATATAATT
11654033 ATTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 7 0.30
13 14 0.61
14 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAAATATAATT
Found at i:11657562 original size:13 final size:14
Alignment explanation
Indices: 11657536--11657564 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11657526 TATACTTATA
11657536 TAATTATAATATTT
1 TAATTATAATATTT
11657550 TAATTAT-ATATTT
1 TAATTATAATATTT
11657563 TA
1 TA
11657565 TTCGAGCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:11657940 original size:27 final size:29
Alignment explanation
Indices: 11657897--11657955 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
11657887 CTTCGTTTGG
*
11657897 TTTAAGAAAATGTTTTTTAT-TTTTATTT
1 TTTAAGAAAATGTTTTTTATCTTATATTT
11657925 TTTAA-AAAATAG-TTTTTATCTTATATTT
1 TTTAAGAAAAT-GTTTTTTATCTTATATTT
11657953 TTT
1 TTT
11657956 GTTTTCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTAAGAAAATGTTTTTTATCTTATATTT
Found at i:11660917 original size:4 final size:4
Alignment explanation
Indices: 11660908--11660980 Score: 62
Period size: 4 Copynumber: 17.8 Consensus size: 4
11660898 AAAATATTTA
*
11660908 AAAT AAAT AAAT AAAT AAAAT AGAAT AAAT ACA- AAAT AAAGT AAA- AAAT
1 AAAT AAAT AAAT AAAT -AAAT A-AAT AAAT AAAT AAAT AAA-T AAAT AAAT
*
11660957 AAAAT GAAT AAA- AACAT AAAT AAA
1 -AAAT AAAT AAAT AA-AT AAAT AAA
11660981 ATGAATAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
3 7 0.12
4 32 0.56
5 18 0.32
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:11660918 original size:9 final size:9
Alignment explanation
Indices: 11660896--11660990 Score: 58
Period size: 9 Copynumber: 10.7 Consensus size: 9
11660886 AAGATAAACC
*
11660896 ATAAAATAT
1 ATAAAATAA
*
11660905 TTAAAATAA
1 ATAAAATAA
11660914 AT-AAATAA
1 ATAAAATAA
11660922 ATAAAATAGA
1 ATAAAATA-A
11660932 AT-AAAT--
1 ATAAAATAA
*
11660938 ACAAAATAA
1 ATAAAATAA
11660947 AGT-AAA-AA
1 A-TAAAATAA
11660955 ATAAAATGAA
1 ATAAAAT-AA
*
11660965 TAAAAACATAA
1 -ATAAA-ATAA
*
11660976 ATAAAATGA
1 ATAAAATAA
11660985 ATAAAA
1 ATAAAA
11660991 ATCTTACAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
6 1 0.01
7 5 0.07
8 14 0.21
9 30 0.45
10 9 0.13
11 6 0.09
12 2 0.03
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (9 bp):
ATAAAATAA
Found at i:11660944 original size:33 final size:32
Alignment explanation
Indices: 11660907--11660989 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 32
11660897 TAAAATATTT
*
11660907 AAAATAAATAAATAAATAAAATAGAATAAATAC
1 AAAATAAATAAATAAATAAAAT-GAATAAAAAC
11660940 AAAATAAAGTAAA-AAATAAAATGAATAAAAAC
1 AAAATAAA-TAAATAAATAAAATGAATAAAAAC
*
11660972 ATAAATAAAATGAATAAA
1 A-AAAT-AAATAAATAAA
11660990 AATCTTACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 10 0.23
33 24 0.55
34 10 0.23
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.19
Consensus pattern (32 bp):
AAAATAAATAAATAAATAAAATGAATAAAAAC
Found at i:11660966 original size:28 final size:28
Alignment explanation
Indices: 11660896--11660990 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 28
11660886 AAGATAAACC
** *
11660896 ATAAAATATTTAAAATAAATAAATAAATAAA
1 ATAAAATAAATAAAA-ACATAAAT-AA-AAA
* *
11660927 ATAGAATAAATACAAA-ATAAAGTAAAAA
1 ATAAAATAAATAAAAACATAAA-TAAAAA
*
11660955 ATAAAATGAATAAAAACATAAATAAAATGA
1 ATAAAATAAATAAAAACATAAATAAAA--A
11660985 ATAAAA
1 ATAAAA
11660991 ATCTTACAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
28 21 0.40
29 12 0.23
30 9 0.17
31 11 0.21
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (28 bp):
ATAAAATAAATAAAAACATAAATAAAAA
Found at i:11663206 original size:59 final size:59
Alignment explanation
Indices: 11663100--11663210 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 59
11663090 ATCAAAGCTC
* *
11663100 TTATCAATACAAAGTTGGCAATTAATAAAATATTTAAAATAAGAAAAAAGAAATAAATA
1 TTATCAATACAAAGTTGACAATTAATAAAATATTTAAAATAAAAAAAAAGAAATAAATA
