Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 35 of 133
Found at i:7864643 original size:31 final size:31
Alignment explanation
Indices: 7864589--7864669 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
7864579 ATGTTGAAAA
*
7864589 TTGGAAAATCTCATCT-AAAAATTCAAAGT-TGG
1 TTGGAAAAT-TCAT-TGAAAAATTCAAA-TATCG
7864621 TTGGAAAATTCATTGAAAAATTCAAATATCG
1 TTGGAAAATTCATTGAAAAATTCAAATATCG
* *
7864652 TTGAAAAATTCATCGAAA
1 TTGGAAAATTCATTGAAA
7864670 TCTAAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
30 2 0.05
31 33 0.75
32 9 0.20
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (31 bp):
TTGGAAAATTCATTGAAAAATTCAAATATCG
Found at i:7865411 original size:44 final size:43
Alignment explanation
Indices: 7865355--7865501 Score: 186
Period size: 44 Copynumber: 3.3 Consensus size: 43
7865345 ACAGTCCAAG
* * * *
7865355 ACTTTGATAAATAAACAAAACTCCTATAAATAGAGGCTCAATA
1 ACTTTGAAAAATAAACAAAGCTCTTATAAATAGAGGCTCAACA
* * *
7865398 ACTTTAGAAAAATAAACAAAGCTCTTTTAATTAGAGGCTCAACG
1 ACTTT-GAAAAATAAACAAAGCTCTTATAAATAGAGGCTCAACA
* *
7865442 ACTTTGAAAAAATAAACAAAGCTCTTCTAAACAGAGGCTCAACA
1 ACTTTG-AAAAATAAACAAAGCTCTTATAAATAGAGGCTCAACA
7865486 ACTTTTGAAAAATAAA
1 AC-TTTGAAAAATAAA
7865502 TGAGGCTCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
43 6 0.07
44 80 0.89
45 4 0.04
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (43 bp):
ACTTTGAAAAATAAACAAAGCTCTTATAAATAGAGGCTCAACA
Found at i:7865762 original size:16 final size:16
Alignment explanation
Indices: 7865736--7865776 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
7865726 AATGCAGTAT
7865736 ATGCTATGTGAAATGT-A
1 ATGC-ATGTGAAAT-TCA
7865753 ATGCATGTGAAATTCA
1 ATGCATGTGAAATTCA
7865769 ATGCATGT
1 ATGCATGT
7865777 TATGCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 18 0.78
17 4 0.17
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (16 bp):
ATGCATGTGAAATTCA
Found at i:7866518 original size:24 final size:24
Alignment explanation
Indices: 7866485--7866536 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7866475 TGAGTCCTCA
*
7866485 TTTT-TCATTTTTT-TCTTTTTTGT
1 TTTTCTCATTTTTTAT-TTTTTTCT
7866508 TTTTCTCATTTTTTATTTTTTTCT
1 TTTTCTCATTTTTTATTTTTTTCT
7866532 TTTTC
1 TTTTC
7866537 AAGCATAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 21 0.81
25 1 0.04
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTCTCATTTTTTATTTTTTTCT
Found at i:7868607 original size:8 final size:8
Alignment explanation
Indices: 7868594--7868618 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7868584 TTTTCTTTGC
7868594 TCTTTTTT
1 TCTTTTTT
7868602 TCTTTTTT
1 TCTTTTTT
7868610 TCTTTTTT
1 TCTTTTTT
7868618 T
1 T
7868619 ATCATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:7869675 original size:22 final size:22
Alignment explanation
Indices: 7869649--7869698 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7869639 CTTACCATTT
*
7869649 AAAAAACATA-TATTTCTTTTCG
1 AAAAAACATATTATTT-TTTTCC
* *
7869671 AAAAAGCTTATTATTTTTTTCC
1 AAAAAACATATTATTTTTTTCC
7869693 AAAAAA
1 AAAAAA
7869699 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAAAACATATTATTTTTTTCC
Found at i:7874567 original size:26 final size:26
Alignment explanation
Indices: 7874528--7874577 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7874518 AAAAAAATTA
*
7874528 AAATAAAAGGAATTAAATTAAATATC
1 AAATAAAAGCAATTAAATTAAATATC
*
7874554 AAATAAAATCAATTAAATTAAATA
1 AAATAAAAGCAATTAAATTAAATA
7874578 ATTATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATAAAAGCAATTAAATTAAATATC
Found at i:7875808 original size:8 final size:8
Alignment explanation
Indices: 7875769--7875843 Score: 50
Period size: 8 Copynumber: 9.5 Consensus size: 8
7875759 GGGTTTTGGC
7875769 TTTAAG-T
1 TTTAAGAT
7875776 TTT-AGAT
1 TTTAAGAT
7875783 TTT-AGAGT
1 TTTAAGA-T
*
7875791 TTTGAG-T
1 TTTAAGAT
7875798 TTTAAGAT
1 TTTAAGAT
*
7875806 TTTAAGGTT
1 TTTAA-GAT
*
7875815 TTTGAAGGT
1 TTT-AAGAT
*
7875824 TTTAAGGT
1 TTTAAGAT
*
7875832 TTGAAGAT
1 TTTAAGAT
7875840 TTTA
1 TTTA
7875844 TGGTTTGAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
6 2 0.04
7 16 0.29
8 24 0.43
9 12 0.21
10 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (8 bp):
TTTAAGAT
Found at i:7875834 original size:16 final size:16
Alignment explanation
Indices: 7875805--7875865 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
7875795 AGTTTTAAGA
7875805 TTTTAAGGTTTTTGAAGG
1 TTTTAAGG--TTTGAAGG
*
7875823 TTTTAAGGTTTGAAGA
1 TTTTAAGGTTTGAAGG
* *
7875839 TTTTATGGTTTGAGGG
1 TTTTAAGGTTTGAAGG
* *
7875855 ATTTAGGGTTT
1 TTTTAAGGTTT
7875866 TGGATTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
16 29 0.78
18 8 0.22
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (16 bp):
