Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 37 of 127
Found at i:7564607 original size:44 final size:42
Alignment explanation
Indices: 7564544--7564628 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 42
7564534 AAGGTTTTGG
* *
7564544 GGTTTTAATTTTAGGGTTTGAAGATTTTAGGGTTTTGATTTTAA
1 GGTTTTAACTTTAGGGTTTG-AGATTTGA-GGTTTTGATTTTAA
* *
7564588 GGTTTTAACTTTATGGTTTGAGGTTTGAGGTTTTGATTTTA
1 GGTTTTAACTTTAGGGTTTGAGATTTGAGGTTTTGATTTTA
7564629 GGATTTAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 13 0.35
43 6 0.16
44 18 0.49
ACGTcount: A:0.20, C:0.01, G:0.26, T:0.53
Consensus pattern (42 bp):
GGTTTTAACTTTAGGGTTTGAGATTTGAGGTTTTGATTTTAA
Found at i:7564663 original size:22 final size:22
Alignment explanation
Indices: 7564637--7564686 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7564627 TAGGATTTAG
*
7564637 AGGATTTACGGTTTAGTTTTTT
1 AGGATTTACGGTTTAGATTTTT
* *
7564659 AGGATTTATGGTTTTGATTTTT
1 AGGATTTACGGTTTAGATTTTT
7564681 -GGATTT
1 AGGATTT
7564687 TAGATTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.18, C:0.02, G:0.24, T:0.56
Consensus pattern (22 bp):
AGGATTTACGGTTTAGATTTTT
Found at i:7564694 original size:15 final size:15
Alignment explanation
Indices: 7564655--7564701 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
7564645 CGGTTTAGTT
*
7564655 TTTTAGGATTTATGG-
1 TTTTA-GATTTTTGGA
7564670 TTTT-GATTTTTGGA
1 TTTTAGATTTTTGGA
*
7564684 TTTTAGATTTTAGGA
1 TTTTAGATTTTTGGA
7564699 TTT
1 TTT
7564702 ATGGTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 16 0.57
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (15 bp):
TTTTAGATTTTTGGA
Found at i:7564695 original size:36 final size:36
Alignment explanation
Indices: 7564655--7564741 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
7564645 CGGTTTAGTT
* *
7564655 TTTTAGGATTTATGGTTTTGATTTTTGGATTTTAGA
1 TTTTAGGATTTATGGTTTTAATTGTTGGATTTTAGA
*
7564691 TTTTAGGATTTATGGTTTTAATTGTTGGATTTTGGA
1 TTTTAGGATTTATGGTTTTAATTGTTGGATTTTAGA
*
7564727 TTTTAGGGTTTATGG
1 TTTTAGGATTTATGG
7564742 AAAACATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.56
Consensus pattern (36 bp):
TTTTAGGATTTATGGTTTTAATTGTTGGATTTTAGA
Found at i:7564881 original size:14 final size:14
Alignment explanation
Indices: 7564864--7564897 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7564854 ATTATAATAA
7564864 TATTATTAATT-TAT
1 TATTATTAATTAT-T
7564878 TATTATTAATTATT
1 TATTATTAATTATT
7564892 TATTAT
1 TATTAT
7564898 CTTTTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTAATTATT
Found at i:7565049 original size:15 final size:15
Alignment explanation
Indices: 7565029--7565077 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
7565019 TATTCAATTC
7565029 TTATTATTTTTATTT
1 TTATTATTTTTATTT
7565044 TTATTA--TTTATTGT
1 TTATTATTTTTATT-T
* *
7565058 TT-TCATTTTTATTG
1 TTATTATTTTTATTT
7565072 TTATTA
1 TTATTA
7565078 AAAACCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 8 0.30
14 5 0.19
15 14 0.52
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
TTATTATTTTTATTT
Found at i:7565055 original size:22 final size:22
Alignment explanation
Indices: 7565029--7565070 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7565019 TATTCAATTC
*
7565029 TTATTATTTTTATTTTTATTAT
1 TTATTATTTTCATTTTTATTAT
*
7565051 TTATTGTTTTCATTTTTATT
1 TTATTATTTTCATTTTTATT
7565071 GTTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (22 bp):
TTATTATTTTCATTTTTATTAT
Found at i:7566368 original size:9 final size:8
Alignment explanation
Indices: 7566353--7566399 Score: 60
Period size: 9 Copynumber: 5.8 Consensus size: 8
7566343 TTTTCAAAAG
7566353 TTTTTGTT
1 TTTTTGTT
7566361 TGTTTTGTT
1 T-TTTTGTT
7566370 TTTTTGTT
1 TTTTTGTT
*
7566378 TTGTGTGTT
1 TT-TTTGTT
7566387 TTTTT-TT
1 TTTTTGTT
7566394 TTTTTG
1 TTTTTG
7566400 GATTGAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 7 0.21
8 12 0.35
9 15 0.44
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (8 bp):
TTTTTGTT
Found at i:7566375 original size:17 final size:16
Alignment explanation
Indices: 7566353--7566399 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
7566343 TTTTCAAAAG
7566353 TTTTTGTTTGTTTTGTT
1 TTTTTGTTT-TTTTGTT
*
7566370 TTTTTGTTTTGTGTGTT
1 TTTTTGTTTT-TTTGTT
7566387 TTTTT-TTTTTTTG
1 TTTTTGTTTTTTTG
7566400 GATTGAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.11
16 5 0.19
17 19 0.70
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTTTTGTT
Found at i:7566379 original size:22 final size:22
Alignment explanation
Indices: 7566354--7566396 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7566344 TTTCAAAAGT
*
7566354 TTTTGTTTGTTTTGTTTTTTTG
1 TTTTGTGTGTTTTGTTTTTTTG
*
7566376 TTTTGTGTGTTTTTTTTTTTT
1 TTTTGTGTGTTTTGTTTTTTT
7566397 TTGGATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (22 bp):
TTTTGTGTGTTTTGTTTTTTTG
Found at i:7566624 original size:37 final size:37
Alignment explanation
Indices: 7566532--7566626 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 37
7566522 CCGAATAACA
*
7566532 AAAAAAATGATTGGGACAACACTGCAAGTAGAGAAAT
1 AAAAAAATGATTGGGACAACACTGCAAATAGAGAAAT
* * *** *
7566569 AAGAAAACGATCAAGACAACACCT-CAAATTGAGAAAT
1 AAAAAAATGATTGGGACAACA-CTGCAAATAGAGAAAT
7566606 AAAAAAATGATTGGGACAACA
1 AAAAAAATGATTGGGACAACA
7566627 TCGCGAGTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
37 43 0.96
38 2 0.04
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.15
Consensus pattern (37 bp):
AAAAAAATGATTGGGACAACACTGCAAATAGAGAAAT
Found at i:7566646 original size:74 final size:75
Alignment explanation
Indices: 7566532--7566702 Score: 183
Period size: 75 Copynumber: 2.3 Consensus size: 75
7566522 CCGAATAACA
* * *
7566532 AAAAAAATGATTGGGACAACACTGCAAGTAGAGAAATAAG-AAAACGATCAAGACAACACCTCAA
1 AAAAAAATGATTGGGACAACACTGCAAGTAGAGAAATAAGAAAAACAACCAAGACAACACCGCAA
7566596 ATTGAGA-AAT
66 ATTGA-ATAAT
* * *
7566606 AAAAAAATGATTGGGACAACA-TCGCGAGTCA-A-AAAGTAAGAAAAATAACCAGGACAACACCG
1 AAAAAAATGATTGGGACAACACT-GCAAGT-AGAGAAA-TAAGAAAAACAACCAAGACAACACCG
7566668 CAAATTGAATAAT
63 CAAATTGAATAAT
* *
7566681 -AAAGAATCGATTAGGACAACAC
1 AAAAAAAT-GATTGGGACAACAC
7566703 CATAAGTTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
73 4 0.05
74 38 0.46
75 40 0.49
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.15
Consensus pattern (75 bp):
AAAAAAATGATTGGGACAACACTGCAAGTAGAGAAATAAGAAAAACAACCAAGACAACACCGCAA
ATTGAATAAT
Found at i:7566719 original size:37 final size:37
Alignment explanation
Indices: 7566678--7566802 Score: 110
Period size: 37 Copynumber: 3.4 Consensus size: 37
7566668 CAAATTGAAT
7566678 AATAAAGAATCGATTAGGACAACACCATAAGTTAAAA
1 AATAAAGAATCGATTAGGACAACACCATAAGTTAAAA
** * * * *
7566715 AATAATA-AATCGA-CCGAGATAACACCGTGAGTCAAAA
1 AATAA-AGAATCGATTAG-GACAACACCATAAGTTAAAA
* * * * *
7566752 AGTAAAGAATCGATTGGGACAACATCACAAGTTAAGA
1 AATAAAGAATCGATTAGGACAACACCATAAGTTAAAA
*
7566789 AATAAAAAATCGAT
1 AATAAAGAATCGAT
7566803 CGAGACAATA
Statistics
Matches: 66, Mismatches: 18, Indels: 8
0.72 0.20 0.09
Matches are distributed among these distances:
36 2 0.03
37 62 0.94
38 2 0.03
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (37 bp):
AATAAAGAATCGATTAGGACAACACCATAAGTTAAAA
Found at i:7566886 original size:110 final size:111
Alignment explanation
Indices: 7566757--7566960 Score: 277
Period size: 110 Copynumber: 1.8 Consensus size: 111
7566747 CAAAAAGTAA
* * * * **
7566757 AGAATCGATTGGGACAACATCACAAGTTAAGAAATAAAAAATCGATCGA-GACAATACTGCAAAT
1 AGAATCGATCGGGACAACATCACAAGTCAAAAAATAAAAAATCGAT-GAGGACAACACCACAAAT
7566821 CGAAATTATGCCCAGAGGTCTTA-AAAATCATGTCTGGAGATCTTAC
65 CGAAATTATGCCCAGAGGTCTTACAAAATCATGTCTGGAGATCTTAC
* * * * *
7566867 AGAATCGATCGGGACAACATCGCAAGTCAAAAAATAAAGAATCGATTAGGATAACACCACGAATC
1 AGAATCGATCGGGACAACATCACAAGTCAAAAAATAAAAAATCGATGAGGACAACACCACAAATC
*
7566932 GAAATTATGCCTAGAGGTCTTACAAAATC
66 GAAATTATGCCCAGAGGTCTTACAAAATC
7566961 GATCAGGATA
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
109 1 0.01
110 73 0.91
111 6 0.08
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (111 bp):
AGAATCGATCGGGACAACATCACAAGTCAAAAAATAAAAAATCGATGAGGACAACACCACAAATC
GAAATTATGCCCAGAGGTCTTACAAAATCATGTCTGGAGATCTTAC
Found at i:7567025 original size:88 final size:88
Alignment explanation
Indices: 7566861--7567047 Score: 225
Period size: 88 Copynumber: 2.1 Consensus size: 88
7566851 TGTCTGGAGA
* * * * *
7566861 TCTTACAGAATCGATCGGGACAACATCGCAAGTCAAAAAATAAAGAATCGATTAGGATAACACCA
1 TCTTACAAAATCGATCAGGACAACACCGCAAGTCAAAAAATAAAGAATCGATCAAGATAACACCA
* *
7566926 CGAATCGAAATTATGCCTAG-AGG
66 CAAATCAAAATTATG-CTAGAAGG
* * * * *
7566949 TCTTACAAAATCGATCAGGATAACACCGTAAGTTAAAAAATAAAGAATCGATCAAGATAACATCG
1 TCTTACAAAATCGATCAGGACAACACCGCAAGTCAAAAAATAAAGAATCGATCAAGATAACACCA
* *
7567014 TAAATCAAAATTATGCTCGAAGG
66 CAAATCAAAATTATGCTAGAAGG
7567037 TCTT-CAAAATC
1 TCTTACAAAATC
7567048 ATGCCCAGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
87 10 0.12
88 74 0.88
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (88 bp):
TCTTACAAAATCGATCAGGACAACACCGCAAGTCAAAAAATAAAGAATCGATCAAGATAACACCA
CAAATCAAAATTATGCTAGAAGG
Found at i:7567236 original size:22 final size:22