* * *
11663159 TTATCAATACATAGTTGACAA-TAATGAAGTATTTAAAATAAAAAAAAAGAAA
1 TTATCAATACAAAGTTGACAATTAATAAAATATTTAAAATAAAAAAAAAGAAA
11663211 CAACTATTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 28 0.60
59 19 0.40
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (59 bp):
TTATCAATACAAAGTTGACAATTAATAAAATATTTAAAATAAAAAAAAAGAAATAAATA
Found at i:11663382 original size:32 final size:32
Alignment explanation
Indices: 11663323--11663383 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11663313 ATAATGTAAA
*
11663323 ATATAAAAATATGTGTATTTATATTGTATTTT
1 ATATAAAAATATGTGTATTAATATTGTATTTT
11663355 ATATAAAAATTATGTGT-TATAAT-TTGTAT
1 ATATAAAAA-TATGTGTAT-TAATATTGTAT
11663384 CAATACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (32 bp):
ATATAAAAATATGTGTATTAATATTGTATTTT
Found at i:11676678 original size:25 final size:24
Alignment explanation
Indices: 11676641--11676696 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
11676631 AAAAGTCGTC
* *
11676641 ATTAATTTTTTTTGTGTAGATATA
1 ATTAATTTTTTTTGTATAAATATA
11676665 ATTCAATTTTTTTTGTATAAATATA
1 ATT-AATTTTTTTTGTATAAATATA
11676690 ATTAATT
1 ATTAATT
11676697 ATCAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
ATTAATTTTTTTTGTATAAATATA
Found at i:11677689 original size:20 final size:20
Alignment explanation
Indices: 11677641--11677689 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
11677631 TTCATACTTC
*
11677641 AAAAATTTTGAAATATTTTT
1 AAAAATTTTGAAATATTTTA
* *
11677661 AACACTTTT-AGAATATTTTA
1 AAAAATTTTGA-AATATTTTA
11677681 AAAAATTTT
1 AAAAATTTT
11677690 CTTTGTGTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
AAAAATTTTGAAATATTTTA
Found at i:11678775 original size:23 final size:23
Alignment explanation
Indices: 11678747--11678790 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11678737 TCCTTTTTTC
*
11678747 TTTTGTGTGATATTTTTGGTGCT
1 TTTTGTGTCATATTTTTGGTGCT
* *
11678770 TTTTGTTTCTTATTTTTGGTG
1 TTTTGTGTCATATTTTTGGTG
11678791 ACAAAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.23, T:0.66
Consensus pattern (23 bp):
TTTTGTGTCATATTTTTGGTGCT
Found at i:11680027 original size:33 final size:33
Alignment explanation
Indices: 11679990--11680058 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
11679980 ACCACCAAGT
* * *
11679990 AAATGTAGATAACTTC-AGATATCATTATTGAGA
1 AAATGCAGATAACTTCGA-ATATCATCATTGAAA
* *
11680023 AAATGCATATAATTTCGAATATCATCATTGAAA
1 AAATGCAGATAACTTCGAATATCATCATTGAAA
11680056 AAA
1 AAA
11680059 ACTCGAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (33 bp):
AAATGCAGATAACTTCGAATATCATCATTGAAA
Found at i:11680314 original size:41 final size:42
Alignment explanation
Indices: 11680237--11680318 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
11680227 AAAATGTCTC
*
11680237 GGATATCACCACTAAAAAAATTAAATTCAAGTTTTAACACTT
1 GGATATCACCACTAAAAAAATTAAATTCAAGCTTTAACACTT
* *
11680279 GGATATCACCACT-GAAAAA-TACAATTCTAGCTTTAACACT
1 GGATATCACCACTAAAAAAATTA-AATTCAAGCTTTAACACT
11680319 CGAATATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.06
41 21 0.58
42 13 0.36
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (42 bp):
GGATATCACCACTAAAAAAATTAAATTCAAGCTTTAACACTT
Found at i:11680375 original size:41 final size:43
Alignment explanation
Indices: 11680322--11680419 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 43
11680312 TAACACTCGA
* * **
11680322 ATATTACCATCGAGAAGATAAAATTTC-AGC-TTTAATA-TTTG
1 ATATCACCATCGAGAAGATAAAA-TTCAAACTTTTAATACTCAG
* *
11680363 ATATCACCATCGAAAAGATGAAATTCAAACTTTTAATACTCAG
1 ATATCACCATCGAGAAGATAAAATTCAAACTTTTAATACTCAG
11680406 ATATCACCATCGAG
1 ATATCACCATCGAG
11680420 TTATTTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.06
41 22 0.47
42 7 0.15
43 15 0.32
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (43 bp):
ATATCACCATCGAGAAGATAAAATTCAAACTTTTAATACTCAG
Found at i:11685135 original size:211 final size:210