TTTTAAGGTTTGAAGG
Found at i:7875919 original size:21 final size:21
Alignment explanation
Indices: 7875856--7875921 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 21
7875846 GTTTGAGGGA
* *
7875856 TTTAGGGTTTTGGATTTTAGGG
1 TTTAGGG-TTTGAATTTTAAGG
* **
7875878 TTT--GGTTTAAAATTTGGAGG
1 TTTAGGGTTT-GAATTTTAAGG
7875898 TTTAGGGTTTGAATTTTAAGG
1 TTTAGGGTTTGAATTTTAAGG
7875919 TTT
1 TTT
7875922 GAAAGATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
19 3 0.09
20 11 0.33
21 11 0.33
22 8 0.24
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTGAATTTTAAGG
Found at i:7875953 original size:39 final size:39
Alignment explanation
Indices: 7875898--7875972 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
7875888 AATTTGGAGG
*
7875898 TTTAGGGTTTGAATTTTAAGGTTTGAAAGATTTTAGGGT
1 TTTAGGGCTTGAATTTTAAGGTTTGAAAGATTTTAGGGT
* * *
7875937 TTTAGGGCTTGGATTTTAGGGTTTGGAAGATTTTAG
1 TTTAGGGCTTGAATTTTAAGGTTTGAAAGATTTTAG
7875973 TGTTCAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (39 bp):
TTTAGGGCTTGAATTTTAAGGTTTGAAAGATTTTAGGGT
Found at i:7876087 original size:29 final size:29
Alignment explanation
Indices: 7876048--7876147 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 29
7876038 GGGGTTTCAA
* * *
7876048 GTTTTAATTTTAGGATTTGAAGGGTTAGG
1 GTTTTGATTTTAGGATTTGAAGGTTTACG
* * * *
7876077 GTTTCGATTTTAGGGTTTGGA-GTTTATG
1 GTTTTGATTTTAGGATTTGAAGGTTTACG
* **
7876105 GTTTTGATTTTAAGATTAAAAGGTTTACG
1 GTTTTGATTTTAGGATTTGAAGGTTTACG
7876134 GTTTTGATTTTAGG
1 GTTTTGATTTTAGG
7876148 GTCTGAGATT
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (29 bp):
GTTTTGATTTTAGGATTTGAAGGTTTACG
Found at i:7876091 original size:14 final size:14
Alignment explanation
Indices: 7876072--7876116 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
7876062 ATTTGAAGGG
7876072 TTAGGGTTTCGATT
1 TTAGGGTTTCGATT
* *
7876086 TTAGGGTTTGGAGT
1 TTAGGGTTTCGATT
* *
7876100 TTATGGTTTTGATT
1 TTAGGGTTTCGATT
7876114 TTA
1 TTA
7876117 AGATTAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTCGATT
Found at i:7876095 original size:57 final size:57
Alignment explanation
Indices: 7875997--7876149 Score: 155
Period size: 57 Copynumber: 2.7 Consensus size: 57
7875987 AAGGTTAAAC
* * ** *
7875997 TTTTAGGGTTTGAAAGGATTAGGGTTTCAATTTTAAAGTTTGGGGTTTCA-AGTTTTAA
1 TTTTAGGATTTG-AAGGATTAGGGTTTCGATTTTAGGGTTTGGAGTTT-ATAGTTTTAA
* * *
7876055 TTTTAGGATTTGAAGGGTTAGGGTTTCGATTTTAGGGTTTGGAGTTTATGGTTTTGA
1 TTTTAGGATTTGAAGGATTAGGGTTTCGATTTTAGGGTTTGGAGTTTATAGTTTTAA
* ** * * *
7876112 TTTTAAGATTAAAAGGTTTACGGTTTTGATTTTAGGGT
1 TTTTAGGATTTGAAGGATTAGGGTTTCGATTTTAGGGT
7876150 CTGAGATTTG
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
56 1 0.01
57 68 0.85
58 11 0.14
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (57 bp):
TTTTAGGATTTGAAGGATTAGGGTTTCGATTTTAGGGTTTGGAGTTTATAGTTTTAA
Found at i:7876212 original size:14 final size:14
Alignment explanation
Indices: 7876193--7876226 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7876183 ATTTAAAGCG
* *
7876193 TTTAGGGTTTTAGT
1 TTTAGGGTTTCAAT
7876207 TTTAGGGTTTCAAT
1 TTTAGGGTTTCAAT
7876221 TTTAGG
1 TTTAGG
7876227 ATTTAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTCAAT
Found at i:7876232 original size:65 final size:64
Alignment explanation
Indices: 7876106--7876233 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
7876096 GAGTTTATGG
*
7876106 TTTTGATTTTAAGATTAAAAGGTTTACGGTTTTGATTTTAGGGTCTGAGATTTGAGGTTTAGAA
1 TTTTGATTTTAAGATTAAAAGGTTTACGGTTTTGATTTTAGGGTCTCAGATTTGAGGTTTAGAA
* * * *
7876170 TTTTGATTTTAAGATTTAAAGCGTTTAGGGTTTT-AGTTTTAGGGTTTCA-ATTTTAGGATTTAG
1 TTTTGATTTTAAGATTAAAAG-GTTTACGGTTTTGA-TTTTAGGGTCTCAGATTTGAGG-TTTAG
7876233 A
63 A
7876234 GAAAACGCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
64 28 0.50
65 28 0.50
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.48
Consensus pattern (64 bp):
TTTTGATTTTAAGATTAAAAGGTTTACGGTTTTGATTTTAGGGTCTCAGATTTGAGGTTTAGAA
Found at i:7876553 original size:10 final size:11
Alignment explanation
Indices: 7876534--7876562 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
7876524 TTCTACTTTA
7876534 TTATTATTATT
1 TTATTATTATT
7876545 TTATT-TTATT
1 TTATTATTATT
7876555 TTATTATT
1 TTATTATT
7876563 TAAAGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTATT
Found at i:7876608 original size:3 final size:3
Alignment explanation
Indices: 7876600--7876645 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
7876590 ACCATTTTTC
*
7876600 ATT ATT ATT ATT ATT ATT ATT ATT ATTT AGTT ATT GTT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT
7876646 TATTTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7876732 original size:10 final size:10
Alignment explanation