Alignment explanation
Indices: 7567211--7567253 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7567201 TCGTAAATCG
* *
7567211 AAATTATACCCGAAGGTCTTAA
1 AAATCATACCCAAAGGTCTTAA
*
7567233 AAATCATGCCCAAAGGTCTTA
1 AAATCATACCCAAAGGTCTTA
7567254 CAGAATCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (22 bp):
AAATCATACCCAAAGGTCTTAA
Found at i:7567307 original size:37 final size:36
Alignment explanation
Indices: 7567255--7567360 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 36
7567245 AAGGTCTTAC
*
7567255 AGAATCGATTGGGACAACACCGCAAGTCAAAAAATAA
1 AGAATCGA-TCGGACAACACCGCAAGTCAAAAAATAA
* * *
7567292 AGAATCGATCAGGACAATACCGCGAGTCAAAAAGTAA
1 AGAATCGATC-GGACAACACCGCAAGTCAAAAAATAA
* * *
7567329 AGAATCGATCGAGATAACATCGTAAGTCAAAA
1 AGAATCGATCG-GACAACACCGCAAGTCAAAA
7567361 TTAAGGAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
36 2 0.03
37 56 0.97
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (36 bp):
AGAATCGATCGGACAACACCGCAAGTCAAAAAATAA
Found at i:7567503 original size:34 final size:34
Alignment explanation
Indices: 7567422--7567506 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
7567412 TTACTGATGA
* * * *
7567422 CCAGAAAAATTGGACTTAAATCTTTCTTTGAAGG
1 CCAGATAAATTGGGCTTAAATCATTCTTTAAAGG
7567456 CCAGATAAATTGGGCTTAAATCATTCTTTAAAGG
1 CCAGATAAATTGGGCTTAAATCATTCTTTAAAGG
*
7567490 CTAGATAAATTGGGCTT
1 CCAGATAAATTGGGCTT
7567507 TTATTGAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (34 bp):
CCAGATAAATTGGGCTTAAATCATTCTTTAAAGG
Found at i:7567679 original size:33 final size:33
Alignment explanation
Indices: 7567642--7567831 Score: 206
Period size: 33 Copynumber: 5.8 Consensus size: 33
7567632 TAAGAGTGGA
* *
7567642 GGCCAAATAAACTAGGCTTAAGATTTCCTTAGG
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTAGG
* * * *
7567675 GGCCAGCTAAACTAGGCTTAAAACTTCATT-GAT
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTAG-G
*
7567708 GGCCAGATAAACTAGGCTTAAAATTTCCTTAAG
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTAGG
* * * ** *
7567741 GGCTAGCTAAACTAGGCTTAAAACTTCAAT-GAT
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTAG-G
*
7567774 GGCCAGATAAACTAGGCTTAAAATTTCCTTA-A
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTAGG
*
7567806 GGCCAGCTAAACTAGGCTTAAAATTT
1 GGCCAGATAAACTAGGCTTAAAATTT
7567832 TTTTAGAATT
Statistics
Matches: 128, Mismatches: 25, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
32 26 0.20
33 102 0.80
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (33 bp):
GGCCAGATAAACTAGGCTTAAAATTTCCTTAGG
Found at i:7567727 original size:66 final size:65
Alignment explanation
Indices: 7567642--7567828 Score: 311
Period size: 66 Copynumber: 2.8 Consensus size: 65
7567632 TAAGAGTGGA
* * *
7567642 GGCCAAATAAACTAGGCTTAAGATTTCCTTAGGGGCCAGCTAAACTAGGCTTAAAACTTCATTGA
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTA-GGGCCAGCTAAACTAGGCTTAAAACTTCAATGA
7567707 T
65 T
*
7567708 GGCCAGATAAACTAGGCTTAAAATTTCCTTAAGGGCTAGCTAAACTAGGCTTAAAACTTCAATGA
1 GGCCAGATAAACTAGGCTTAAAATTTCCTT-AGGGCCAGCTAAACTAGGCTTAAAACTTCAATGA
7567773 T
65 T
*
7567774 GGCCAGATAAACTAGGCTTAAAATTTCCTTAAGGCCAGCTAAACTAGGCTTAAAA
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTAGGGCCAGCTAAACTAGGCTTAAAA
7567829 TTTTTTTAGA
Statistics
Matches: 114, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
65 23 0.20
66 90 0.79
67 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (65 bp):
GGCCAGATAAACTAGGCTTAAAATTTCCTTAGGGCCAGCTAAACTAGGCTTAAAACTTCAATGAT
Found at i:7568739 original size:23 final size:24
Alignment explanation
Indices: 7568695--7568741 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7568685 TTCATGTCTT
* * *
7568695 TTTTTTTTTTTTTCGTTCCTTTCA
1 TTTTTTTCTTTTGCATTCCTTTCA
7568719 TTTTTTTCTTTTGCATT-CTTTCA
1 TTTTTTTCTTTTGCATTCCTTTCA
7568742 CTGAATGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTTTCTTTTGCATTCCTTTCA
Found at i:7571512 original size:20 final size:20
Alignment explanation
Indices: 7571476--7571513 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7571466 AGAATTATAT
*
7571476 TGAATGAATACATAAATGGA
1 TGAATGAATACAAAAATGGA
7571496 TGAATGAATGA-AAAAATG
1 TGAATGAAT-ACAAAAATG
7571514 AGTGAATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.24
Consensus pattern (20 bp):
TGAATGAATACAAAAATGGA
Found at i:7574998 original size:30 final size:29
Alignment explanation
Indices: 7574964--7575059 Score: 113
Period size: 30 Copynumber: 3.3 Consensus size: 29
7574954 TTATGGCTTG
7574964 AATTTTAGGGTTTTGAAGGTTTAGGGTTTT
1 AATTTTAGGG-TTTGAAGGTTTAGGGTTTT
*
7574994 AATTTTAGGGTTTGAAGATTTTAGGGTTTT
1 AATTTTAGGGTTTGAAG-GTTTAGGGTTTT
* * * *
7575024 GACTTTAGGGTTT-AAAGTTTGGGGTTTT
1 AATTTTAGGGTTTGAAGGTTTAGGGTTTT
*
7575052 GATTTTAG
1 AATTTTAG
7575060 AATTTGGAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.29
29 9 0.16
30 32 0.55
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (29 bp):
AATTTTAGGGTTTGAAGGTTTAGGGTTTT
Found at i:7575002 original size:14 final size:14
Alignment explanation
Indices: 7574964--7575059 Score: 84
Period size: 14 Copynumber: 6.6 Consensus size: 14
7574954 TTATGGCTTG
7574964 AATTTTAGGGTTTT
1 AATTTTAGGGTTTT
*
7574978 GAAGGTTTAGGGTTTT
1 -AA-TTTTAGGGTTTT
*
7574994 AATTTTAGGGTTTGA
1 AATTTTAGGGTTT-T
7575009 AGATTTTAGGGTTTT
1 A-ATTTTAGGGTTTT
* * *
7575024 GACTTTAGGGTTTA
1 AATTTTAGGGTTTT
* *
7575038 AAGTTTGGGGTTTT
1 AATTTTAGGGTTTT
*
7575052 GATTTTAG
1 AATTTTAG
7575060 AATTTGGAGG
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
14 36 0.56
15 5 0.08
16 23 0.36
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (14 bp):
AATTTTAGGGTTTT
Found at i:7575080 original size:58 final size:60
Alignment explanation
Indices: 7574967--7575080 Score: 135
Period size: 58 Copynumber: 1.9 Consensus size: 60
7574957 TGGCTTGAAT
* ** *
7574967 TTTAGGGTTTTGAAGGTTTAGGGTTTTAATTTTAGGGTTTGAAGATTTTAGGGTTTTGAC
1 TTTAGGGTTTTGAAAGTTTAGGGTTTTAATTTTAGAATTTGAAGATTTTACGGTTTTGAC
* * *
7575027 TTTAGGG-TTT-AAAGTTTGGGGTTTTGATTTTAGAATTTGGAGGA-TTTACGGTTT
1 TTTAGGGTTTTGAAAGTTTAGGGTTTTAATTTTAGAATTT-GAAGATTTTACGGTTT
7575081 AGTTTTTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
58 32 0.70
59 7 0.15
60 7 0.15
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (60 bp):
TTTAGGGTTTTGAAAGTTTAGGGTTTTAATTTTAGAATTTGAAGATTTTACGGTTTTGAC
Found at i:7575126 original size:36 final size:36
Alignment explanation
Indices: 7575086--7575208 Score: 192
Period size: 36 Copynumber: 3.4 Consensus size: 36
7575076 GGTTTAGTTT
*
7575086 TTTTAGGGTTTATGGTTTTGATTTTTGGATTTTGGA
1 TTTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGA
* *
7575122 TTTTATGGTTTATGGTTTTAATTGTTGGATTTTGGA
1 TTTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGA
* * *
7575158 TTTTAAGGTTTATGGTTTTAAATTTTGTATTTTGGA
1 TTTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGA
7575194 TTTTAGGGTTTATGG
1 TTTTAGGGTTTATGG
7575209 AAAACACGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 79 1.00
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (36 bp):
TTTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGA
Found at i:7575140 original size:29 final size:29
Alignment explanation
Indices: 7575094--7575154 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
7575084 TTTTTTAGGG
* *
7575094 TTTATGGTTTTGATTTTTGGATT-TTGGAT
1 TTTATGGTTTTGAGTTTT-AATTGTTGGAT
7575123 TTTATGGTTTATG-GTTTTAATTGTTGGAT
1 TTTATGGTTT-TGAGTTTTAATTGTTGGAT
7575152 TTT
1 TTT
7575155 GGATTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 23 0.82
30 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (29 bp):
TTTATGGTTTTGAGTTTTAATTGTTGGAT
Found at i:7575502 original size:3 final size:3
Alignment explanation
Indices: 7575496--7575555 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
7575486 TATTCAATTC
* *
7575496 TTA TTA TTT TTA TTA TT- TTA TTA TTA TTA TTA TTTA TTG TT- TTCAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT--A
7575542 TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
7575556 AAAATAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
2 6 0.12
3 37 0.77
4 3 0.06
5 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7575516 original size:14 final size:14
Alignment explanation
Indices: 7575499--7575555 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
7575489 TCAATTCTTA
*
7575499 TTATTTTTATTATT
1 TTATTATTATTATT
7575513 TTATTATTATTATTAT
1 TTATTATTATTA-T-T
*
7575529 TTATTGTT-TTCAATT
1 TTATTATTATT--ATT
7575544 TTATTATTATTA
1 TTATTATTATTA
7575556 AAAATAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 12 0.34
15 11 0.31
16 11 0.31
17 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:7575516 original size:17 final size:17
Alignment explanation
Indices: 7575496--7575551 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
7575486 TATTCAATTC
7575496 TTATTATTTTTATTATT
1 TTATTATTTTTATTATT
*
7575513 TTATTATTATTATTA-T
1 TTATTATTTTTATTATT
* *
7575529 TTATTGTTTTCA--ATT
1 TTATTATTTTTATTATT
7575544 TTATTATT
1 TTATTATT
7575552 ATTAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 1 0.03
15 8 0.24
16 10 0.30
17 14 0.42
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTATTTTTATTATT
Found at i:7576677 original size:7 final size:7
Alignment explanation
Indices: 7576665--7576701 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
7576655 TCTTTTGTTT
7576665 TTATTAA
1 TTATTAA
7576672 TTATTAA
1 TTATTAA
7576679 TTATT-A
1 TTATTAA
7576685 -TATTTAA
1 TTA-TTAA
7576692 TTATTAA
1 TTATTAA
7576699 TTA
1 TTA
7576702 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 2 0.07
6 3 0.11
7 20 0.74
8 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATTAA
Found at i:7577542 original size:24 final size:23
Alignment explanation
Indices: 7577515--7577570 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
7577505 CATTAAGTGT
*
7577515 TTTAATTATAAAATTTAACTTTTA
1 TTTAATTATAAAAGTTAA-TTTTA
* * **
7577539 TTTATTTTTATGAGTTAATTTTA
1 TTTAATTATAAAAGTTAATTTTA
7577562 TTTAATTAT
1 TTTAATTAT
7577571 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTAATTATAAAAGTTAATTTTA
Found at i:7583432 original size:14 final size:15
Alignment explanation
Indices: 7583415--7583445 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7583405 ATTTTTAAAA
7583415 ATTTATATATT-TTT
1 ATTTATATATTGTTT
7583429 ATTTATATATTGTTT
1 ATTTATATATTGTTT
7583444 AT
1 AT
7583446 CATTAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTTATATATTGTTT
Found at i:7583546 original size:17 final size:17
Alignment explanation
Indices: 7583503--7583548 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
7583493 TTTAACTTTT
*
7583503 ATTTTTTTTATGAGTTA
1 ATTTTTTTAATGAGTTA
* *
7583520 ATTTTATTTAATTATTTA
1 ATTTT-TTTAATGAGTTA
7583538 ATTTTTTTAAT
1 ATTTTTTTAAT
7583549 AATATGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
ATTTTTTTAATGAGTTA
Found at i:7585958 original size:2 final size:2
Alignment explanation
Indices: 7585951--7585979 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7585941 ACATACATAC
7585951 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 A
7585980 AAAGTTCAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7586884 original size:16 final size:16
Alignment explanation
Indices: 7586863--7586914 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
7586853 TATTAAATGA
7586863 ATAAATATAAATTAAT
1 ATAAATATAAATTAAT
*
7586879 ATAAATATAAAATAAT
1 ATAAATATAAATTAAT
* *
7586895 GTAATAATATATATTAAT
1 AT-A-AATATAAATTAAT
7586913 AT
1 AT
7586915 TAGTGTTTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 16 0.55
17 1 0.03
18 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATAAATATAAATTAAT
Found at i:7592829 original size:26 final size:24
Alignment explanation
Indices: 7592800--7592850 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
7592790 CTAAAAAAAG
7592800 GTGTGAAAAAACTAAGAAATAAAACT
1 GTGTG-AAAAACTAA-AAATAAAACT
*
7592826 GTGTGAAAAACTAAAAGTAAAACT
1 GTGTGAAAAACTAAAAATAAAACT
7592850 G
1 G
7592851 AATGTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 9 0.38
26 5 0.21
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.20
Consensus pattern (24 bp):
GTGTGAAAAACTAAAAATAAAACT
Found at i:7593021 original size:22 final size:22
Alignment explanation
Indices: 7592993--7593036 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7592983 ATTTTTTGTT
* *
7592993 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
7593015 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
7593037 TAAATACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:7597091 original size:22 final size:22
Alignment explanation
Indices: 7597066--7597109 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7597056 ATTTTTTATC
*
7597066 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
7597088 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
7597110 TAAATACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:7600975 original size:101 final size:100
Alignment explanation
Indices: 7600801--7600997 Score: 286
Period size: 101 Copynumber: 2.0 Consensus size: 100
7600791 ATTTAAGTAT
* * * * *
7600801 AATTTGTGGGAATATGCTAAAAGAGAAAGTAAATTTTTGGAAATAATTGTATAGATATCTCTATT
1 AATTTGTGGAAATATGCTAAAAAAGAAAGTAAATTTTTGAAAATAATTGTATAGATATCTATATA
7600866 TTTGTTTTTATTAAACTAAACCTAAGGTTGTGGAA
66 TTTGTTTTTATTAAACTAAACCTAAGGTTGTGGAA
** * * *
7600901 AATTTGTGGAAATATTTTGAAAAAAGAAAGTAAATTTTTGAAAATGATTGTATGGATATTTATAT
1 AATTTGTGGAAATATGCT-AAAAAAGAAAGTAAATTTTTGAAAATAATTGTATAGATATCTATAT
*
7600966 ATTTGTTTTTATTAAACTAAACCTAAGTTTGT
65 ATTTGTTTTTATTAAACTAAACCTAAGGTTGT
7600998 TTTAATCAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 15 0.18
101 70 0.82
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (100 bp):
AATTTGTGGAAATATGCTAAAAAAGAAAGTAAATTTTTGAAAATAATTGTATAGATATCTATATA
TTTGTTTTTATTAAACTAAACCTAAGGTTGTGGAA
Found at i:7601008 original size:26 final size:26
Alignment explanation
Indices: 7600967--7601020 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
7600957 TATTTATATA
* *
7600967 TTTGTTTTTATTAAACTAAACCTAAG
1 TTTGTTTTAATCAAACTAAACCTAAG
7600993 TTTGTTTTAATCAAACTAAACCTAAG
1 TTTGTTTTAATCAAACTAAACCTAAG
7601019 TT
1 TT
7601021 AATCATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTGTTTTAATCAAACTAAACCTAAG
Found at i:7607409 original size:2 final size:2
Alignment explanation
Indices: 7607402--7607433 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7607392 CTGAAGTAAG
7607402 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7607434 ATTTGAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7609853 original size:4 final size:4
Alignment explanation
Indices: 7609844--7609871 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7609834 GTCCTTATAT
7609844 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
7609872 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:7610580 original size:123 final size:122
Alignment explanation
Indices: 7610423--7610665 Score: 362
Period size: 123 Copynumber: 2.0 Consensus size: 122
7610413 ATTGCAAGGA
* * * * * * *
7610423 GGATTATATCCTCTTAGCATAGGATTATTCAATCCTATTCAAGTGAAGAGGATTATTTTTAATTT
1 GGATTATATCCTCATAGCATAGAATTATTCAATCCTATCCAAGGGAAAAAGATTATTTTTAATCT
* *
7610488 AT-TAGATTAAATTTACATGTTTAATTATACCCTTAAAAATTATATTAATAATTTATG
66 ATATA-ATTAAATTTACATGTTCAATTATACCCTTAAAAATTATATCAATAATTTATG
*
7610545 GGATTAATATCCTCATAGCATAGAATTATTTAATCCTATCCAAGGGAAAAAGATTATTTTTAATC
1 GGATT-ATATCCTCATAGCATAGAATTATTCAATCCTATCCAAGGGAAAAAGATTATTTTTAATC
*
7610610 TATATAATTAAATTTACATGTTCAATTATACCTTTAAAAATTATATCAATAATTTA
65 TATATAATTAAATTTACATGTTCAATTATACCCTTAAAAATTATATCAATAATTTA
7610666 AATTATATAA
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 5 0.05
123 101 0.94
124 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (122 bp):
GGATTATATCCTCATAGCATAGAATTATTCAATCCTATCCAAGGGAAAAAGATTATTTTTAATCT
ATATAATTAAATTTACATGTTCAATTATACCCTTAAAAATTATATCAATAATTTATG
Found at i:7617502 original size:15 final size:15
Alignment explanation
Indices: 7617479--7617509 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7617469 AATATATATG
7617479 CCTAAATACTTTATT
1 CCTAAATACTTTATT
*
7617494 CCTAGATACTTTATT
1 CCTAAATACTTTATT
7617509 C
1 C
7617510 TATGGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (15 bp):
CCTAAATACTTTATT
Found at i:7618962 original size:15 final size:15
Alignment explanation
Indices: 7618942--7618971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7618932 ATAACTAAAG
*
7618942 AAAAAATGGATAGAT
1 AAAAAATAGATAGAT
7618957 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
7618972 GAGAGATAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:7626958 original size:75 final size:74
Alignment explanation
Indices: 7626866--7627003 Score: 179
Period size: 75 Copynumber: 1.9 Consensus size: 74
7626856 AACTGATTGG
* * * * *
7626866 ACCATGCATCTGCATTATTTGGTGAATAT-TGAAACCATTGCTTTGAATATTACATTTGTATCAT
1 ACCATACATCTGCATTATTTGGTAAATATCT-AAACCATT-ATTTAAATATTACATTTGCATCAT
7626930 TGTTTGTTTGT
64 TGTTTGTTTGT
* * *
7626941 ACCATACATCTGTATTATTTGGTAAATATCTAAATCATTATTTAAATATTGCATTTGCATCAT
1 ACCATACATCTGCATTATTTGGTAAATATCTAAACCATTATTTAAATATTACATTTGCATCAT
7627004 GGTTGGGGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
74 20 0.37
75 33 0.61
76 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (74 bp):
ACCATACATCTGCATTATTTGGTAAATATCTAAACCATTATTTAAATATTACATTTGCATCATTG
TTTGTTTGT
Found at i:7627430 original size:22 final size:22
Alignment explanation
Indices: 7627367--7627521 Score: 131
Period size: 22 Copynumber: 7.1 Consensus size: 22
7627357 GAAAAAGAAC
7627367 CTTTGAAACTTTGTAA-GTGAAT
1 CTTTGAAACTTTG-AATGTGAAT
* * *
7627389 CTCT--AATTTTCGAATATGAAT
1 CTTTGAAACTTT-GAATGTGAAT
7627410 CTTTGAAACTTTGAATGTGAAT
1 CTTTGAAACTTTGAATGTGAAT
* **
7627432 CTCT-AATTTTTCGAATGTGAAT
1 CTTTGAAACTTT-GAATGTGAAT
* *
7627454 ATTTGAAACTTTAAATGTGAAT
1 CTTTGAAACTTTGAATGTGAAT
** *
7627476 CTTT-AAGTTTTTGAATGTGAGT
1 CTTTGAA-ACTTTGAATGTGAAT
*
7627498 CTTTGAAACTTTGGATGTGAAT
1 CTTTGAAACTTTGAATGTGAAT
7627520 CT
1 CT
7627522 CTAAAAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
20 7 0.07
21 16 0.16
22 67 0.66
23 12 0.12
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (22 bp):
CTTTGAAACTTTGAATGTGAAT
Found at i:7627459 original size:44 final size:44