Alignment explanation
Indices: 11684759--11685137 Score: 498
Period size: 211 Copynumber: 1.8 Consensus size: 210
11684749 AATTTTGAAG
* * * *
11684759 AAAAAAATGAAATTTTCATTATATTGAAGATTTTCTATAAATATTTCAATACACTGGTAATATTT
1 AAAAAAAAGAAATTTTCATTATATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATTT
* *
11684824 TACAAAAAATATTCTCACCTAGAGATATCTTAAAGCATCTCTACTCGAAATACTTTTAGAATCCC
66 TACAAAAAATATTCTCACCTAGAGATATCGTAAAGCATCACTACTCGAAATACTTTTAGAATCCC
*
11684889 ATCATCGGATAAAATTTCTTTTCTTTTCATTTTTATTACTTATATTTTTAATATATTAATCAATT
131 ATCATCGGATAAAATTTCTTTTCTTTACATTTTTATTACTTATATTTTTAATATATTAATCAATT
11684954 TTTATTTATTACTTA
196 TTTATTTATTACTTA
* * * * *
11684969 AAAAAAAAGAAAATTTTTATTGTATTGAAAATTTTTTATAAATACTCCAATATACTGGTAGTATT
1 AAAAAAAAG-AAATTTTCATTATATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATA-T
* * * * *
11685034 TTTA-AAAAAATCTTCTCACTTAGAGATTTCGT-AGGCATCACTACTCGGAATACTTTT-GAATC
64 TTTACAAAAAATATTCTCACCTAGAGATATCGTAAAGCATCACTACTCGAAATACTTTTAGAATC
* *
11685096 TCATCGTCGGATAAAAATTT-TTTT-TTCCTACATTTTTTATTA
129 CCATCATCGGAT-AAAATTTCTTTTCTT--TACA-TTTTTATTA
11685138 GTTTAGTATC
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
208 2 0.01
209 19 0.13
210 40 0.28
211 78 0.54
212 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (210 bp):
AAAAAAAAGAAATTTTCATTATATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATTT
TACAAAAAATATTCTCACCTAGAGATATCGTAAAGCATCACTACTCGAAATACTTTTAGAATCCC
ATCATCGGATAAAATTTCTTTTCTTTACATTTTTATTACTTATATTTTTAATATATTAATCAATT
TTTATTTATTACTTA
Found at i:11686349 original size:11 final size:10
Alignment explanation
Indices: 11686316--11686378 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
11686306 ATCCCTTATT
*
11686316 TTTTTTTCTA
1 TTTTTTTGTA
*
11686326 TTTTTTTAATA
1 TTTTTTT-GTA
11686337 TTTTTTTGGTA
1 TTTTTTT-GTA
11686348 ---TTTTGTA
1 TTTTTTTGTA
* *
11686355 TTATTTGGTA
1 TTTTTTTGTA
11686365 TTTTTTTGTA
1 TTTTTTTGTA
11686375 TTTT
1 TTTT
11686379 GTGTTTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
10 25 0.58
11 11 0.26
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.75
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:11686790 original size:90 final size:91
Alignment explanation
Indices: 11686538--11686792 Score: 260
Period size: 97 Copynumber: 2.7 Consensus size: 91
11686528 CCTCTCACTT
* * * ** * * *
11686538 GAGGCTCGATAACTTTAAAATCTCTTTTGGAAAAGCTTCTCTCAGTAGATGTTCAACAATTTTGA
1 GAGGCTCAACAACTTTAAAATCTCTTTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTT--
* * *
11686603 AAATCTCATCTTGGAAAAAGCTCTTCTCAGTA
64 AAA----ATCTTGGAAAAACCTCCTCTCAGCA
** * *
11686635 GAGGCTCAATGACTTTAAAATCTCTTTTGGAAAAGCTCCTCTCAACAGAGGCTTAATAACTTTAA
1 GAGGCTCAACAACTTTAAAATCTCTTTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
11686700 AATCTT-GAAAAACCTCCTCTCAGCA
66 AATCTTGGAAAAACCTCCTCTCAGCA
* * ** *
11686725 GAGGCTCAACAACTTTAAAATTTTTATTTGGAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTAA
1 GAGGCTCAACAACTTTAAAATCTCT-TTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTA
11686790 AAA
65 AAA
11686793 AAAATTCTCA
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
90 37 0.27
91 42 0.31
95 3 0.02
97 53 0.39
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (91 bp):
GAGGCTCAACAACTTTAAAATCTCTTTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
AATCTTGGAAAAACCTCCTCTCAGCA
Found at i:11686870 original size:102 final size:98
Alignment explanation
Indices: 11686572--11687297 Score: 665
Period size: 102 Copynumber: 7.4 Consensus size: 98
11686562 TTTTGGAAAA
* * * * * * *
11686572 GCTTCTCTCAGTAGATGTTCAACAATTTTGAAAA-TCTCATCTTGGAAAAAGCTCTTCTCAGTAG
1 GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTT-GAAAAAGCTCCTCTCAGCAG
**
11686636 AGGCTCAATGACTTT-AAAATC-TCTTTTGGAAAA--
65 AGGCTCAACAACTTTAAAAATCATC--TT-GAAAAGG
* * * * *