Indices: 7876717--7876755 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
7876707 GATTTAGATT
7876717 TTATTTATTA
1 TTATTTATTA
*
7876727 TTATTTATTG
1 TTATTTATTA
*
7876737 TTATTTACTA
1 TTATTTATTA
7876747 TTA-TTATTA
1 TTATTTATTA
7876756 ACATATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (10 bp):
TTATTTATTA
Found at i:7881018 original size:56 final size:56
Alignment explanation
Indices: 7880910--7881018 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
7880900 CGGGTGTGTA
* * ** *
7880910 ATTTAGATTTTATTTGAATAAATAGTAAAATTAATTTTGATCTCAATGATTATATG
1 ATTTAGATTTTATTTAAATAAATAATAAAATTAATTTTGATCAAAATAATTATATG
*
7880966 ATTTAGATTTTATTTAAATAGATAATAAAATTAATTTTGA-CAAAATTAATTAT
1 ATTTAGATTTTATTTAAATAAATAATAAAATTAATTTTGATCAAAA-TAATTAT
7881019 TATAATAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 3 0.07
56 43 0.93
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (56 bp):
ATTTAGATTTTATTTAAATAAATAATAAAATTAATTTTGATCAAAATAATTATATG
Found at i:7881033 original size:21 final size:21
Alignment explanation
Indices: 7881007--7881057 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
7880997 TAATTTTGAC
*
7881007 AAAATTAATTATTATAATAGT
1 AAAATTAAATATTATAATAGT
*
7881028 AAAATTAAATATTGTAATAGT
1 AAAATTAAATATTATAATAGT
7881049 AAAATTAAA
1 AAAATTAAA
7881058 ATCAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
AAAATTAAATATTATAATAGT
Found at i:7881066 original size:21 final size:21
Alignment explanation
Indices: 7881007--7881067 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
7880997 TAATTTTGAC
* *
7881007 AAAATTAATTATTATAATAGT
1 AAAATTAAATATAATAATAGT
**
7881028 AAAATTAAATATTGTAATAGT
1 AAAATTAAATATAATAATAGT
7881049 AAAATTAAA-ATCAATAATA
1 AAAATTAAATAT-AATAATA
7881068 AAATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATTAAATATAATAATAGT
Found at i:7881606 original size:16 final size:16
Alignment explanation
Indices: 7881585--7881619 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7881575 GTATCTAAAA
7881585 ATTGTAA-TTATTTTAT
1 ATTGTAAGTT-TTTTAT
7881601 ATTGTAAGTTTTTTAT
1 ATTGTAAGTTTTTTAT
7881617 ATT
1 ATT
7881620 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (16 bp):
ATTGTAAGTTTTTTAT
Found at i:7887622 original size:14 final size:14
Alignment explanation
Indices: 7887603--7887647 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
7887593 AAGAATTTAC
*
7887603 TTAAATTTAAATGA
1 TTAAATTTAAATAA
*
7887617 TTAAA-TTAAAAAA
1 TTAAATTTAAATAA
7887630 TTAATATTTAAATAA
1 TTAA-ATTTAAATAA
7887645 TTA
1 TTA
7887648 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 10 0.38
14 6 0.23
15 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TTAAATTTAAATAA
Found at i:7887647 original size:28 final size:27
Alignment explanation
Indices: 7887603--7887658 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
7887593 AAGAATTTAC
*
7887603 TTAAATTTAAATGATTAAATTAAAAAA
1 TTAAATTTAAATAATTAAATTAAAAAA
**
7887630 TTAATATTTAAATAATTATTTTAAAAAA
1 TTAA-ATTTAAATAATTAAATTAAAAAA
7887658 T
1 T
7887659 AACTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
TTAAATTTAAATAATTAAATTAAAAAA
Found at i:7889027 original size:20 final size:20
Alignment explanation
Indices: 7888984--7889025 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
7888974 TTTAAAAAAT
*
7888984 AAATTTATTAATCTATTCAA
1 AAATTTATTAATCTATCCAA
*
7889004 AAATTTATT-TTCTATCCAA
1 AAATTTATTAATCTATCCAA
7889023 AAA
1 AAA
7889026 ATCTAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTATTAATCTATCCAA
Found at i:7889125 original size:16 final size:16
Alignment explanation
Indices: 7889104--7889138 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
7889094 TTTTATTTTT
7889104 TATTTTTTATAAAATA
1 TATTTTTTATAAAATA
7889120 TA--TTTTATAAAATA
1 TATTTTTTATAAAATA
7889134 TATTT
1 TATTT
7889139 AAAAACGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
14 14 0.82
16 3 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTTTATAAAATA
Found at i:7889143 original size:12 final size:14
Alignment explanation
Indices: 7889108--7889138 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7889098 ATTTTTTATT
7889108 TTTTATAAAATATA
1 TTTTATAAAATATA
7889122 TTTTATAAAATATA
1 TTTTATAAAATATA
7889136 TTT
1 TTT
7889139 AAAAACGAAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:7889925 original size:16 final size:17
Alignment explanation
Indices: 7889906--7889941 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7889896 TTATTTGTGG
*
7889906 ATTTAATTATTTAT-AA
1 ATTTAATCATTTATGAA
7889922 ATTTAATCATTTATGAA
1 ATTTAATCATTTATGAA
7889939 ATT
1 ATT
7889942 ATGATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAATCATTTATGAA
Found at i:7892050 original size:23 final size:21