Alignment explanation
Indices: 7627367--7627597 Score: 238
Period size: 44 Copynumber: 5.2 Consensus size: 44
7627357 GAAAAAGAAC
*
7627367 CTTTGAAACTTTGTAA-GTGAATCTCTAA-TTTTCGAATATGAAT
1 CTTTGAAACTTTG-AATGTGAATCTCTAATTTTTCGAATGTGAAT
7627410 CTTTGAAACTTTGAATGTGAATCTCTAATTTTTCGAATGTGAAT
1 CTTTGAAACTTTGAATGTGAATCTCTAATTTTTCGAATGTGAAT
* * * *
7627454 ATTTGAAACTTTAAATGTGAATCTTTAAGTTTTT-GAATGTGAGT
1 CTTTGAAACTTTGAATGTGAATCTCTAA-TTTTTCGAATGTGAAT
* * * *
7627498 CTTTGAAACTTTGGATGTGAATCTCTAAAAATTTTCAAAAGTGAAT
1 CTTTGAAACTTTGAATGTGAATCTCT--AATTTTTCGAATGTGAAT
* * * *
7627544 CTTTGAAA-TTTTAGATG-GAAATTCCTATAATTTTTTGAATGTAAAT
1 CTTTGAAACTTTGA-ATGTG-AA-T-CTCTAATTTTTCGAATGTGAAT
7627590 CTTTGAAA
1 CTTTGAAA
7627598 TTTTTTAGAT
Statistics
Matches: 157, Mismatches: 21, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
42 2 0.01
43 25 0.16
44 70 0.45
45 13 0.08
46 43 0.27
47 1 0.01
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (44 bp):
CTTTGAAACTTTGAATGTGAATCTCTAATTTTTCGAATGTGAAT
Found at i:7627704 original size:36 final size:36
Alignment explanation
Indices: 7627664--7627733 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
7627654 TGAATTTTTA
*
7627664 AAATTTTCGATCTGAAT-GTCAAAATTTTTTGAATAT
1 AAATTTTCGATCTGAATCCT-AAAATTTTTTGAATAT
* * *
7627700 AAATTTTGGATGTGAATCCTTAAATTTTTTGAAT
1 AAATTTTCGATCTGAATCCTAAAATTTTTTGAAT
7627734 GAAAATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (36 bp):
AAATTTTCGATCTGAATCCTAAAATTTTTTGAATAT
Found at i:7627724 original size:21 final size:22
Alignment explanation
Indices: 7627699--7627778 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 22
7627689 TTTTTGAATA
7627699 TAAA-TTTTGGATGTGAATCCT
1 TAAATTTTTGGATGTGAATCCT
* **
7627720 TAAATTTTTTGAATGAAAAT-CT
1 TAAA-TTTTTGGATGTGAATCCT
* * *
7627742 TTAACTTTTGGACGTGAATCTCT
1 TAAATTTTTGGATGTGAATC-CT
*
7627765 AAAATTTTTGGATG
1 TAAATTTTTGGATG
7627779 GGAGTATTTG
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
21 14 0.33
22 5 0.12
23 23 0.55
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (22 bp):
TAAATTTTTGGATGTGAATCCT
Found at i:7627960 original size:17 final size:17
Alignment explanation
Indices: 7627919--7627978 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
7627909 ACAATGATGA
*
7627919 AAATTCTTATGAAAC-AG
1 AAATTCTTAT-AAACTTG
*
7627936 AAACTCTTATAAACTTG
1 AAATTCTTATAAACTTG
* * *
7627953 AAGTTCTTGTAAATTTG
1 AAATTCTTATAAACTTG
7627970 AAATTCTTA
1 AAATTCTTA
7627979 CGAACCTGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 4 0.12
17 30 0.88
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (17 bp):
AAATTCTTATAAACTTG
Found at i:7627993 original size:51 final size:51
Alignment explanation
Indices: 7627919--7628033 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 51
7627909 ACAATGATGA
* * **
7627919 AAATTCTTATGAAACAGAAACTCTTATAAACTTGAAGTTCTTGTAAATTTG
1 AAATTCTTACGAAACAGAAACTCTTATAAACTTGAACTTCTTGTAAACCTG
* * * * * *
7627970 AAATTCTTACGAACCTGAAACTCTTATGAATTTTAACTTCTTGTGAACCTG
1 AAATTCTTACGAAACAGAAACTCTTATAAACTTGAACTTCTTGTAAACCTG
*
7628021 AAGTTCTTACGAA
1 AAATTCTTACGAA
7628034 TTTGAAGTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (51 bp):
AAATTCTTACGAAACAGAAACTCTTATAAACTTGAACTTCTTGTAAACCTG
Found at i:7628039 original size:17 final size:17
Alignment explanation
Indices: 7627940--7628053 Score: 66
Period size: 17 Copynumber: 6.7 Consensus size: 17
7627930 AAACAGAAAC
* *
7627940 TCTTATAAACTTGAAGT
1 TCTTATGAATTTGAAGT
* * *
7627957 TCTTGTAAATTTGAAAT
1 TCTTATGAATTTGAAGT
* ** **
7627974 TCTTACGAACCTGAAAC
1 TCTTATGAATTTGAAGT
* *
7627991 TCTTATGAATTTTAACT
1 TCTTATGAATTTGAAGT
* **
7628008 TCTTGTGAACCTGAAGT
1 TCTTATGAATTTGAAGT
*
7628025 TCTTACGAATTTGAAGT
1 TCTTATGAATTTGAAGT
* *
7628042 TTTTGTGAATTT
1 TCTTATGAATTT
7628054 AAAAATCTTG
Statistics
Matches: 70, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 70 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (17 bp):
TCTTATGAATTTGAAGT
Found at i:7628048 original size:34 final size:34
Alignment explanation
Indices: 7627964--7628050 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 34
7627954 AGTTCTTGTA
* ** *
7627964 AATTTGAAATTCTTACGAACCTGAAACTCTTATG
1 AATTTGAACTTCTTGTGAACCTGAAACTCTTACG
* **
7627998 AATTTTAACTTCTTGTGAACCTGAAGTTCTTACG
1 AATTTGAACTTCTTGTGAACCTGAAACTCTTACG
* *
7628032 AATTTGAAGTTTTTGTGAA
1 AATTTGAACTTCTTGTGAA
7628051 TTTAAAAATC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (34 bp):
AATTTGAACTTCTTGTGAACCTGAAACTCTTACG
Found at i:7628183 original size:17 final size:17
Alignment explanation
Indices: 7628144--7628176 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7628134 TATCTAAAAA
7628144 TCTTGTGAATATGAAGC
1 TCTTGTGAATATGAAGC
*
7628161 TCTTGTGAATTTGAAG
1 TCTTGTGAATATGAAG
7628177 TTTTTGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (17 bp):
TCTTGTGAATATGAAGC
Found at i:7628207 original size:17 final size:17
Alignment explanation
Indices: 7628185--7628288 Score: 57
Period size: 17 Copynumber: 6.2 Consensus size: 17
7628175 AGTTTTTGTA
*
7628185 AATCTTAAAATCTTATG
1 AATCTTAAAATCTTACG
** * *
7628202 AATCTTCTATTCTTGCG
1 AATCTTAAAATCTTACG
* * *
7628219 AATCTGAAAGTCTTATG
1 AATCTTAAAATCTTACG
* * *
7628236 ACTTTTGAAATCTTACG
1 AATCTTAAAATCTTACG
* * *
7628253 AAT-TTGAATTCTTATG
1 AATCTTAAAATCTTACG
* *
7628269 AATATGAAAATCTTACG
1 AATCTTAAAATCTTACG
7628286 AAT
1 AAT
7628289 ATGAAATTCT
Statistics
Matches: 62, Mismatches: 24, Indels: 2
0.70 0.27 0.02
Matches are distributed among these distances:
16 14 0.23
17 48 0.77
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (17 bp):
AATCTTAAAATCTTACG
Found at i:7628260 original size:16 final size:16
Alignment explanation
Indices: 7628241--7628300 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
7628231 TTATGACTTT
*
7628241 TGAAATCTTACGAATT
1 TGAAATCTTACGAATA
* *
7628257 TGAATTCTTATGAATA
1 TGAAATCTTACGAATA
7628273 TGAAAATCTTACGAATA
1 TG-AAATCTTACGAATA
7628290 TGAAATTCTTA
1 TGAAA-TCTTA
7628301 TAAATTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.49
17 19 0.51
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (16 bp):
TGAAATCTTACGAATA
Found at i:7628531 original size:23 final size:22
Alignment explanation
Indices: 7628505--7628550 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
7628495 AAGTTTTGTG
7628505 ATGAACCTTT-GAATTTCCAAATT
1 ATGAACCTTTAG-ATTT-CAAATT
*
7628528 ATGAATCTTTAGATTTCAAATT
1 ATGAACCTTTAGATTTCAAATT
7628550 A
1 A
7628551 AAATTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 13 0.62
24 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (22 bp):
ATGAACCTTTAGATTTCAAATT
Found at i:7633839 original size:17 final size:17
Alignment explanation
Indices: 7633809--7633841 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7633799 TTTTATAATA
7633809 AAATATAATAAAATTAT
1 AAATATAATAAAATTAT
7633826 AAAT-TAATATAAATTA
1 AAATATAATA-AAATTA
7633842 ATTTTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATAAAATTAT
Found at i:7639432 original size:23 final size:22
Alignment explanation
Indices: 7639390--7639432 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
7639380 AAATATAATT
*
7639390 AAATATATTAAAAATTGTATCA
1 AAATATATTAAAAATAGTATCA
7639412 AAATA-ATATAAAAATAAGTAT
1 AAATATAT-TAAAAAT-AGTAT
7639433 AAATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.11
22 12 0.67
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
AAATATATTAAAAATAGTATCA
Found at i:7641870 original size:22 final size:22
Alignment explanation
Indices: 7641822--7641870 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7641812 AGAAAAAAAA
* * *
7641822 ATTTTTATTGGCTTTTAATGTG
1 ATTTTAATTGGCTTTAAATATG
*
7641844 TTTTTAATTGGCTTTAAATATG
1 ATTTTAATTGGCTTTAAATATG
7641866 ATTTT
1 ATTTT
7641871 CCAAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.14, T:0.59
Consensus pattern (22 bp):
ATTTTAATTGGCTTTAAATATG
Found at i:7642688 original size:31 final size:31
Alignment explanation
Indices: 7642594--7642688 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 31
7642584 AAAATTTTCG
* *
7642594 CTTAATATTTTGAAATGATATGAAGTTTTTTA
1 CTTAAT-TTTTAAAATGATATGAAATTTTTTA
* * **
7642626 TTTAATTTTTTAAATAGATA-GAAGAAATTTTA
1 CTTAATTTTTAAAAT-GATATGAA-ATTTTTTA
7642658 CTTAATTTTTAAAATGATATGAAATTTTTTA
1 CTTAATTTTTAAAATGATATGAAATTTTTTA
7642689 AAAGATTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
31 21 0.41
32 30 0.59
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.49
Consensus pattern (31 bp):
CTTAATTTTTAAAATGATATGAAATTTTTTA
Found at i:7642705 original size:19 final size:20
Alignment explanation
Indices: 7642661--7642708 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7642651 AATTTTACTT
7642661 AATTTTTAAAATGATATGAA
1 AATTTTTAAAATGATATGAA
* * *
7642681 ATTTTTTAAAA-GATTTTAA
1 AATTTTTAAAATGATATGAA
7642700 AATTTTTAA
1 AATTTTTAA
7642709 CTTAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (20 bp):
AATTTTTAAAATGATATGAA
Found at i:7642804 original size:20 final size:20
Alignment explanation
Indices: 7642745--7642804 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
7642735 TGTTTCTTAG
*