11686669 GCTCCTCTCAACAGAGGCTTAATAACTTT--AAA-----ATCTTGAAAAACCTCCTCTCAGCAGA
1 GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGA
* *
11686727 GGCTCAACAACTTTAAAATTTTTAT-TTGGAAAA--
66 GGCTCAACAACTTTAAAA--ATCATCTT-GAAAAGG
* * * ** *
11686760 GCTCCTCTCAGTAGAGGCTCAACAACTTAAAAAAAAATTCTCATCTCAAAAAAGGCTCCTCCCAG
1 GCTTCTCTCAGCAGAGGCTCAACAACTT---TAAAAATTCTCATCTTGAAAAA-GCTCCTCTCAG
* *
11686825 CAGAGGCTCAACAACTTTAAAAAGCATCTTAAAAAGG
62 CAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAGG
* * * *
11686862 GCTTCTCTCAGTAGAGGTTCAACAACTTTAAAAA--CTTATCTTGAAAAAGCTTCTCTCAGCAGA
1 GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGA
11686925 GGCTCAACAACTTTAAAAAAATTTTCATCTTGAAAAGG
66 GGCTCAACAACTTT--AAAAA---TCATCTTGAAAAGG
* * * *
11686963 TCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGAAAAAGCTCCTCTCAGCAGA
1 GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGA
* *
11687028 GGTTCAACAACTCTAAAAATCTCATCTTGAAAA-G
66 GGCTCAACAACTTTAAAAA--TCATCTTGAAAAGG
* * *
11687062 GCTTCTCTCAGCAGAGGTTCAATAACTTTAAAAAAATTCTCATCTTGAAAAGGACTCCTCTCAGC
1 GCTTCTCTCAGCAGAGGCTCAACAACTTT--AAAAATTCTCATCTTGAAAAAG-CTCCTCTCAGC
* *
11687127 AGAGGCTTAACGACTTTAAAAATCATCTT-AAAAGG
63 AGAGGCTCAACAACTTTAAAAATCATCTTGAAAAGG
* * *
11687162 GTTTCTCTCAGCAGAGGCTCAACAACTTTAAAAA--CTTATCTTGAAAAAGCTCATCTCAGCAGA
1 GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGA
*
11687225 GGCTCAACAACTTTAAAATTTCATCTTGAAAA--
66 GGCTCAACAACTTTAAAA-ATCATCTTGAAAAGG
* * *
11687257 GCTCCTCTCAGCAGAGACGCAACAACTTT-AAAA-TCTCATCT
1 GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCT
11687298 GTTCTTCAAA
Statistics
Matches: 523, Mismatches: 74, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
90 30 0.06
91 40 0.08
93 1 0.00
94 5 0.01
95 63 0.12
96 50 0.10
97 36 0.07
98 10 0.02
99 34 0.07
100 53 0.10
101 77 0.15
102 86 0.16
103 38 0.07
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (98 bp):
GCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGA
GGCTCAACAACTTTAAAAATCATCTTGAAAAGG
Found at i:11687296 original size:47 final size:47
Alignment explanation
Indices: 11686520--11687297 Score: 635
Period size: 48 Copynumber: 16.0 Consensus size: 47
11686510 ATCAAATAAA
* * * *
11686520 AAAATGCTCCTCTCA-CTTGAGGCTCGATAACTTTAAAATCTC-TTTTGG
1 AAAA-GCTCCTCTCAGC-AGAGGCTCAACAACTTTAAAATCTCATCTT-G
* * * * *
11686568 AAAAGCTTCTCTCAGTAGATGTTCAACAATTTTGAAAATCTCATCTTGG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-G
* * ** *
11686617 AAAAAGCTCTTCTCAGTAGAGGCTCAATGACTTTAAAATCTC-TTTTGG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
* * *
11686665 AAAAGCTCCTCTCAACAGAGGCTTAATAACTTT-AAA----ATCTTG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * *
11686707 AAAAACCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTTAT-TTGG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTT-G
* * **
11686756 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTAAAAAAAAATTCTCATCTCAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTT----TAAAA-TCTCATCT-TG
* ** *
11686809 AAAAGGCTCCTCCCAGCAGAGGCTCAACAACTTTAAAA-AGCATCTTA
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * *
11686856 AAAAGGGCTTCTCTCAGTAGAGGTTCAACAACTTTAAAAACTTATCTTG
1 AAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
11686905 AAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAAAATTTTCATCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT---AAAA-TCTCATCTTG
* *
11686957 AAAAGGTCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTG
1 AAAA-G-CTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATCTTG
* *
11687008 AAAAAGCTCCTCTCAGCAGAGGTTCAACAACTCTAAAAATCTCATCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACT-TTAAAATCTCATCTTG
* * *
11687057 AAAAGGCTTCTCTCAGCAGAGGTTCAATAACTTTAAAAAAATTCTCATCTTG
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT---AAAA-TCTCATCTTG
* * *
11687109 AAAAGGACTCCTCTCAGCAGAGGCTTAACGACTTTAAAA-ATCATCTT-