Alignment explanation
Indices: 7892024--7892072 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
7892014 AATCGTAATT
*
7892024 TAAATTTTTATCTTTAACATAAA
1 TAAATTTTTAT-TTGAA-ATAAA
7892047 TAAATTTTTATTTGAAATAAA
1 TAAATTTTTATTTGAAATAAA
7892068 -AAATT
1 TAAATT
7892073 ATTTGAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 5 0.20
22 4 0.16
23 11 0.44
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATTTTTATTTGAAATAAA
Found at i:7892104 original size:29 final size:27
Alignment explanation
Indices: 7892061--7892132 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
7892051 TTTTTATTTG
* *
7892061 AAATAAAAAATTATTTGAATACAATTAA
1 AAATAAGAATTTATTTGAATACAA-TAA
*
7892089 AGAATAAGAATTTATTTGTATACAATAA
1 A-AATAAGAATTTATTTGAATACAATAA
7892117 AAATATAGAAATTTAT
1 AAATA-AG-AATTTAT
7892133 CTAAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 4 0.11
28 7 0.18
29 27 0.71
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.35
Consensus pattern (27 bp):
AAATAAGAATTTATTTGAATACAATAA
Found at i:7892506 original size:188 final size:188
Alignment explanation
Indices: 7892190--7892571 Score: 739
Period size: 188 Copynumber: 2.0 Consensus size: 188
7892180 AAAATGTATT
7892190 TTGATGATCTTTTAATCTCACTATATTAAAAAAAAAAAAAATCTTGAACCAGCCGGTTAACCAAG
1 TTGATGATCTTTTAATCTCACTATATTAAAAAAAAAAAAAATCTTGAACCAGCCGGTTAACCAAG
7892255 AAAAAGCTAAAGATTCCATTCAAAAACCAGAAAAATATCAGATAGCCCAAGAGAAAGTTGAGGAA
66 AAAAAGCTAAAGATTCCATTCAAAAACCAGAAAAATATCAGATAGCCCAAGAGAAAGTTGAGGAA
7892320 -TTTTTTTTTTTTCATGTATCTAACAACTATTTACAAGATCAAAACTATTTACAGGTG
131 TTTTTTTTTTTTTCATGTATCTAACAACTATTTACAAGATCAAAACTATTTACAGGTG
7892377 TTGATGATCTTTTAATCTCACTATATTAAAAAAAAAAAAAAATCTTGAACCAGCCGGTTAACCAA
1 TTGATGATCTTTTAATCTCACTATATT-AAAAAAAAAAAAAATCTTGAACCAGCCGGTTAACCAA
*
7892442 GAAAATGCTAAAGATTCCATTCAAAAACCAGAAAAATATCAGATAGCCCAAGAGAAAGTTGAGGA
65 GAAAAAGCTAAAGATTCCATTCAAAAACCAGAAAAATATCAGATAGCCCAAGAGAAAGTTGAGGA
7892507 ATTTTTTTTTTTTTCATGTATCTAACAACTATTTACAAGATCAAAACTATTTACAGGTG
130 ATTTTTTTTTTTTTCATGTATCTAACAACTATTTACAAGATCAAAACTATTTACAGGTG
7892566 TTGATG
1 TTGATG
7892572 TTTCTATGTA
Statistics
Matches: 192, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
187 27 0.14
188 102 0.53
189 63 0.33
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (188 bp):
TTGATGATCTTTTAATCTCACTATATTAAAAAAAAAAAAAATCTTGAACCAGCCGGTTAACCAAG
AAAAAGCTAAAGATTCCATTCAAAAACCAGAAAAATATCAGATAGCCCAAGAGAAAGTTGAGGAA
TTTTTTTTTTTTTCATGTATCTAACAACTATTTACAAGATCAAAACTATTTACAGGTG
Found at i:7901634 original size:16 final size:18
Alignment explanation
Indices: 7901613--7901650 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
7901603 ATATTTATTT
7901613 TATAAAAATT-A-AAAAA
1 TATAAAAATTAATAAAAA
7901629 TATAAAAATTAATAAAAA
1 TATAAAAATTAATAAAAA
7901647 TATA
1 TATA
7901651 CAATTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAAATTAATAAAAA
Found at i:7905342 original size:66 final size:67
Alignment explanation
Indices: 7905255--7905464 Score: 194
Period size: 66 Copynumber: 3.2 Consensus size: 67
7905245 ACCAAAATTG
* * * *
7905255 AAAATGAGTGACCA-TGATTGAACCGTAAGTC-ATAAAAATAAAATAACTTGGATCGAGTCAAGG
1 AAAATGAGTGACCAGAGATTGAACCGTAAGTCGA-AAAAATAAAATAACTTAGACCGAGCCAAGG
*
7905318 TTA
65 TAA
** * * * * *
7905321 GGAATGAGTGA-CAGGGATTGAACCATAGGTCGAAAAACTAAAATGACTTAGACCGAGCCAAGGT
1 AAAATGAGTGACCAGAGATTGAACCGTAAGTCGAAAAAATAAAATAACTTAGACCGAGCCAAGGT
7905385 AA
66 AA
* * * * * * * **
7905387 AAAATGAGTGATC-GAGATTGAACCGTAGGTTGAAAAACTAAAATGACCTGGACCGAGCCAAAAT
1 AAAATGAGTGACCAGAGATTGAACCGTAAGTCGAAAAAATAAAATAACTTAGACCGAGCCAAGGT
7905451 AA
66 AA
7905453 AAAATGAGTGAC
1 AAAATGAGTGAC
7905465 GGAGATTAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
65 2 0.02
66 116 0.97
67 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (67 bp):
AAAATGAGTGACCAGAGATTGAACCGTAAGTCGAAAAAATAAAATAACTTAGACCGAGCCAAGGT
AA
Found at i:7905406 original size:132 final size:132
Alignment explanation
Indices: 7905255--7905501 Score: 295
Period size: 132 Copynumber: 1.9 Consensus size: 132
7905245 ACCAAAATTG
* * * **
7905255 AAAATGAGTGACCATGATTGAACCGTAAGTCAT-AAAAA-TAAAATAACTTGGATCGAGTCAAGG
1 AAAATGAGTGACCATGATTGAACCGTAAGT--TGAAAAACTAAAATAACCTGGACCGAGCCAAAA
* ** * *
7905318 TTAGGAATGAGTGACAGG-GATTGAACCATAGGTCGAAAAACTAAAATGACTTAGACCGAGCCAA
64 TAAAAAATGAGTGAC-GGAGATTAAACCACAGGTCGAAAAACTAAAATGACTTAGACCGAGCCAA
7905382 GGTAA
128 GGTAA
* * *
7905387 AAAATGAGTGATCGA-GATTGAACCGTAGGTTGAAAAACTAAAATGACCTGGACCGAGCCAAAAT
1 AAAATGAGTGA-CCATGATTGAACCGTAAGTTGAAAAACTAAAATAACCTGGACCGAGCCAAAAT
* *
7905451 AAAAAATGAGTGACGGAGATTAAACCACAGGTTGAAAAACTCAAATGACTT
65 AAAAAATGAGTGACGGAGATTAAACCACAGGTCGAAAAACTAAAATGACTT