7642745 AAAATTATTTT-ATTTATAA
1 AAAATTATTTTAAATTATAA
** * **
7642764 ATCATATATATTAAAAAATAA
1 AAAAT-TATTTTAAATTATAA
7642785 AAAATTATTTTAAATTATAA
1 AAAATTATTTTAAATTATAA
7642805 TATTTTACAA
Statistics
Matches: 28, Mismatches: 11, Indels: 3
0.67 0.26 0.07
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTATTTTAAATTATAA
Found at i:7642970 original size:18 final size:18
Alignment explanation
Indices: 7642916--7642998 Score: 89
Period size: 18 Copynumber: 4.5 Consensus size: 18
7642906 AGAAGATATT
*
7642916 TAATATTTTTAATAAAAAA
1 TAATA-TTTTAATAGAAAA
*
7642935 TAGAT-TTCTTGGATAGAAAA
1 TA-ATATT-TT-AATAGAAAA
7642955 TAATATTTTAATAGAAAA
1 TAATATTTTAATAGAAAA
*
7642973 TAATATTATAATAGAAAA
1 TAATATTTTAATAGAAAA
7642991 T-ATATTTT
1 TAATATTTT
7642999 TTAAAAATGA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.11
18 28 0.51
19 8 0.15
20 13 0.24
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (18 bp):
TAATATTTTAATAGAAAA
Found at i:7643433 original size:13 final size:14
Alignment explanation
Indices: 7643415--7643443 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7643405 CTAACCTGAG
7643415 TAAAATA-TATAAT
1 TAAAATATTATAAT
7643428 TAAAATATTATAAT
1 TAAAATATTATAAT
7643442 TA
1 TA
7643444 TTTAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:7647767 original size:10 final size:10
Alignment explanation
Indices: 7647752--7647778 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7647742 TGAATCATAT
7647752 ATTTTTATTA
1 ATTTTTATTA
7647762 ATTTTTATTA
1 ATTTTTATTA
7647772 ATTTTTA
1 ATTTTTA
7647779 AATTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:7648722 original size:2 final size:2
Alignment explanation
Indices: 7648715--7648745 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7648705 ATAGCTTTAT
7648715 TA TA TA 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 TA TA TA T
7648746 GTAGAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7649042 original size:39 final size:39
Alignment explanation
Indices: 7648980--7649055 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
7648970 CGATGAATTG
*
7648980 TTTTTGGGTTAGCTGTCAAAGAAAATTGCTCTTTGAGAT
1 TTTTTGGGTTAGCTGTCAAAGAAAATTGCCCTTTGAGAT
* **
7649019 TTTTTGGGTTAGTTGTCCGAGAAAATTGCCCTTTGAG
1 TTTTTGGGTTAGCTGTCAAAGAAAATTGCCCTTTGAG
7649056 TCTTGACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (39 bp):
TTTTTGGGTTAGCTGTCAAAGAAAATTGCCCTTTGAGAT
Found at i:7649718 original size:3 final size:3
Alignment explanation
Indices: 7649710--7649743 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7649700 GATTTCAAGC
7649710 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7649744 CCTATGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7650429 original size:26 final size:29
Alignment explanation
Indices: 7650398--7650461 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
7650388 ATTTTATATA
7650398 TTATTAATGAG-T-TTA-ATGATATCA-C
1 TTATTAATGAGATATTATATGATATCATC
7650423 TTCATTAATGAGATACTTATATGATATCATC
1 TT-ATTAATGAGATA-TTATATGATATCATC
7650454 TTATTAAT
1 TTATTAAT
7650462 TAGTAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
25 2 0.06
26 9 0.27
27 1 0.03
29 3 0.09
30 15 0.45
31 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (29 bp):
TTATTAATGAGATATTATATGATATCATC
Found at i:7650432 original size:17 final size:16
Alignment explanation
Indices: 7650410--7650461 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
7650400 ATTAATGAGT
7650410 TTAATGATATCACTTCA
1 TTAATGATATCACTT-A
*
7650427 TTAATGAGAT-ACTTA
1 TTAATGATATCACTTA
7650442 -T-ATGATATCATCTTA
1 TTAATGATATCA-CTTA
7650457 TTAAT
1 TTAAT
7650462 TAGTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 5 0.17
16 5 0.17
17 11 0.38
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (16 bp):
TTAATGATATCACTTA
Found at i:7652784 original size:34 final size:34
Alignment explanation
Indices: 7652744--7652814 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
7652734 ATTTTATTAC
**
7652744 AAAATATTGTTAAATTTAGAGG-GATTTATAACAG
1 AAAATATTACTAAATTTAGAGGCG-TTTATAACAG
* *
7652778 AAAATATTACTAAATTTAGTGGCGTTTATAATAG
1 AAAATATTACTAAATTTAGAGGCGTTTATAACAG
7652812 AAA
1 AAA
7652815 GTGCCGCTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.35
Consensus pattern (34 bp):
AAAATATTACTAAATTTAGAGGCGTTTATAACAG
Found at i:7652889 original size:16 final size:16
Alignment explanation
Indices: 7652868--7652899 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7652858 CGTCACTAAA
7652868 TTAAAAATTTTATTTT
1 TTAAAAATTTTATTTT
*
7652884 TTAAAAATTTTCTTTT
1 TTAAAAATTTTATTTT
7652900 AATATTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAAAAATTTTATTTT
Found at i:7653678 original size:34 final size:33
Alignment explanation
Indices: 7653640--7653704 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
7653630 AAATCAGATA
7653640 GAAAGTTTA-AGAATTTGACCCAATAAATCAAACT
1 GAAAGTTTAGAG-ATTTGACCCAA-AAATCAAACT
* *
7653674 GAAAGTTTAGAGATTTGATCCAAAATTCAAA
1 GAAAGTTTAGAGATTTGACCCAAAAATCAAA
7653705 AAAGCTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.25
34 19 0.68
35 2 0.07
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (33 bp):
GAAAGTTTAGAGATTTGACCCAAAAATCAAACT
Found at i:7654617 original size:60 final size:60
Alignment explanation
Indices: 7654460--7654619 Score: 160
Period size: 60 Copynumber: 2.7 Consensus size: 60
7654450 TTGAATGGGG
* * * * * * **
7654460 TTATTCAAGGTATTTCTAGTCAAAAATGTATAGAATAATCCCATTTGATTTTTTTTTAGA
1 TTATTCAAGGTGTTTTTAGTCAAAAATATCTTGAATAATCCCATTTAATTTTTTTGGAGA
* * * * * *
7654520 TTACTCAAGGCGTTTTTAGTTAAAAACACCTTTAATAATCCC-TTTCAATTTTTTTGGAGA
1 TTATTCAAGGTGTTTTTAGTCAAAAATATCTTGAATAATCCCATTT-AATTTTTTTGGAGA
* *
7654580 TTATTCAAGGTGTTTTTAGCCAAAGATATCTTGAATAATC
1 TTATTCAAGGTGTTTTTAGTCAAAAATATCTTGAATAATC
7654620 TTAAAAAAAA
Statistics
Matches: 77, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
59 3 0.04
60 74 0.96
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (60 bp):
TTATTCAAGGTGTTTTTAGTCAAAAATATCTTGAATAATCCCATTTAATTTTTTTGGAGA
Found at i:7654910 original size:61 final size:61
Alignment explanation
Indices: 7654827--7654961 Score: 177
Period size: 61 Copynumber: 2.2 Consensus size: 61
7654817 ATAGAGTTAG
* *
7654827 TCAAGGTGTTTTTGGCCAAAAACACCTTGAATAATTTCC-TTC-ATTTTTTATTGGAGATTAT
1 TCAAGGTGTTTTTGGCCAAAAACACATTGAATAA--TCCTTTCTAATTTTTATTGGAGATTAT
* *
7654888 TCAAGGTGTTTTTGG-TAGAAAACACATTGAATAATCCTTTCTAATTTTTATTGGGGATTAT
1 TCAAGGTGTTTTTGGCCA-AAAACACATTGAATAATCCTTTCTAATTTTTATTGGAGATTAT
*
7654949 TAAAGGTGTTTTT
1 TCAAGGTGTTTTT
7654962 TTATAAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
59 3 0.05
60 4 0.06
61 59 0.89
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (61 bp):
TCAAGGTGTTTTTGGCCAAAAACACATTGAATAATCCTTTCTAATTTTTATTGGAGATTAT
Found at i:7655283 original size:158 final size:158
Alignment explanation
Indices: 7654995--7655287 Score: 363
Period size: 158 Copynumber: 1.9 Consensus size: 158
7654985 AAAATGCATT
* *
7654995 GAATAATCTTTTACCAAAAATACTGGAGCAATTCAATCGGTTAGAACATAAAGCTATTAACCATA
1 GAATAATCTTTTACCAAAAACACTGGAGCAATTCAATCGATTAGAACATAAAGCTATTAACCATA
** * *
7655060 AGATCCTAAGTTCAATCCTTCACTCTAGTGTTTTGAAGGTTTTTTAAGGAGTGTAAAAATGTTTG
66 AGATCCTAAGTTCAATCCTTCACTCTAGCATTTTGAAGGTTTTTTAAGAAGTGCAAAAATGTTTG
7655125 TTAGCAACATTTACATTATAAACACTTC
131 TTAGCAACATTTACATTATAAACACTTC
* * * * * * ** * * *
7655153 GAATAATCTTTTGCTAAAAGCACTGGAGCAGTTTAGTCGATTAGAGTATATAGTTATTAATCATA
1 GAATAATCTTTTACCAAAAACACTGGAGCAATTCAATCGATTAGAACATAAAGCTATTAACCATA
* * * ** *
7655218 AGATTCTAGGTTCAATTCTTTTCTTTAGCATTTTG-AGAGTTTTTTAAGAAGTGCAAAAATGTTT
66 AGATCCTAAGTTCAATCCTTCACTCTAGCATTTTGAAG-GTTTTTTAAGAAGTGCAAAAATGTTT
7655282 GTTAGC
130 GTTAGC
7655288 GGCGTTTAGG
Statistics
Matches: 111, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
157 2 0.02
158 109 0.98
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (158 bp):
GAATAATCTTTTACCAAAAACACTGGAGCAATTCAATCGATTAGAACATAAAGCTATTAACCATA
AGATCCTAAGTTCAATCCTTCACTCTAGCATTTTGAAGGTTTTTTAAGAAGTGCAAAAATGTTTG
TTAGCAACATTTACATTATAAACACTTC
Found at i:7659031 original size:33 final size:33
Alignment explanation
Indices: 7658989--7659053 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
7658979 TTAGTGAAGA
7658989 AGGTTAGGGGAAAGGAAGAAAAGGTAGATTTGG
1 AGGTTAGGGGAAAGGAAGAAAAGGTAGATTTGG
7659022 AGGTTAGGGGAAAGGAAGAAAAGGTAGATTTG
1 AGGTTAGGGGAAAGGAAGAAAAGGTAGATTTG
7659054 CAGTCCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (33 bp):
AGGTTAGGGGAAAGGAAGAAAAGGTAGATTTGG
Found at i:7659671 original size:13 final size:14
Alignment explanation
Indices: 7659646--7659674 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7659636 AGATAAGGCT
7659646 AAAAATAATAATCA
1 AAAAATAATAATCA
7659660 AAAAATAA-AATCA
1 AAAAATAATAATCA
7659673 AA
1 AA
7659675 GGTTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATAATAATCA
Found at i:7662123 original size:14 final size:14
Alignment explanation
Indices: 7662089--7662126 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
7662079 ATAATATGTA
7662089 CATTTAATTTTCTT
1 CATTTAATTTTCTT
* *
7662103 -ATATAATTTTTTT
1 CATTTAATTTTCTT
7662116 CATTTAATTTT