1 AAAA-G-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * *
11687156 AAAAGGGTTTCTCTCAGCAGAGGCTCAACAACTTTAAAAACTTATCTTG
1 AAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
11687205 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
11687253 AAAAGCTCCTCTCAGCAGAGACGCAACAACTTTAAAATCTCATCT
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
11687298 GTTCTTCAAA
Statistics
Matches: 605, Mismatches: 84, Indels: 83
0.78 0.11 0.11
Matches are distributed among these distances:
42 1 0.00
43 32 0.05
44 3 0.00
46 3 0.00
47 126 0.21
48 168 0.28
49 55 0.09
50 70 0.12
51 30 0.05
52 37 0.06
53 54 0.09
54 26 0.04
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (47 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:11687318 original size:149 final size:146
Alignment explanation
Indices: 11686571--11687289 Score: 727
Period size: 152 Copynumber: 4.9 Consensus size: 146
11686561 CTTTTGGAAA
* * * * * * *
11686571 AGCTTCTCTCAGTAGATGTTCAACAATTTTGAAAATCTCATCTTGGAAAAAGC-TCTTCTCAGTA
1 AGCTTCTCTCAGCAGAGGCTCAACAACTTT-AAAAACTTATCTT-GAAAAAGCTTC-TCTCAGCA
** * * * *
11686635 GAGGCTCAATGACTTT-AAAA-TCTC-TTTTGGAAAA-G-CTCCTCTCAACAGAGGCTTAATAAC
63 GAGGCTCAACAACTTTAAAAATTCTCATCTT-GAAAAGGACTCCTCTCAGCAGAGGCTCAACAAC
*
11686695 TTT-AAAATC-T-TGAAAA-
127 TTTAAAAATCATCTTAAAAG
* * ** * * *
11686711 ACCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTTAT-TTGGAAAAGCTCCTCTCAGTAGA
1 AGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAA-ACTTATCTTGAAAAAGCTTCTCTCAGCAGA
* ** *
11686775 GGCTCAACAACTTAAAAAAAAATTCTCATCTCAAAAAAGG-CTCCTCCCAGCAGAGGCTCAACAA
65 GGCTCAACAACTT---TAAAAATTCTCATCT-TGAAAAGGACTCCTCTCAGCAGAGGCTCAACAA
*
11686839 CTTTAAAAAGCATCTTAAAAAG
126 CTTTAAAAATCATCTT-AAAAG
* * *
11686861 GGCTTCTCTCAGTAGAGGTTCAACAACTTTAAAAACTTATCTTGAAAAAGCTTCTCTCAGCAGAG
1 AGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAACTTATCTTGAAAAAGCTTCTCTCAGCAGAG
* * *
11686926 GCTCAACAACTTTAAAAAAATTTTCATCTTGAAAAGGTCTCCTCTCAGCAGAGGCTTAACAACTT
66 GCTCAACAACTTT--AAAAATTCTCATCTTGAAAAGGACTCCTCTCAGCAGAGGCTCAACAACTT
11686991 TAAAAATTTTCATCTTGAAAA-
129 TAAAAA---TCATCTT-AAAAG
* * * * *
11687012 AGCTCCTCTCAGCAGAGGTTCAACAACTCTAAAAATCTCATCTTGAAAAGGCTTCTCTCAGCAGA
1 AGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAA-CTTATCTTGAAAAAGCTTCTCTCAGCAGA
* * * *
11687077 GGTTCAATAACTTTAAAAAAATTCTCATCTTGAAAAGGACTCCTCTCAGCAGAGGCTTAACGACT
65 GGCTCAACAACTTT--AAAAATTCTCATCTTGAAAAGGACTCCTCTCAGCAGAGGCTCAACAACT
11687142 TTAAAAATCATCTTAAAAG
128 TTAAAAATCATCTTAAAAG
* *
11687161 GGTTTCTCTCAGCAGAGGCTCAACAACTTTAAAAACTTATCTTGAAAAAGC-TCATCTCAGCAGA
1 AGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAACTTATCTTGAAAAAGCTTC-TCTCAGCAGA
* *
11687225 GGCTCAACAACTTT-AAAATT-TCATCTTGAAAA-G-CTCCTCTCAGCAGAGACGCAACAACTTT
65 GGCTCAACAACTTTAAAAATTCTCATCTTGAAAAGGACTCCTCTCAGCAGAGGCTCAACAACTTT
11687286 AAAA
130 AAAA
11687290 TCTCATCTGT
Statistics
Matches: 490, Mismatches: 64, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
138 28 0.06
139 7 0.01
140 28 0.06
142 32 0.07
143 5 0.01
144 18 0.04
145 31 0.06
146 5 0.01
147 3 0.01
148 47 0.10
149 89 0.18
150 62 0.13
151 31 0.06
152 104 0.21
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (146 bp):
AGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAACTTATCTTGAAAAAGCTTCTCTCAGCAGAG
GCTCAACAACTTTAAAAATTCTCATCTTGAAAAGGACTCCTCTCAGCAGAGGCTCAACAACTTTA
AAAATCATCTTAAAAG
Found at i:11697870 original size:24 final size:24
Alignment explanation
Indices: 11697827--11697873 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
11697817 AAAAAAATAT
11697827 ATTTTTTATTTTTTAGTGTTTTGAG
1 ATTTTTTATTTTTTA-TGTTTTGAG
11697852 ATTTTTTATTTGTTT-TGTTTTG
1 ATTTTTTATTT-TTTATGTTTTG
11697874 TTTCGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (24 bp):
ATTTTTTATTTTTTATGTTTTGAG
Found at i:11699095 original size:11 final size:12