7905502 GAATAGAGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
130 1 0.01
131 7 0.07
132 86 0.90
133 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (132 bp):
AAAATGAGTGACCATGATTGAACCGTAAGTTGAAAAACTAAAATAACCTGGACCGAGCCAAAATA
AAAAATGAGTGACGGAGATTAAACCACAGGTCGAAAAACTAAAATGACTTAGACCGAGCCAAGGT
AA
Found at i:7905470 original size:66 final size:66
Alignment explanation
Indices: 7905323--7905499 Score: 241
Period size: 66 Copynumber: 2.7 Consensus size: 66
7905313 CAAGGTTAGG
* * **
7905323 AATGAGTGACAGG-GATTGAACCATAGGTCGAAAAACTAAAATGACTTAGACCGAGCCAAGGTAA
1 AATGAGTGAC-GGAGATTGAACCATAGGTTGAAAAACTAAAATGACCTAGACCGAGCCAAAATAA
7905387 AA
65 AA
* *
7905389 AATGAGTGATC-GAGATTGAACCGTAGGTTGAAAAACTAAAATGACCTGGACCGAGCCAAAATAA
1 AATGAGTGA-CGGAGATTGAACCATAGGTTGAAAAACTAAAATGACCTAGACCGAGCCAAAATAA
7905453 AA
65 AA
* * *
7905455 AATGAGTGACGGAGATTAAACCACAGGTTGAAAAACTCAAATGAC
1 AATGAGTGACGGAGATTGAACCATAGGTTGAAAAACTAAAATGAC
7905500 TTGAATAGAG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 95 0.97
67 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (66 bp):
AATGAGTGACGGAGATTGAACCATAGGTTGAAAAACTAAAATGACCTAGACCGAGCCAAAATAAA
A
Found at i:7908222 original size:19 final size:18
Alignment explanation
Indices: 7908194--7908234 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
7908184 CGATCGCAGG
7908194 TTTTTTTTTTCATTTTTA
1 TTTTTTTTTTCATTTTTA
*
7908212 TTTTATTTTTTGATTTTTA
1 TTTT-TTTTTTCATTTTTA
7908231 TTTT
1 TTTT
7908235 CTTAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTCATTTTTA
Found at i:7908246 original size:16 final size:14
Alignment explanation
Indices: 7908212--7908250 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
7908202 TTCATTTTTA
*
7908212 TTTTATTTTTTGAT
1 TTTTATTTTTTAAT
7908226 TTTTATTTTCTTAAGT
1 TTTTATTTT-TTAA-T
7908242 TTTTATTTT
1 TTTTATTTT
7908251 ATTTTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 3 0.14
16 10 0.45
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTTAAT
Found at i:7908265 original size:19 final size:18
Alignment explanation
Indices: 7908206--7908274 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
7908196 TTTTTTTTCA
*
7908206 TTTTTATTTTATTTTTTG
1 TTTTTATTTTATTTTTAG
* *
7908224 ATTTTTA-TTT-TCTTAAG
1 -TTTTTATTTTATTTTTAG
7908241 TTTTTATTTTATTTTTAG
1 TTTTTATTTTATTTTTAG
*
7908259 TTTTTTATTTAATTTT
1 -TTTTTATTTTATTTT
7908275 ACTAGTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
16 6 0.15
17 7 0.17
18 8 0.20
19 20 0.49
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTATTTTTAG
Found at i:7908359 original size:12 final size:13
Alignment explanation
Indices: 7908339--7908377 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
7908329 AAAAAATTTT
7908339 AAATAAAAAATAA
1 AAATAAAAAATAA
7908352 AAATAAAAATAATAA
1 AAAT-AAAA-AATAA
*
7908367 AAATTAAAAAT
1 AAATAAAAAAT
7908378 CTTTTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:7912314 original size:19 final size:18
Alignment explanation
Indices: 7912290--7912326 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
7912280 GAAAAATGTG
7912290 TGAAAAAAAAGGCAAAAAT
1 TGAAAAAAAA-GCAAAAAT
*
7912309 TGAAAAAATAGCAAAAAT
1 TGAAAAAAAAGCAAAAAT
7912327 AAAAAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.05, G:0.14, T:0.14
Consensus pattern (18 bp):
TGAAAAAAAAGCAAAAAT
Found at i:7912316 original size:18 final size:16
Alignment explanation
Indices: 7912293--7912334 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
7912283 AAATGTGTGA
7912293 AAAAAAAGGCAAAAATT
1 AAAAAAAGGCAAAAA-T
7912310 GAAAAAATA-GCAAAAAT
1 -AAAAAA-AGGCAAAAAT
7912327 AAAAAAAG
1 AAAAAAAG
7912335 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.05
16 6 0.27
17 1 0.05
18 13 0.59
19 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAAAAAGGCAAAAAT
Found at i:7915627 original size:35 final size:34
Alignment explanation
Indices: 7915555--7915627 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
7915545 GTAGGTTTCC
* *
7915555 TTTTTTTTATTTTCATTTTATTTTTTGATTTTGA
1 TTTTTTTAATTTTCATTTTATTTTTAGATTTTGA
* * *
7915589 TTTTTTTAAGTTTTTATTTTATTTTTAGTTTTTTA
1 TTTTTTTAA-TTTTCATTTTATTTTTAGATTTTGA
7915624 TTTT
1 TTTT
7915628 ACTTTACTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 8 0.24
35 25 0.76
ACGTcount: A:0.15, C:0.01, G:0.05, T:0.78
Consensus pattern (34 bp):
TTTTTTTAATTTTCATTTTATTTTTAGATTTTGA
Found at i:7915628 original size:19 final size:20
Alignment explanation
Indices: 7915557--7915627 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 20
7915547 AGGTTTCCTT
7915557 TTTTTTATTTTCA-TTTTA-
1 TTTTTTATTTTCATTTTTAG
*
7915575 TTTTTTGATTTTGATTTTTTTAAG
1 TTTTTT-ATTTTCA--TTTTT-AG
7915599 -TTTTTATTTT-ATTTTTAG
1 TTTTTTATTTTCATTTTTAG
7915617 TTTTTTATTTT