1 CATTTAATTTT
7662127 ATAAAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
CATTTAATTTTCTT
Found at i:7669855 original size:125 final size:125
Alignment explanation
Indices: 7669631--7669867 Score: 411
Period size: 125 Copynumber: 1.9 Consensus size: 125
7669621 TTCATTGTCC
*
7669631 AACTACTATGTTGAATCCAAATAGATAACCAATGTCTCCAATTTACAACACCATATTAAAAAATA
1 AACTACTATGTTGAATCAAAATAGATAACCAATGTCTCCAATTTACAACACCATATTAAAAAATA
*
7669696 AAAGTTTCAATTCATTATGCTAGTTTAATATATTACTTTTACAAATGTAGCTTATTATCT
66 AAAGCTTCAATTCATTATGCTAGTTTAATATATTACTTTTACAAATGTAGCTTATTATCT
* *
7669756 AACTACTATGTTGAATCAAAATAGTTAACCAATGTCTTCAATTTACAACACCATATTAAAAAATA
1 AACTACTATGTTGAATCAAAATAGATAACCAATGTCTCCAATTTACAACACCATATTAAAAAATA
* * *
7669821 AAAGCTTCAATTCATTATTCTAGTTTAATGTATTACTTTTATAAATG
66 AAAGCTTCAATTCATTATGCTAGTTTAATATATTACTTTTACAAATG
7669868 CAACTTTTGT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 105 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (125 bp):
AACTACTATGTTGAATCAAAATAGATAACCAATGTCTCCAATTTACAACACCATATTAAAAAATA
AAAGCTTCAATTCATTATGCTAGTTTAATATATTACTTTTACAAATGTAGCTTATTATCT
Found at i:7672074 original size:20 final size:20
Alignment explanation
Indices: 7672042--7672083 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7672032 ATTGCACCTA
7672042 AAAATATTTTTATATATTATT
1 AAAATATTTTTATATATT-TT
7672063 AAAATA-TTTTATATATTTT
1 AAAATATTTTTATATATTTT
7672082 AA
1 AA
7672084 GAAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAATATTTTTATATATTTT
Found at i:7672088 original size:22 final size:22
Alignment explanation
Indices: 7672042--7672101 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
7672032 ATTGCACCTA
**
7672042 AAAATATTTT-TATATATTATT
1 AAAATATTTTATATATATTAAG
*
7672063 AAAATATTTTATATATTTTAAG
1 AAAATATTTTATATATATTAAG
*
7672085 AAAAAATTATTAT-TATA
1 AAAATATT-TTATATATA
7672102 AATAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 10 0.31
22 18 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATATTTTATATATATTAAG
Found at i:7672565 original size:11 final size:10
Alignment explanation
Indices: 7672541--7672583 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
7672531 TACATTTAAA
7672541 AATAT-TTTT
1 AATATATTTT
*
7672550 TATATATTATT
1 AATATATT-TT
7672561 AATATATTTT
1 AATATATTTT
7672571 -ATATATTTT
1 AATATATTTT
7672580 AATA
1 AATA
7672584 AAAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 13 0.45
10 7 0.24
11 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATATATTTT
Found at i:7672570 original size:22 final size:19
Alignment explanation
Indices: 7672541--7672583 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
7672531 TACATTTAAA
*
7672541 AATATTTTTTATATATTATT
1 AATATATTTTATATATT-TT
7672561 AATATATTTTATATATTTT
1 AATATATTTTATATATTTT
7672580 AATA
1 AATA
7672584 AAAAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATATTTTATATATTTT
Found at i:7672600 original size:16 final size:15
Alignment explanation
Indices: 7672574--7672614 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
7672564 ATATTTTATA
7672574 TATTTTAATAAAAAAT
1 TATTTT-ATAAAAAAT
*
7672590 TATTGTTATAAATAAT
1 TATT-TTATAAAAAAT
7672606 TATTTTATA
1 TATTTTATA
7672615 TGAGTATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTTTATAAAAAAT
Found at i:7672666 original size:253 final size:254
Alignment explanation
Indices: 7671943--7672926 Score: 1274
Period size: 253 Copynumber: 3.9 Consensus size: 254
7671933 ATAAATAACA
* * *
7671943 TTTTTCAATCAAAATTTTTTCTTATTATAGGTTACATGTTCTTATTATAACATTTTTTCTTATTA
1 TTTTTCAACCAATATTTTTTCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTA
*
7672008 TAAGTTTGAATTTTATTTTTATATATTGCACCTAAAAATA-TTTTTATATATTATTAAAATATTT
66 TAAGTTTGAATTTTATTTTTATATATTGCACCTAAAAATATTTTTTATATATTATTAATATATTT
*
7672072 TATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATATGAGTATTTGCTTCTTATAT
131 TATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATATGAGTATTTGCTTATTATAT
* * * * *** ** *
7672137 -TTACATGTTTTTA-TAGGCAA-AATATATAAAAACAAAATTCACAATTATAAAT-GACATTT
196 GTTACATGTTCTTATTA--CAACATTTTTTCTTATTATAATTCACAATTATAAATAG-CA-TT
*
7672196 TTTTTCAACCAAATATTTTTTCTTATTACATGTTACATGTTCTTATTATAACATTTTTTCTTATT
1 TTTTTCAACC-AATATTTTTTCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATT
* * *
7672261 ATAATTTTGAATTTTGTTTTTATATATTGCACCT-AAAA-ATCTTTT-TATA-TATT-AT-TA--
65 ATAAGTTTGAATTTTATTTTTATATATTGCACCTAAAAATATTTTTTATATATTATTAATATATT
** * *
7672318 --ATATATTTTAAGAAAATGTTATTATTACAAATAATTATTTTATGTGAGTATTTGCTTATTATA
130 TTATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATATGAGTATTTGCTTATTATA
* *
7672381 TGTTACATATTCTTATTATAACATTTTTTCTTATTATAATTCACAATTATAAATAGCATT
195 TGTTACATGTTCTTATTACAACATTTTTTCTTATTATAATTCACAATTATAAATAGCATT
* * * * *
7672441 TTTTTCAATC-GTATTTTTTCTTACTATACGTTACATGTTCTTATTATAACATTTTTTCTTAATA
1 TTTTTCAACCAATATTTTTTCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTA
* * * * * **
7672505 TAATTTTAAAATTTGTTTTTATATATTACATTTAAAAATATTTTTTATATATTATTAATATATTT
66 TAAGTTTGAATTTTATTTTTATATATTGCACCTAAAAATATTTTTTATATATTATTAATATATTT
* *
7672570 TATATATTTTAATAAAAAATTATTGTTATAAATAATTATTTTATATGAGTATTTGCTTATTATAT
131 TATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATATGAGTATTTGCTTATTATAT
* * *
7672635 GTTACATGTTCTTATTACAACATTTTTTCTTATTATAATTCACAATTATTATTAAC-TT
196 GTTACATGTTCTTATTACAACATTTTTTCTTATTATAATTCACAATTATAAATAGCATT
* *
7672693 CTTTTTCAACCAAATATTTTTTCTTATTATATATTACATGTTCTTATTACAACATTTTTTTTCTT
1 -TTTTTCAACC-AATATTTTTTCTTATTATATGTTACATGTTCTTATTATAACA--TTTTTTCTT
* * *
7672758 ATTATAAGTTTGAATTTTATTTGTATATATTGCACCTAAAAATCTTTTTTATATATTATTAATGT
62 ATTATAAGTTTGAATTTTATTTTTATATATTGCACCTAAAAATATTTTTTATATATTATTAATAT
* * *
7672823 ATTTTATAT-TTTT---TAAAAA-TATTATTATAAATAATTATTCTATGTGAGTATTTGCTTATT
127 ATTTTATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATATGAGTATTTGCTTATT
*
7672883 ATATGTTACATGTTCTTATTATAACATTTTTTCTTATTATAATT
192 ATATGTTACATGTTCTTATTACAACATTTTTTCTTATTATAATT
7672927 GTGAATTTTG
Statistics
Matches: 640, Mismatches: 70, Indels: 43
0.85 0.09 0.06
Matches are distributed among these distances:
243 77 0.12
244 4 0.01
245 78 0.12
246 40 0.06
247 7 0.01
248 2 0.00
249 4 0.01
250 1 0.00
251 4 0.01
252 88 0.14
253 140 0.22
254 83 0.13
255 36 0.06
256 4 0.01
257 72 0.11
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (254 bp):
TTTTTCAACCAATATTTTTTCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTA
TAAGTTTGAATTTTATTTTTATATATTGCACCTAAAAATATTTTTTATATATTATTAATATATTT
TATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATATGAGTATTTGCTTATTATAT
GTTACATGTTCTTATTACAACATTTTTTCTTATTATAATTCACAATTATAAATAGCATT
Found at i:7672966 original size:160 final size:164
Alignment explanation
Indices: 7672715--7673040 Score: 509
Period size: 160 Copynumber: 2.0 Consensus size: 164
7672705 AATATTTTTT
7672715 CTTATTATATATTACATGTTCTTATTACAACATTTTTTTTCTTATTATAAGTTTGAATTTTATTT
1 CTTATTATATATTACATGTTCTTATTACAACA-TTTTTTTCTTATTATAAGTTTGAATTTTATTT
* *
7672780 GTATATATTGCACCTAAAAATCTTTTTTATATATTATTAATGTATTTTATAT-TTTT-TAAAAA-
65 GTATATATTGCACCTAAAAATCTTTTTTATATATTATTAATATATTTTATATATTTTAAAAAAAT
7672842 TATTATTATAAATAATTATTCTATGTGAGTATTTG
130 TATTATTATAAATAATTATTCTATGTGAGTATTTG
* * *
7672877 CTTATTATATGTTACATGTTCTTATTATAACA-TTTTTTCTTATTATAA-TTGTGAATTTTGTTT
1 CTTATTATATATTACATGTTCTTATTACAACATTTTTTTCTTATTATAAGTT-TGAATTTTATTT
*
7672940 TTATATATTGCACCTAAAAATCTTTTTTATATATTATTAATATATTTTATATATTTTAAGAAAAA
65 GTATATATTGCACCTAAAAATCTTTTTTATATATTATTAATATATTTTATATATTTT-A-AAAAA
* *
7673005 ATTATTGTTATAAATAATTATTTTATGTGAGTATTT
128 ATTATTATTATAAATAATTATTCTATGTGAGTATTT
7673041 AAAGATATTG
Statistics
Matches: 150, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
159 2 0.01
160 77 0.51
161 4 0.03
162 30 0.20
164 5 0.03
165 32 0.21
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (164 bp):
CTTATTATATATTACATGTTCTTATTACAACATTTTTTTCTTATTATAAGTTTGAATTTTATTTG
TATATATTGCACCTAAAAATCTTTTTTATATATTATTAATATATTTTATATATTTTAAAAAAATT
ATTATTATAAATAATTATTCTATGTGAGTATTTG
Found at i:7672991 original size:9 final size:9
Alignment explanation
Indices: 7672964--7672997 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
7672954 TAAAAATCTT
7672964 TTTTATATA
1 TTTTATATA
7672973 TTATTAATATA
1 TT-TT-ATATA
7672984 TTTTATATA
1 TTTTATATA
7672993 TTTTA
1 TTTTA
7672998 AGAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:7678736 original size:29 final size:29
Alignment explanation
Indices: 7678665--7678729 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
7678655 ATGTATTCAT
7678665 AATTCAAATATCATATTAAAAATTTTTTA
1 AATTCAAATATCATATTAAAAATTTTTTA
* * *
7678694 AATTTAAATGTCATGTTAAAAATTTTTTA
1 AATTCAAATATCATATTAAAAATTTTTTA
7678723 AATTCAA
1 AATTCAA
7678730 TATTCATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (29 bp):
AATTCAAATATCATATTAAAAATTTTTTA
Found at i:7679642 original size:27 final size:27
Alignment explanation
Indices: 7679588--7679643 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
7679578 TTTGAACTTT
*
7679588 TTAAAATTTAAATTTTGATTATTCAAA
1 TTAAAATTTAAATTTTGATTACTCAAA
7679615 TTAAGAATTTAAAATTTT-ATTACT-AAA