Alignment explanation
Indices: 11699060--11699105 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
11699050 TTTTCCTTTG
*
11699060 TTAAAAATTTTA
1 TTAAATATTTTA
*
11699072 TTAATTATTTTA
1 TTAAATATTTTA
11699084 TTAAAT-TTTTA
1 TTAAATATTTTA
11699095 TTTAAA-ATTTT
1 -TTAAATATTTT
11699106 GAAGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.17
12 24 0.83
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:11699513 original size:17 final size:16
Alignment explanation
Indices: 11699470--11699525 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
11699460 TTTTTCCTAC
*
11699470 ATTTTT-TATTAGTTT
1 ATTTTTATATTAATTT
* *
11699485 AGTATTATTATTAAATTT
1 ATTTTTA-TATT-AATTT
*
11699503 ATTTTTATATTATTTT
1 ATTTTTATATTAATTT
11699519 ATTTTTA
1 ATTTTTA
11699526 ACGTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 8 0.25
18 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
ATTTTTATATTAATTT
Found at i:11700569 original size:24 final size:24
Alignment explanation
Indices: 11700542--11700590 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11700532 TAGGTGATCA
* *
11700542 GAGGGGTGGGGGGTAGGGCATGGT
1 GAGGGATGGGGGATAGGGCATGGT
* *
11700566 GAGGGATGGGTGATAGGGTATGGT
1 GAGGGATGGGGGATAGGGCATGGT
11700590 G
1 G
11700591 GCAGTGGCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.61, T:0.20
Consensus pattern (24 bp):
GAGGGATGGGGGATAGGGCATGGT
Found at i:11700648 original size:14 final size:13
Alignment explanation
Indices: 11700628--11700661 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
11700618 CCATCCCCTA
11700628 TTTTTTTTTCTAT
1 TTTTTTTTTCTAT
*
11700641 TCTTTTTTTTGTAT
1 T-TTTTTTTTCTAT
11700655 TTTTTTT
1 TTTTTTT
11700662 GGTATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTCTAT
Found at i:11700658 original size:12 final size:12
Alignment explanation
Indices: 11700626--11700669 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
11700616 TGCCATCCCC
*
11700626 TATTTTTTTTTC
1 TATTTTTTTTTG
11700638 TATTCTTTTTTTTG
1 TA-T-TTTTTTTTG
*
11700652 TATTTTTTTTGG
1 TATTTTTTTTTG
11700664 TATTTT
1 TATTTT
11700670 GTATTATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 16 0.57
13 2 0.07
14 10 0.36
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.80
Consensus pattern (12 bp):
TATTTTTTTTTG
Found at i:11705600 original size:20 final size:20
Alignment explanation
Indices: 11705575--11705619 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
11705565 TTGCATGAAC
11705575 TTGCATAACTAATATTATAT
1 TTGCATAACTAATATTATAT
* *
11705595 TTGCATTATTAATATTATAT
1 TTGCATAACTAATATTATAT
11705615 TTGCA
1 TTGCA
11705620 CGAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTGCATAACTAATATTATAT
Found at i:11705682 original size:24 final size:24
Alignment explanation
Indices: 11705644--11705909 Score: 229
Period size: 24 Copynumber: 10.8 Consensus size: 24
11705634 TTGCATGATT
*
11705644 TATTTAATTGTATGATTATTAATA
1 TATTTATTTGTATGATTATTAATA
* *
11705668 TATTTATTTGCATGATTACCTAATA
1 TATTTATTTGTATGATTA-TTAATA
11705693 TATTTATGTGTGTGATTGCATGTTATTAATA
1 TATTTAT-T-TGT-A-TG-A--TTATTAATA
* * *
11705724 TATTTATTTATGTGATTTAATAATA
1 TATTTATTTGTATGA-TTATTAATA
*
11705749 TATTTATTTGTATGATTA-T-ATT
1 TATTTATTTGTATGATTATTAATA
*
11705771 TAATTTGA-TTGCATGATTATTAATA
1 T-ATTT-ATTTGTATGATTATTAATA
* * *
11705796 TATATAATTGCT-TGATTATTACTA
1 TATTTATTTG-TATGATTATTAATA
*
11705820 TATTTATTTGTATGATTA-T-ATT
1 TATTTATTTGTATGATTATTAATA
*
11705842 TAATTTAATTGTATGATTATTAATA
1 T-ATTTATTTGTATGATTATTAATA
* *
11705867 TATTTAATTGCATGATTATTAATA
1 TATTTATTTGTATGATTATTAATA
*
11705891 TATTTATTTATATGATTAT
1 TATTTATTTGTATGATTAT
11705910 ATTTGATTGC
Statistics
Matches: 197, Mismatches: 27, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
22 5 0.03
23 34 0.17
24 91 0.46
25 39 0.20
26 2 0.01
27 4 0.02
28 1 0.01
29 4 0.02
30 2 0.01
31 12 0.06
32 3 0.02