1 TTTTTTATTTT
7915628 ACTTTACTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
18 8 0.18
19 21 0.47
21 1 0.02
22 9 0.20
23 6 0.13
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.77
Consensus pattern (20 bp):
TTTTTTATTTTCATTTTTAG
Found at i:7927630 original size:19 final size:20
Alignment explanation
Indices: 7927602--7927643 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7927592 CATATATAAT
7927602 AAAATGAAAAT-AAAATAGGA
1 AAAATGAAAATCAAAATA-GA
7927622 AAAAT-AAAATCAAAATAGA
1 AAAATGAAAATCAAAATAGA
7927641 AAA
1 AAA
7927644 TAACATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAATGAAAATCAAAATAGA
Found at i:7929426 original size:34 final size:34
Alignment explanation
Indices: 7929356--7929426 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
7929346 TACTAACTAT
* ** * *
7929356 TATAACCCATTAGTTAGAACTTTATGCTAATTAC
1 TATAACCCATTAGTCAGAACCATATGATAATGAC
* *
7929390 TATAACCCATTAGTCAGGACCATATGATCATGAC
1 TATAACCCATTAGTCAGAACCATATGATAATGAC
7929424 TAT
1 TAT
7929427 GTTAATTACT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (34 bp):
TATAACCCATTAGTCAGAACCATATGATAATGAC
Found at i:7934300 original size:28 final size:28
Alignment explanation
Indices: 7934248--7934302 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
7934238 ATGTTTTGTA
*
7934248 AATTTATAAATCAATATCAAAATATGCC
1 AATTTATAAATCAATAGCAAAATATGCC
* * *
7934276 AATTTATAAATCATTGGCAACATATGC
1 AATTTATAAATCAATAGCAAAATATGC
7934303 TTTCATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (28 bp):
AATTTATAAATCAATAGCAAAATATGCC
Found at i:7937010 original size:14 final size:14
Alignment explanation
Indices: 7936991--7937018 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7936981 TTGGATAATT
7936991 ATAATTTATTTTTA
1 ATAATTTATTTTTA
7937005 ATAATTTATTTTTA
1 ATAATTTATTTTTA
7937019 TTTTATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATAATTTATTTTTA
Found at i:7937123 original size:18 final size:18
Alignment explanation
Indices: 7937072--7937137 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
7937062 AAAATACTTT
*
7937072 AAAAATAAATAAATAAAAC
1 AAAAATAAAT-AACAAAAC
* * **
7937091 AAAATTATAGCACAAAAC
1 AAAAATAAATAACAAAAC
7937109 AAAAATAAATAACAAATA-
1 AAAAATAAATAACAAA-AC
7937127 AAAAATAAATA
1 AAAAATAAATA
7937138 CTAAAATAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
18 29 0.78
19 8 0.22
ACGTcount: A:0.74, C:0.08, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAATAAATAACAAAAC
Found at i:7938095 original size:16 final size:17
Alignment explanation
Indices: 7938062--7938098 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7938052 CATTTTTTCT
7938062 TAAACTAAAAAGATAAA
1 TAAACTAAAAAGATAAA
*
7938079 TAAACTAAAAATA-AAA
1 TAAACTAAAAAGATAAA
7938095 TAAA
1 TAAA
7938099 AATGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (17 bp):
TAAACTAAAAAGATAAA
Found at i:7938262 original size:16 final size:16
Alignment explanation
Indices: 7938243--7938273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7938233 TCGAAACTCC
7938243 AAATATTCAAAAATTG
1 AAATATTCAAAAATTG
*
7938259 AAATATTCAAGAATT
1 AAATATTCAAAAATT
7938274 TCGCAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
AAATATTCAAAAATTG
Found at i:7938581 original size:34 final size:35
Alignment explanation
Indices: 7938538--7938619 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
7938528 ATACACTAAG
* * *
7938538 ATTCCTAAGAATTTTCAGGTTTACAAGAATTT-AT
1 ATTCGTAAGAATTTTCAGATTCACAAGAATTTCAT
* *
7938572 ATTCGTAAG-ATTTTCAGATTCATAAGGATTTCAT
1 ATTCGTAAGAATTTTCAGATTCACAAGAATTTCAT
7938606 ATTCGTAAGAATTT
1 ATTCGTAAGAATTT
7938620 AATTCTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 18 0.44
34 19 0.46
35 4 0.10
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (35 bp):
ATTCGTAAGAATTTTCAGATTCACAAGAATTTCAT
Found at i:7938619 original size:17 final size:17
Alignment explanation
Indices: 7938562--7938619 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
7938552 TCAGGTTTAC
7938562 AAGAATTT-ATATTCGT
1 AAGAATTTCATATTCGT
* * *
7938578 AAGATTTTCAGATTCAT
1 AAGAATTTCATATTCGT
*
7938595 AAGGATTTCATATTCGT
1 AAGAATTTCATATTCGT
7938612 AAGAATTT
1 AAGAATTT
7938620 AATTCTCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
16 7 0.21
17 26 0.79
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (17 bp):
AAGAATTTCATATTCGT
Found at i:7938663 original size:16 final size:17
Alignment explanation
Indices: 7938642--7938680 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
7938632 TTTAGATTCA
7938642 CAAGAA-CTCATATTTG
1 CAAGAATCTCATATTTG
*
7938658 CAAGAATTTTCATATTTG
1 CAAGAA-TCTCATATTTG
7938676 CAAGA
1 CAAGA
7938681 CGTAAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (17 bp):