1 TTAA-AATTT-AAATTTTGATTACTCAAA
7679642 TT
1 TT
7679644 TATGATTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 9 0.35
28 10 0.38
29 7 0.27
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (27 bp):
TTAAAATTTAAATTTTGATTACTCAAA
Found at i:7681786 original size:10 final size:10
Alignment explanation
Indices: 7681771--7681800 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7681761 CTTTTTTTGG
7681771 ACATATATAT
1 ACATATATAT
7681781 ACATATATAT
1 ACATATATAT
*
7681791 ATATATATAT
1 ACATATATAT
7681801 GATTGCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ACATATATAT
Found at i:7686162 original size:2 final size:2
Alignment explanation
Indices: 7686157--7686183 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7686147 CTGATGTCTT
7686157 TA 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 TA T
7686184 GAGAAGGGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7686394 original size:2 final size:2
Alignment explanation
Indices: 7686387--7686415 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7686377 ATCCCTTATC
7686387 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7686416 AAAATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7687712 original size:154 final size:154
Alignment explanation
Indices: 7687554--7687852 Score: 415
Period size: 153 Copynumber: 1.9 Consensus size: 154
7687544 AAGAGAGAAA
*
7687554 AGCTGGGTTTTAAATGA-TTGTAATTCCAGATTCTATTGAAAAAGAGTTATC-TTTTTCTCCCTA
1 AGCTGGGTTTTAAATGACTTG-AATTCCAGATTCTATTG-AAAAGAGCTA-CATTTTTCTCCCTA
* * * * *
7687617 CAAATTTGTTTTTCAGATGAAAAAAAGAACCACTATTTTGAATGCCTTATAATTACAGTAAATGA
63 CAAATTTGGTTTTCACATGAAAAAAAGAACCACTATTTTGAATGCCCTATAATTACAATAAACGA
7687682 AAG-TAAAAAAAAAAAAAGATGTTAGG
128 AAGTTAAAAAAAAAAAAAGATGTTAGG
* * *
7687708 AGCTGGGTTTTAAATGACTTGAGTTCTAGCTTCTATTGAAAAGAGCTACATTTTTCTCCCTACAA
1 AGCTGGGTTTTAAATGACTTGAATTCCAGATTCTATTGAAAAGAGCTACATTTTTCTCCCTACAA
** * * * *
7687773 ATTTGGTTTTCACATGAAGGAAAGAAGCACTGTTTTGAATGCCCTGTAATTGCAATAAACGAAAG
66 ATTTGGTTTTCACATGAAAAAAAGAACCACTATTTTGAATGCCCTATAATTACAATAAACGAAAG
7687838 TTAAAAAAAAAAAAA
131 TTAAAAAAAAAAAAA
7687853 AGAGGTGATA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
152 1 0.01
153 78 0.61
154 45 0.35
155 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (154 bp):
AGCTGGGTTTTAAATGACTTGAATTCCAGATTCTATTGAAAAGAGCTACATTTTTCTCCCTACAA
ATTTGGTTTTCACATGAAAAAAAGAACCACTATTTTGAATGCCCTATAATTACAATAAACGAAAG
TTAAAAAAAAAAAAAGATGTTAGG
Found at i:7688768 original size:3 final size:3
Alignment explanation
Indices: 7688762--7688799 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
7688752 ATTATTATTA
* *
7688762 TGT TGT TAT TGT TGT TGT TGT TGT TGT TGT TAT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
7688800 ATGATGATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.29, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:7690535 original size:61 final size:61
Alignment explanation
Indices: 7690434--7690559 Score: 207
Period size: 61 Copynumber: 2.1 Consensus size: 61
7690424 CCAAGTAATC
* ** * *
7690434 TTTTTATATTTAAAAACTCGATTCTTAAATTCATATTTTATCATCATCTGCATATAACTCA
1 TTTTCATATTTAAAAACTAAATTCTTAAATTCAAAATTTATCATCATCTGCATATAACTCA
7690495 TTTTCATATTTAAAAACTAAATTCTTAAATTCAAAATTTATCATCATCTGCATATAACTCA
1 TTTTCATATTTAAAAACTAAATTCTTAAATTCAAAATTTATCATCATCTGCATATAACTCA
7690556 TTTT
1 TTTT
7690560 TTAGAATAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (61 bp):
TTTTCATATTTAAAAACTAAATTCTTAAATTCAAAATTTATCATCATCTGCATATAACTCA
Found at i:7691132 original size:18 final size:17
Alignment explanation
Indices: 7691094--7691131 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7691084 TTCATAAACC
7691094 AAAATTATCTTTTTAAT
1 AAAATTATCTTTTTAAT
*
7691111 AAAATTAT-TGTTTTATT
1 AAAATTATCT-TTTTAAT
7691128 AAAA
1 AAAA
7691132 AGATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
AAAATTATCTTTTTAAT
Found at i:7701423 original size:15 final size:15
Alignment explanation
Indices: 7701400--7701445 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
7701390 GCAAAAGCAA
7701400 AAAAGATAAAAAAAAT
1 AAAA-ATAAAAAAAAT
*
7701416 CAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
*
7701431 AAAAAGAAAAAAAAT
1 AAAAATAAAAAAAAT
7701446 TATTCAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 24 0.89
16 3 0.11
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:7701425 original size:24 final size:25
Alignment explanation
Indices: 7701383--7701435 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
7701373 ATTTTGCTTT
*
7701383 AAAAAAAGCAAAAGCAAAAAAGATA
1 AAAAAAAGCAAAAGCAAAAAAAATA
* *
7701408 AAAAAAATCAAAA-TAAAAAAAATA
1 AAAAAAAGCAAAAGCAAAAAAAATA
7701432 AAAA
1 AAAA
7701436 GAAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (25 bp):
AAAAAAAGCAAAAGCAAAAAAAATA
Found at i:7702560 original size:17 final size:17
Alignment explanation
Indices: 7702538--7702595 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
7702528 TTGCGACTTA
7702538 TTTTCAGTCATATTTAT
1 TTTTCAGTCATATTTAT
*
7702555 TTTTCAACTCATGATTTA-
1 TTTTC-AGTCAT-ATTTAT
* *
7702573 GTTTCAGTCATACTTAT
1 TTTTCAGTCATATTTAT
*
7702590 TCTTCA
1 TTTTCA
7702596 ATTTGTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 9 0.28
19 5 0.16
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (17 bp):
TTTTCAGTCATATTTAT
Found at i:7702747 original size:70 final size:70
Alignment explanation
Indices: 7702560--7702769 Score: 181
Period size: 70 Copynumber: 3.0 Consensus size: 70
7702550 TTTATTTTTC
* * * * *
7702560 AACTCATGATTTAGTTTCAGTCATACTTATTCTTCAATTTGTGATTCAATCTTAG-TCATTTTCA
1 AACTCATGATTCAGTATCAGTCATATTTATTCTTCGATTTGTGGTTCAATCTT-GTTCATTTTCA
*
7702624 TTTTTT
65 TTCTTT
* ** * * * * * * * * ** *
7702630 GACTTGTAATTCAGTATCGGTTAAATTTGTTATTTGACTTGCAGTTCAATCCTGTTCATATTT-A
1 AACTCATGATTCAGTATCAGTCATATTTATTCTTCGATTTGTGGTTCAATCTTGTTCAT-TTTCA
7702694 TTCTTT
65 TTCTTT
* * *
7702700 AACTCACGATTCAGTCTCAGTCATATTTATTCTTCGATTTGTGGTTCAATCTTGTTTATTTTCAT
1 AACTCATGATTCAGTATCAGTCATATTTATTCTTCGATTTGTGGTTCAATCTTGTTCATTTTCAT
7702765 TCTTT
66 TCTTT
7702770 GATCATGGTT
Statistics
Matches: 100, Mismatches: 37, Indels: 6
0.70 0.26 0.04
Matches are distributed among these distances:
69 4 0.04
70 93 0.93
71 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.50
Consensus pattern (70 bp):
AACTCATGATTCAGTATCAGTCATATTTATTCTTCGATTTGTGGTTCAATCTTGTTCATTTTCAT
TCTTT
Found at i:7704760 original size:158 final size:158
Alignment explanation
Indices: 7704469--7704776 Score: 476
Period size: 158 Copynumber: 1.9 Consensus size: 158
7704459 AGAGGAGCTA
*
7704469 GGTTTTAAATGACTTCAATTCTAGTTTTTATTAAAAAAGAGCTATATTTTTCTCCCTGCAAATTT
1 GGTTTTAAATGACTTCAATTCTAGTTTCTATTAAAAAAGAGCTATATTTTTCTCCCTGCAAATTT
* *
7704534 GTATTTCACATGAAAGAAAAAAGCATTGTTTTGAATGCCCTATAATTGTAGTAAACAAAAGTTAA
66 GTATTTCACATGAAAGAAAAAAGCAATGTTTTGAATGCCCTATAATTGCAGTAAACAAAAGTTAA
*
7704599 AAAAAAAAAAAAAAGGTGTCAAGAGTTG
131 AAAAAAAAAAAAAAAGTGTCAAGAGTTG
* *
7704627 GGTTTTAAATGACTTCAATTCTAGTTTCTGTTGAAAAAGAGCTATATTTTTCTCCCTGCAAATTT
1 GGTTTTAAATGACTTCAATTCTAGTTTCTATTAAAAAAGAGCTATATTTTTCTCCCTGCAAATTT
* * * * * *
7704692 -TTTATTCACATGAAGGAAAGAAGCAATGTTTTGAATGCCCTTTAATTGCAGTACACGAAAG-TA
66 GTAT-TTCACATGAAAGAAAAAAGCAATGTTTTGAATGCCCTATAATTGCAGTAAACAAAAGTTA
7704755 TAAAAAAAAAAAAAAAAGTGTC
130 -AAAAAAAAAAAAAAAAGTGTC
7704777 TCATCTCTCT
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
157 4 0.03
158 132 0.97
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (158 bp):
GGTTTTAAATGACTTCAATTCTAGTTTCTATTAAAAAAGAGCTATATTTTTCTCCCTGCAAATTT
GTATTTCACATGAAAGAAAAAAGCAATGTTTTGAATGCCCTATAATTGCAGTAAACAAAAGTTAA
AAAAAAAAAAAAAAAGTGTCAAGAGTTG
Found at i:7705671 original size:3 final size:3
Alignment explanation
Indices: 7705665--7705715 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7705655 ATTATTATTA
7705665 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
7705713 TTG
1 TTG
7705716 ATGTAATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:7706297 original size:3 final size:3
Alignment explanation
Indices: 7706284--7706336 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
7706274 AAATTTATGC
*
7706284 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7706332 ATA AT
1 ATA AT
7706337 GATGATGATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7711473 original size:37 final size:39
Alignment explanation
Indices: 7711394--7711475 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 39
7711384 CCTGTAATGA
* *
7711394 ATATCTTAATGTTTATTAAAAAATATATATTTAAACATG
1 ATATATTAATATTTATTAAAAAATATATATTTAAACATG
* *
7711433 ATATATTAATATTTA-TCAAAAA-ATATGTTTAAACATG
1 ATATATTAATATTTATTAAAAAATATATATTTAAACATG
7711470 ATATAT
1 ATATAT
7711476 GTTTGTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 20 0.51
38 6 0.15
39 13 0.33
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (39 bp):
ATATATTAATATTTATTAAAAAATATATATTTAAACATG
Found at i:7712893 original size:188 final size:188
Alignment explanation
Indices: 7712552--7712910 Score: 398
Period size: 188 Copynumber: 1.9 Consensus size: 188
7712542 AATAACTATT
* *
7712552 AATTATCCAATGATAGAATTTATAAAAATTTCAAATGGTAAATTTCTATAAAATTCTTAGGTGAG