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (24 bp):
TATTTATTTGTATGATTATTAATA
Found at i:11705740 original size:56 final size:57
Alignment explanation
Indices: 11705650--11705765 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 57
11705640 GATTTATTTA
* * * *
11705650 ATTGTATGATTATTAATATATTTATTTGCATGA-TTACCTAATATATTTATGTGTGTG
1 ATTGCATGATTATTAATATATTTATTTACATGATTTA-ATAATATATTTATGTGTATG
** *
11705707 ATTGCATG-TTATTAATATATTTATTTATGTGATTTAATAATATATTTATTTGTATG
1 ATTGCATGATTATTAATATATTTATTTACATGATTTAATAATATATTTATGTGTATG
11705763 ATT
1 ATT
11705766 ATATTTAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 41 0.80
57 10 0.20
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (57 bp):
ATTGCATGATTATTAATATATTTATTTACATGATTTAATAATATATTTATGTGTATG
Found at i:11705785 original size:71 final size:70
Alignment explanation
Indices: 11705705--11705913 Score: 278
Period size: 71 Copynumber: 2.9 Consensus size: 70
11705695 TTTATGTGTG
*
11705705 TGATTGCATG-TTATTAATATATTTATTTATGTGATTTAATAATATATTTATTTGTATGATTATA
1 TGATTGCATGATTATTAATATATTTATTTAT-TGA-TTATTAATATATTTATTTGTATGATTATA
11705769 TTTAATT
64 TTTAATT
* ** *
11705776 TGATTGCATGATTATTAATATATATAATTGCTTGATTATTACTATATTTATTTGTATGATTATAT
1 TGATTGCATGATTATTAATATAT-TTATTTATTGATTATTAATATATTTATTTGTATGATTATAT
11705841 TTAATT
65 TTAATT
* * * *
11705847 TAATTGTATGATTATTAATATATTTAATTGCA-TGATTATTAATATATTTATTTATATGATTATA
1 TGATTGCATGATTATTAATATATTT-ATT-TATTGATTATTAATATATTTATTTGTATGATTATA
11705911 TTT
64 TTT
11705914 GATTGCGTGA
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
70 1 0.01
71 101 0.83
72 15 0.12
73 5 0.04
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.55
Consensus pattern (70 bp):
TGATTGCATGATTATTAATATATTTATTTATTGATTATTAATATATTTATTTGTATGATTATATT
TAATT
Found at i:11705798 original size:47 final size:47
Alignment explanation
Indices: 11705744--11705909 Score: 171
Period size: 47 Copynumber: 3.5 Consensus size: 47
11705734 TGTGATTTAA
*
11705744 TAATATATTTATTTGTATGATTA-TATT-TAATTTGATTGCATGATTAT
1 TAATATATTTAATTGTATGATTATTATTAT-ATTT-ATTGCATGATTAT
* * *
11705791 TAATATATATAATTGCT-TGATTATTACTATATTTATTTGTATGATTA-
1 TAATATATTTAATTG-TATGATTATTATTATATTTA-TTGCATGATTAT
* *
11705838 T-ATTTAATTTAATTGTATGATTATTAATATATTTAATTGCATGATTAT
1 TAATAT-ATTTAATTGTATGATTATTATTATATTT-ATTGCATGATTAT
* *
11705886 TAATATATTTATTTATATGATTAT
1 TAATATATTTAATTGTATGATTAT
11705910 ATTTGATTGC
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
46 4 0.04
47 55 0.56
48 36 0.36
49 4 0.04
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.55
Consensus pattern (47 bp):
TAATATATTTAATTGTATGATTATTATTATATTTATTGCATGATTAT
Found at i:11706042 original size:35 final size:35
Alignment explanation
Indices: 11705987--11706067 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
11705977 TTTTACGTGG
* *
11705987 TATGATTTTATATCATTGCATTATTTATTGCATGC
1 TATGATTTTATATCACTGCATTATTTATTGCATGA
* *
11706022 TATGATTTTTTATTACTGCATTATTTATTGCATGA
1 TATGATTTTATATCACTGCATTATTTATTGCATGA
11706057 TATGATTTTAT
1 TATGATTTTAT
11706068 TTATTGCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (35 bp):
TATGATTTTATATCACTGCATTATTTATTGCATGA
Found at i:11706099 original size:24 final size:22
Alignment explanation
Indices: 11706042--11706103 Score: 106
Period size: 22 Copynumber: 2.7 Consensus size: 22
11706032 TATTACTGCA
11706042 TTATTTATTGCATGATATGATT
1 TTATTTATTGCATGATATGATT
11706064 TTATTTATTGCATGATATGATT
1 TTATTTATTGCATGATATGATT
11706086 TTATGTTTATTGCATGAT
1 TTA--TTTATTGCATGAT
11706104 TGTTGATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 25 0.66
24 13 0.34
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.55
Consensus pattern (22 bp):
TTATTTATTGCATGATATGATT
Found at i:11707470 original size:597 final size:589
Alignment explanation
Indices: 11706327--11707516 Score: 1513
Period size: 597 Copynumber: 2.0 Consensus size: 589