CAAGAATCTCATATTTG
Found at i:7939044 original size:21 final size:21
Alignment explanation
Indices: 7939013--7939067 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
7939003 TTCACATAAA
7939013 AAAATTC-AAGATTCTCATTT
1 AAAATTCAAAGATTCTCATTT
*
7939033 AAAATTCAAAGATTCTTATTT
1 AAAATTCAAAGATTCTCATTT
* *
7939054 -GAGTTCAAAGATTC
1 AAAATTCAAAGATTC
7939068 ATATTTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (21 bp):
AAAATTCAAAGATTCTCATTT
Found at i:7939072 original size:20 final size:20
Alignment explanation
Indices: 7939037--7939075 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7939027 TCATTTAAAA
*
7939037 TTCAAAGATTCTTATTTGAG
1 TTCAAAGATTCATATTTGAG
7939057 TTCAAAGATTCATATTTGA
1 TTCAAAGATTCATATTTGA
7939076 TAAATTGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (20 bp):
TTCAAAGATTCATATTTGAG
Found at i:7939115 original size:86 final size:86
Alignment explanation
Indices: 7938946--7939140 Score: 205
Period size: 86 Copynumber: 2.3 Consensus size: 86
7938936 GATTTCATCC
* * *
7938946 AAAATTTCAAAGTTTCTCATTTGAGTTCAAAAATTCACATTTGATAAATTTTAGAGTTTCACATA
1 AAAA-TTCAAAGATTCTCATTTGAGTTCAAAAATTCACATTTGATAAATTGTAGAGATTCACATA
* * *
7939011 AAAAAATTCAAGATTCTCATTT
65 AAAAAATTAAAAACTCTCATTT
* * * * * *
7939033 AAAATTCAAAGATTCTTATTTGAGTTCAAAGATTCATATTTGATAAATTGTGGA-ATTCATATCC
1 AAAATTCAAAGATTCTCATTTGAGTTCAAAAATTCACATTTGATAAATTGTAGAGATTCACAT-A
**
7939097 AAAATTTTAAAAACTCTCATTT
65 AAAAAATTAAAAACTCTCATTT
* * *
7939119 -GAGTTCAAAGATTCACATTTGA
1 AAAATTCAAAGATTCTCATTTGA
7939141 TAAATTTTAG
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
85 24 0.27
86 61 0.69
87 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (86 bp):
AAAATTCAAAGATTCTCATTTGAGTTCAAAAATTCACATTTGATAAATTGTAGAGATTCACATAA
AAAAATTAAAAACTCTCATTT
Found at i:7939174 original size:65 final size:64
Alignment explanation
Indices: 7939033--7939182 Score: 160
Period size: 65 Copynumber: 2.3 Consensus size: 64
7939023 ATTCTCATTT
* * * * * *
7939033 AAAA-TTCAAAGATTCTTATTTGAGTTCAAAGATTCATATTTGATAAATTGTGGAATTCATATCC
1 AAAATTTCAAAAACTCTCATTTGAGTTCAAAGATTCACATTTGATAAATTGTAGAATTCAAAT-C
* * *
7939097 AAAATTTTAAAAACTCTCATTTGAGTTCAAAGATTCACATTTGATAAATTTTAGAGTTTCACAAT
1 AAAATTTCAAAAACTCTCATTTGAGTTCAAAGATTCACATTTGATAAATTGTAGA-ATTCA-AAT
7939162 -
64 C
* *
7939162 AATATTTCAAAAATTCTCATT
1 AAAATTTCAAAAACTCTCATT
7939183 CAAAACTTCT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
64 4 0.06
65 61 0.86
66 4 0.06
67 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (64 bp):
AAAATTTCAAAAACTCTCATTTGAGTTCAAAGATTCACATTTGATAAATTGTAGAATTCAAATC
Found at i:7940534 original size:8 final size:8
Alignment explanation
Indices: 7940509--7940621 Score: 101
Period size: 8 Copynumber: 14.5 Consensus size: 8
7940499 TTGAGTCTTC
7940509 TTTTTC-T
1 TTTTTCAT
* *
7940516 TTTTCCTT
1 TTTTTCAT
7940524 TTTTTCATT
1 TTTTTCA-T
*
7940533 TTTTTCAC
1 TTTTTCAT
7940541 TTTTTCA-
1 TTTTTCAT
7940548 TTTTTCAT
1 TTTTTCAT
*
7940556 TTTTTCAG
1 TTTTTCAT
*
7940564 TTTTTCAA
1 TTTTTCAT
7940572 TTTTTCAAT
1 TTTTTC-AT
*
7940581 TTTTTTAT
1 TTTTTCAT
7940589 TTTTT-A-
1 TTTTTCAT
7940595 TTTTTCAT
1 TTTTTCAT
*
7940603 TCTTT-AT
1 TTTTTCAT
*
7940610 TTTTTTAT
1 TTTTTCAT
7940618 TTTT
1 TTTT
7940622 GTATTCATCC
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.06
7 20 0.22
8 50 0.56
9 14 0.16
ACGTcount: A:0.12, C:0.12, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:7940544 original size:32 final size:31
Alignment explanation
Indices: 7940508--7940613 Score: 96
Period size: 31 Copynumber: 3.4 Consensus size: 31
7940498 TTTGAGTCTT
* *
7940508 CTTTTTC-TTTTTCCTTTTTTTCATTTTTTTCA
1 CTTTTTCATTTTT-CATTTTTTCA-GTTTTTCA
7940540 CTTTTTCATTTTTCATTTTTTCAGTTTTTCA
1 CTTTTTCATTTTTCATTTTTTCAGTTTTTCA
* *
7940571 ATTTTTCAATTTTTTTATTTTTT-A-TTTTTCA
1 CTTTTTC-A-TTTTTCATTTTTTCAGTTTTTCA
7940602 -TTCTTT-ATTTTT
1 CTT-TTTCATTTTT
7940614 TTATTTTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
28 5 0.08
29 1 0.02
30 2 0.03
31 23 0.35
32 18 0.27
33 17 0.26
ACGTcount: A:0.12, C:0.13, G:0.01, T:0.74
Consensus pattern (31 bp):
CTTTTTCATTTTTCATTTTTTCAGTTTTTCA
Found at i:7940551 original size:24 final size:23
Alignment explanation
Indices: 7940524--7940603 Score: 101
Period size: 23 Copynumber: 3.4 Consensus size: 23
7940514 CTTTTTCCTT
7940524 TTTTTCATTTTTTTCACTTTTTCA
1 TTTTTCATTTTTTTCA-TTTTTCA
7940548 TTTTTCA-TTTTTTCAGTTTTTCAA
1 TTTTTCATTTTTTTCA-TTTTTC-A
*
7940572 TTTTTCAATTTTTTT-ATTTTTTA
1 TTTTTC-ATTTTTTTCATTTTTCA
7940595 TTTTTCATT
1 TTTTTCATT
7940604 CTTTATTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
22 3 0.06
23 21 0.41
24 19 0.37
25 2 0.04
26 6 0.12
ACGTcount: A:0.15, C:0.11, G:0.01, T:0.72
Consensus pattern (23 bp):