1 AATTATCCAATGATAGAATTTATAAAAATTTCAAATGATAAATTTCTATAAAAATCTTAGGTGAG
* * * *
7712617 AAATTTTATCTAAATTTGTCCCAAATTGTGAAATAATTTATATAAAGTTTCAATAACAATAATTA
66 AAATTTTATCTAAATTTGTCCCAAATGGTGAAAGAATTTAGATAAAGTTTCAATAAAAATAATTA
7712682 ATATTTATTTTCAATCAAAAAAAATAA-AA-ATAAAAAATTTTGGTTGAAAATATTTGAC
131 ATATTTATTTTCAATCAAAAAAAA-AAGAAGA-AAAAAATTTTGGTTGAAAATATTTGAC
*
7712740 AATTATCCAATGAT-GAGATTCT-TAAAAATTTCAAATGATAAATTT-TTTAAGAAATCTCTAGG
1 AATTATCCAATGATAGA-ATT-TATAAAAATTTCAAATGATAAATTTCTATAA-AAATCT-TAGG
** * * * *
7712802 TGAGAAATTTCT-T-TAAATTTGTCTTATATGGTGGAAGAATTTAGATGGAA-TTTTAATAAAAA
62 TGAGAAATTT-TATCTAAATTTGTCCCAAATGGTGAAAGAATTTAGAT-AAAGTTTCAAT-AAAA
* **
7712864 ATAATTGTCATATTT-TTTT-TTTC-AAAAAAAAAGAAGAAAAAAATTTT
124 ATAA-T-TAATATTTATTTTCAATCAAAAAAAAAAGAAGAAAAAAATTTT
7712911 CTAAATTGAC
Statistics
Matches: 144, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
187 8 0.06
188 95 0.66
189 28 0.19
190 6 0.04
191 7 0.05
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (188 bp):
AATTATCCAATGATAGAATTTATAAAAATTTCAAATGATAAATTTCTATAAAAATCTTAGGTGAG
AAATTTTATCTAAATTTGTCCCAAATGGTGAAAGAATTTAGATAAAGTTTCAATAAAAATAATTA
ATATTTATTTTCAATCAAAAAAAAAAGAAGAAAAAAATTTTGGTTGAAAATATTTGAC
Found at i:7716536 original size:14 final size:14
Alignment explanation
Indices: 7716477--7716536 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 14
7716467 AAAATGTCTC
*
7716477 AAAAATAGA-AAAC
1 AAAAATAGAGAAAA
7716490 AAAAA-AGAG-AAA
1 AAAAATAGAGAAAA
*
7716502 AAAAATA-AAACAAA
1 AAAAATAGAGA-AAA
7716516 GAAAAATAGAGAAAA
1 -AAAAATAGAGAAAA
7716531 AAAAAT
1 AAAAAT
7716537 GAATGCCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
12 11 0.29
13 6 0.16
14 9 0.24
15 10 0.26
16 2 0.05
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAAATAGAGAAAA
Found at i:7718181 original size:21 final size:21
Alignment explanation
Indices: 7718150--7718236 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 21
7718140 AAATTGTGAA
7718150 TCTTCAAATGAGAATCTTTGAG
1 TCTT-AAATGAGAATCTTTGAG
* *
7718172 TCATAAATGAGAATCTTTAAGAAA
1 TCTTAAATGAGAATCTTT--G-AG
* *
7718196 TTTTCAAATGAGAATCTTTCAG
1 TCTT-AAATGAGAATCTTTGAG
7718218 TCTTAAATGAGAAATCTTT
1 TCTTAAATGAG-AATCTTT
7718237 AAGAAGAACT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 21 0.40
22 14 0.26
23 1 0.02
24 3 0.06
25 14 0.26
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (21 bp):
TCTTAAATGAGAATCTTTGAG
Found at i:7718206 original size:46 final size:47
Alignment explanation
Indices: 7718152--7718264 Score: 158
Period size: 46 Copynumber: 2.4 Consensus size: 47
7718142 ATTGTGAATC
*
7718152 TTCAAATGAGAATCTTTGAGTCATAAATGAG-AATCTTTAAGAA-ATT
1 TTCAAATGAGAATCTTTGAGTCATAAATGAGAAATCTTTAAGAAGA-A
* *
7718198 TTCAAATGAGAATCTTTCAGTCTTAAATGAGAAATCTTTAAGAAGAA
1 TTCAAATGAGAATCTTTGAGTCATAAATGAGAAATCTTTAAGAAGAA
* *
7718245 CTCAAATGAGAACCTTTGAG
1 TTCAAATGAGAATCTTTGAG
7718265 ATTCTAGATG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 29 0.49
47 29 0.49
48 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (47 bp):
TTCAAATGAGAATCTTTGAGTCATAAATGAGAAATCTTTAAGAAGAA
Found at i:7718742 original size:41 final size:40
Alignment explanation
Indices: 7718685--7718822 Score: 195
Period size: 41 Copynumber: 3.4 Consensus size: 40
7718675 CAATGAGTAA
* *
7718685 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAT
1 TTTATTTTTCAAAGTTGTGATGCTTCTGTTTAGAGGAGC-T
*
7718726 TTTATTTTTCAAAGTTGTGATGCTTCTGTTTAAAGGAGCCT
1 TTTATTTTTCAAAGTTGTGATGCTTCTGTTTAGAGGAG-CT
* *
7718767 TTTATTTTTCAAAGTTGTTATGCTTCTATTTAGAGGAAGCT
1 TTTATTTTTCAAAGTTGTGATGCTTCTGTTTAGAGG-AGCT
*
7718808 TTTATTTTTAAAAGT
1 TTTATTTTTCAAAGT
7718823 CGTTAAGCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 85 0.97
42 3 0.03
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (40 bp):
TTTATTTTTCAAAGTTGTGATGCTTCTGTTTAGAGGAGCT
Found at i:7719947 original size:63 final size:63
Alignment explanation
Indices: 7719880--7720011 Score: 149
Period size: 63 Copynumber: 2.1 Consensus size: 63
7719870 TCTTTCCAAA
* *
7719880 AAAAAAGAAGAAAAAAGAAAAATAATTTTTAAAT-TGATCCAAATGATGAAAAATTTAGAAATT
1 AAAAAAGAAGAAAAAAGAAAAATAATTTTTAAATAAG-CCCAAATGATGAAAAATTTAGAAATT
** * * * * * * *
7719943 AAAAATTAATAATAAATAAAGATAGTTTTTAAATAAGCCCAAATGGTGAAGAATTTAGAAATT
1 AAAAAAGAAGAAAAAAGAAAAATAATTTTTAAATAAGCCCAAATGATGAAAAATTTAGAAATT
7720006 AAAAAA
1 AAAAAA
7720012 AATATTTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 55 0.98
64 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.27
Consensus pattern (63 bp):
AAAAAAGAAGAAAAAAGAAAAATAATTTTTAAATAAGCCCAAATGATGAAAAATTTAGAAATT
Found at i:7723450 original size:72 final size:72
Alignment explanation
Indices: 7723191--7723494 Score: 202
Period size: 72 Copynumber: 4.2 Consensus size: 72
7723181 GATAGTATTT
* * * * * * * * * *
7723191 TTTTTATCTTTAAAATGTCATATTTATTGAATTTTGAAAATTAATTTTTTTTCATATTCTCAATA
1 TTTTTATCTTAAAAATATTATCTTTGTTGAATTTTAAAAAATAA-ATTTTTT-ATATTTTCAACA
*
7723256 AATATCACA
64 AAAATCACA
* * ** *
7723265 TTTTTTATCGT-AAAATATTATCTTTGTTGAATTTTAAAAAATAAAGTTTCCATATTTTTAACAA
1 -TTTTTATCTTAAAAATATTATCTTTGTTGAATTTTAAAAAATAAATTTTTTATATTTTCAACAA
* *
7723329 AAATTACGT
65 AAATCAC-A
* * ** * * * * *
7723338 TTTTTATTTTAGAAACGTTATTTTTTTTTAATTTTGAAAAAT-ACTTTTTTATATTTTCAACAAA
1 TTTTTATCTTAAAAATATTATCTTTGTTGAATTTTAAAAAATAAATTTTTTATATTTTCAACAAA
*
7723402 GATCACA
66 AATCACA
* * ** * *
7723409 TTTTTATCTTAAAAATATTGTCTTTGTTGAATTCTAAAAAA-AAA-AATTCATATTTTTAACAAA
1 TTTTTATCTTAAAAATATTATCTTTGTTGAATTTTAAAAAATAAATTTTTTATATTTTCAACAAA
* **
7723472 AATTATG
66 AATCACA
7723479 TTTTTAATCTTAAAAA
1 TTTTT-ATCTTAAAAA
7723495 GCAAAATATA
Statistics
Matches: 172, Mismatches: 53, Indels: 12
0.73 0.22 0.05
Matches are distributed among these distances:
70 23 0.13
71 42 0.24
72 44 0.26
73 27 0.16
74 27 0.16
75 9 0.05
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (72 bp):
TTTTTATCTTAAAAATATTATCTTTGTTGAATTTTAAAAAATAAATTTTTTATATTTTCAACAAA
AATCACA
Found at i:7723482 original size:18 final size:19
Alignment explanation
Indices: 7723450--7723485 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7723440 TTCTAAAAAA
7723450 AAAAATTCATATTTTTAAC
1 AAAAATTCATATTTTTAAC
*
7723469 AAAAATT-ATGTTTTTAA
1 AAAAATTCATATTTTTAA
7723486 TCTTAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAAATTCATATTTTTAAC
Found at i:7725747 original size:47 final size:46
Alignment explanation
Indices: 7725623--7725848 Score: 170
Period size: 47 Copynumber: 4.7 Consensus size: 46
7725613 ACAAAATAAG
* * *
7725623 ATTTTTAAAGTTTCAAAACCTCTATTTAT-AAGGAACTTTTTCATATAAAA
1 ATTTTTAAAGTTTCAAAACTTCTATTTATGAA--AAGTTTTT--T-GAAAA
* * *
7725673 ATTTTT-AAGTTTCAAAACTTTTGTTTATGACAAGTTTTTTGGATAAA
1 ATTTTTAAAGTTTCAAAACTTCTATTTATGAAAAGTTTTTT-GA-AAA
*
7725720 ATTTTTAAAGTTTTAAAA-TTCTATTTATGAAAAGTTTTTTGAAAGA
1 ATTTTTAAAGTTTCAAAACTTCTATTTATGAAAAGTTTTTTGAAA-A
* * * *
7725766 TATTTTTAAAAGTTTCAAAACTTTTGTTTATGTAAAGTTTTATTTCAAATTA
1 -ATTTTT-AAAGTTTCAAAACTTCTATTTATGAAAAG-TTT-TTTGAAA--A
* * * *
7725818 AATTTTATAGTTTCAAAACTTTTGTTTATGA
1 ATTTTTAAAGTTTCAAAACTTCTATTTATGA
7725849 GGATTTTTTT
Statistics
Matches: 146, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.01
46 5 0.03
47 34 0.23
48 28 0.19
49 32 0.22
50 33 0.23
51 11 0.08
52 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (46 bp):
ATTTTTAAAGTTTCAAAACTTCTATTTATGAAAAGTTTTTTGAAAA
Found at i:7725759 original size:96 final size:95
Alignment explanation
Indices: 7725618--7725806 Score: 224
Period size: 96 Copynumber: 2.0 Consensus size: 95
7725608 TTGGCACAAA
*
7725618 ATAAGATTTTTAAAGTTTCAAAACCTCTATTTATAAGGAACTTTTTCATATAAAAATTTTT-AAG
1 ATAAAATTTTTAAAGTTTCAAAACCTCTATTTATAA-GAACTTTTTCA-A-AAAAATTTTTAAAG
7725682 TTTCAAAACTTTTGTTTATG-ACAAGTTTTTTGG
63 TTTCAAAACTTTTGTTTATGTA-AAGTTTTTTGG
* * * * * *
7725715 ATAAAATTTTTAAAGTTTTAAAA-TTCTATTTATGAA-AAGTTTTTTGAAAGATATTTTTAAAAG
1 ATAAAATTTTTAAAGTTTCAAAACCTCTATTTAT-AAGAA-CTTTTTCAAAAAAATTTTT-AAAG
7725778 TTTCAAAACTTTTGTTTATGTAAAGTTTT
63 TTTCAAAACTTTTGTTTATGTAAAGTTTT
7725807 ATTTCAAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
94 8 0.10
95 3 0.04
96 45 0.56
97 24 0.30
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (95 bp):
ATAAAATTTTTAAAGTTTCAAAACCTCTATTTATAAGAACTTTTTCAAAAAAATTTTTAAAGTTT
CAAAACTTTTGTTTATGTAAAGTTTTTTGG
Found at i:7727903 original size:20 final size:21
Alignment explanation
Indices: 7727878--7727924 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
7727868 ATTTGAAATT
7727878 AATAAAATATT-ATTTTTAAA
1 AATAAAATATTAATTTTTAAA
7727898 AATAAAATATTAAATTTTTAAA
1 AATAAAATATT-AATTTTTAAA
*
7727920 TATAA
1 AATAA
7727925 TTATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
22 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAAAATATTAATTTTTAAA
Found at i:7727957 original size:12 final size:12
Alignment explanation
Indices: 7727942--7727969 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7727932 ATTATATATA
7727942 TAAATAATTAAT
1 TAAATAATTAAT
7727954 TAAATAATTAAT
1 TAAATAATTAAT
7727966 TAAA
1 TAAA
7727970 AAATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAATAATTAAT
Done.