11706317 TGTTAAGACT
*
11706327 TTTCTGGATATTGTATTTGGTTGTTGGTGATTTGGGTATAAAAGGGTTCAACTAACGTGGGATGG
1 TTTCTGGATATTGTATTTGGTTGTTGGTGATTTGGGTATAAAAGGGTTCAACTAAAGTGGGATGG
* *
11706392 CATTTAGGTTGCTTGGGTGATGAGAGATGGCAGTGAGAGTATGGTCAATTAGGGTGTTGCTTTGA
66 CATTTAGGTTGCTTAGGTGACGAGAGATGGCAGTGAGAGTATGGTCAATTAGGGTGTTGC-TTGA
* * * * * *
11706457 TGAGGCTAATGCTGAGGTTGATAAAGTTCTGGTCTTGTGGAAGAGGGTACTGACAAGGCTAGTGT
130 TAAGGCTAATGCTGAGGCTGATAAAGCTCCGATCTTGTGGAAGAGGGTACTGACAAGGCTAGTGC
* * *
11706522 TGGGTAAAAGAAGGGTTTAGTGATAGGTTTTGGCAAGGTTGGTTTTTGAAATGGTAGAGGCAAGG
195 TGGGCAAAAGAAAGGTTTAGAGATAGGTTTTGGCAAGGTTGGTTTTTGAAATGGTAGAGGCAAGG
** * ** * *
11706587 GTGATTCGGCTGAGGGTGGTGATAGAGGGGAGCTTGGATTCAACTTAGGCAGTGTGTTTCTTGGT
260 GTGATTCGGCTGAAAGAGGTGATAGAAAGAAGCTTGGATTCAACTTAGGCAGTGTATTTCTTGGT
* * * * * *
11706652 CCTTATTAGCCTCCTATTTTTTTTGTGAATTTTGAGCATTAATTTATCCCCTTTAAAATCCATAC
325 CCTCATTAGCCTCC-ACTTTTTTTGTGAATTTTGAGCATCAATTTAACCCCCTTAAAATCCAAAC
*
11706717 CAAATCCCTTAATTATAAGGATCACAATCCATTTTTTTCAATTAGTTAGCTGATTGGCCATAGAA
389 CAAATCCCTTAATTATAAGGATCACAATCCATTTTTTTCAACTAGTTAGCTGATTGGCCATAGAA
** *** *
11706782 AATGGGGTGAAGCTTGGACTTTAAGCTTCTCATTGATTTTGCCATATCCACCTCTTGAAATCTTC
454 AATAAGGTGAAGCTTGGACTTTAAGCTTCTCACCAATTTTGCCATATCCACCTATTGAAATCTTC
11706847 TCTTTTTTTCTTTGACATTTTTTTTTTATTTTTTTAAAAATTAATTAATATAATAATTGAAAACA
519 TCTTTTTTTCTTTGACA------TTTT-TTTTTTTAAAAATTAATTAATATAATAATTGAAAACA
*
11706912 TGAT-TAAAATAC
577 TGATCAAAAATAC
*
11706924 TTTCTGGATATTGTATTTGGTTGTTGGTGATTTGGGTATAAAAGGGTTCAGCTAAAAGTGGGATG
1 TTTCTGGATATTGTATTTGGTTGTTGGTGATTTGGGTATAAAAGGGTTCAACT-AAAGTGGGATG
* * *
11706989 GCATTTAGGTTGCTTAGGTGACGAGAGATGGTAGTGAGAGTGTGGTCGATTAGGGTGTTGGC-TG
65 GCATTTAGGTTGCTTAGGTGACGAGAGATGGCAGTGAGAGTATGGTCAATTAGGGTGTT-GCTTG
** * * * * *
11707053 ATAAGGCTGGTGCT-AGGGCTGATGAGGCTCCGATCTTGTAGGATA-A-GGTACTGGCAAGGTTG
129 ATAAGGCTAATGCTGA-GGCTGATAAAGCTCCGATCTTGT-GGA-AGAGGGTACTGACAAGGCTA
*
11707115 GTGCTGGGCAAAA-ATAAGGTTTAGAGATGGGTTTTGGCAAGGTTGGTTTTTGAAATGGTAGAGG
191 GTGCTGGGCAAAAGA-AAGGTTTAGAGATAGGTTTTGGCAAGGTTGGTTTTTGAAATGGTAGAGG
* * * * * ** * * *
11707179 TAAGGGTGATTCGGGTTAAAGAGTTGATA-AAATAAGCTTGGATTCAGTTTGGGTAGTGTATTTT
255 CAAGGGTGATTCGGCTGAAAGAGGTGATAGAAAGAAGCTTGGATTCAACTTAGGCAGTGTATTTC
*
11707243 TTGGTCCTCATTAGCCTTCC-CTTTTTTTGTGAATTTTGGGCATCAATTTAACCCCCTTAAAATC
320 TTGGTCCTCATTAGCC-TCCACTTTTTTTGTGAATTTTGAGCATCAATTTAACCCCCTTAAAATC
** * * *
11707307 CAAACCAAATCTTTTAATTATAGGGATCATAATCCA-TTTTTTCAACTGGTTAGCTGATTGGCCA
384 CAAACCAAATCCCTTAATTATAAGGATCACAATCCATTTTTTTCAACTAGTTAGCTGATTGGCCA
*
11707371 TGGAAAATAAGGT-AGAGCTTGGACTTTAAGCTTCGT-ACCAATTTTGCCATATCCACCTATTGA
449 TAGAAAATAAGGTGA-AGCTTGGACTTTAAGCTTC-TCACCAATTTTGCCATATCCACCTATTGA
***
11707434 AATCTTCTCTTTTTTTTGACTTT-TTTTTTATTTTTTTTAAAAATTAATTAATATAATAATTGAA
512 AATCTTCTC-TTTTTTT--CTTTGACATTT-TTTTTTTTAAAAATTAATTAATATAATAATTGAA
11707498 AACATGATCAAAAATAC
573 AACATGATCAAAAATAC
11707515 TT
1 TT
11707517 GAATGAGTTT
Statistics
Matches: 514, Mismatches: 65, Indels: 34
0.84 0.11 0.06
Matches are distributed among these distances:
590 44 0.09
591 10 0.02
593 1 0.00
594 87 0.17
595 78 0.15
596 42 0.08
597 181 0.35
598 68 0.13
599 3 0.01
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (589 bp):
TTTCTGGATATTGTATTTGGTTGTTGGTGATTTGGGTATAAAAGGGTTCAACTAAAGTGGGATGG
CATTTAGGTTGCTTAGGTGACGAGAGATGGCAGTGAGAGTATGGTCAATTAGGGTGTTGCTTGAT
AAGGCTAATGCTGAGGCTGATAAAGCTCCGATCTTGTGGAAGAGGGTACTGACAAGGCTAGTGCT
GGGCAAAAGAAAGGTTTAGAGATAGGTTTTGGCAAGGTTGGTTTTTGAAATGGTAGAGGCAAGGG
TGATTCGGCTGAAAGAGGTGATAGAAAGAAGCTTGGATTCAACTTAGGCAGTGTATTTCTTGGTC
CTCATTAGCCTCCACTTTTTTTGTGAATTTTGAGCATCAATTTAACCCCCTTAAAATCCAAACCA
AATCCCTTAATTATAAGGATCACAATCCATTTTTTTCAACTAGTTAGCTGATTGGCCATAGAAAA
TAAGGTGAAGCTTGGACTTTAAGCTTCTCACCAATTTTGCCATATCCACCTATTGAAATCTTCTC
TTTTTTTCTTTGACATTTTTTTTTTTAAAAATTAATTAATATAATAATTGAAAACATGATCAAAA
ATAC
Done.