TTTTTCATTTTTTTCATTTTTCA
Found at i:7940626 original size:8 final size:7
Alignment explanation
Indices: 7940581--7940626 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
7940571 ATTTTTCAAT
7940581 TTTTTTA
1 TTTTTTA
7940588 TTTTTTA
1 TTTTTTA
*
7940595 TTTTTCA
1 TTTTTTA
*
7940602 TTCTTTA
1 TTTTTTA
7940609 TTTTTTTA
1 -TTTTTTA
7940617 TTTTTGTA
1 TTTTT-TA
7940625 TT
1 TT
7940627 CATCCATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 23 0.70
8 10 0.30
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:7945011 original size:18 final size:18
Alignment explanation
Indices: 7944960--7945031 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
7944950 AAAATGCTTT
*
7944960 AAAAATAAATAAATAAAAC
1 AAAAATAAAT-AACAAAAC
* * **
7944979 AAAATTATAGCACAAAAC
1 AAAAATAAATAACAAAAC
7944997 AAAAATAAATAACAAATA-
1 AAAAATAAATAACAAA-AC
*
7945015 AAAAATAAATACCAAAA
1 AAAAATAAATAACAAAA
7945032 TAAGAACTGG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 33 0.79
19 8 0.19
ACGTcount: A:0.74, C:0.10, G:0.01, T:0.15
Consensus pattern (18 bp):
AAAAATAAATAACAAAAC
Found at i:7947051 original size:6 final size:7
Alignment explanation
Indices: 7947035--7947060 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7947025 TAACAATGTC
7947035 AAAAATA
1 AAAAATA
7947042 AAAAATA
1 AAAAATA
7947049 AAAAATA
1 AAAAATA
7947056 AAAAA
1 AAAAA
7947061 GGGGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:7950642 original size:16 final size:17
Alignment explanation
Indices: 7950605--7950645 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7950595 ACGAGAGAAA
* *
7950605 GAGAGAGGGGAGGAATG
1 GAGAGAAGGGAGGAAGG
7950622 G-GAGAAGGGA-GAAGG
1 GAGAGAAGGGAGGAAGG
7950637 GAGAGAAGG
1 GAGAGAAGG
7950646 AGACTGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 15 0.71
17 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (17 bp):
GAGAGAAGGGAGGAAGG
Found at i:7956865 original size:25 final size:24
Alignment explanation
Indices: 7956832--7956881 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
7956822 TCAATAGTTC
7956832 TGAGTTT-AAATTTCATTTTAAATT
1 TGAGTTTAAAATTTCA-TTTAAATT
*
7956856 TGAGATTTAAAATTTGATTTAAATT
1 TGAG-TTTAAAATTTCATTTAAATT
7956881 T
1 T
7956882 ATTTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 12 0.52
26 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
TGAGTTTAAAATTTCATTTAAATT
Found at i:7956890 original size:15 final size:15
Alignment explanation
Indices: 7956867--7956912 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
7956857 GAGATTTAAA
*
7956867 ATTTGATTTAAATTT
1 ATTTAATTTAAATTT
**
7956882 ATTTAATTTTTATTT
1 ATTTAATTTAAATTT
*
7956897 TTTTAATTTAAATTT
1 ATTTAATTTAAATTT
7956912 A
1 A
7956913 ATTTGAGATA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
ATTTAATTTAAATTT
Found at i:7956955 original size:24 final size:24
Alignment explanation
Indices: 7956898--7956955 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
7956888 TTTTTATTTT
7956898 TTTAATTTAAATTTAATTTGAGATA
1 TTTAA-TTAAATTTAATTTGAGATA
* * *
7956923 ATTATTTAAATTT-ATTTGATTATA
1 TTTAATTAAATTTAATTTGA-GATA
7956947 TTTAATTAA
1 TTTAATTAA
7956956 TATATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
TTTAATTAAATTTAATTTGAGATA
Found at i:7956977 original size:28 final size:24
Alignment explanation
Indices: 7956955--7957029 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
7956945 TATTTAATTA
7956955 ATATATAAAAATAAATTTAATTTTT
1 ATATATAAAAA-AAATTTAATTTTT
* *
7956980 ATATTTAATAAAAATTTAATTTTT
1 ATATATAAAAAAAATTTAATTTTT
* *
7957004 ATAT-TTAATAAAATTTAATTATTT
1 ATATATAAAAAAAATTTAATT-TTT
7957028 AT
1 AT
7957030 GTTTGAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
23 13 0.30
24 22 0.50
25 9 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATATAAAAAAAATTTAATTTTT
Found at i:7956982 original size:23 final size:23
Alignment explanation
Indices: 7956946--7957029 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 23
7956936 ATTTGATTAT
** *
7956946 ATTTAATTAATATATAAAAATAA
1 ATTTAATTTTTATATAATAATAA
7956969 ATTTAATTTTTATATTTAATAA-AA
1 ATTTAATTTTTATA--TAATAATAA
*
7956993 ATTTAATTTTTATAT-TTAATAAA
1 ATTTAATTTTTATATAATAAT-AA
7957016 ATTTAATTATTTAT
1 ATTTAATT-TTTAT
7957030 GTTTGAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.06
22 1 0.02
23 22 0.42
24 21 0.40
25 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTAATTTTTATATAATAATAA
Found at i:7956999 original size:24 final size:23
Alignment explanation
Indices: 7956967--7957029 Score: 108
Period size: 24 Copynumber: 2.7 Consensus size: 23
7956957 ATATAAAAAT
7956967 AAATTTAATTTTTATATTTAATAA
1 AAATTTAATTTTTATATTTAAT-A
7956991 AAATTTAATTTTTATATTTAATA
1 AAATTTAATTTTTATATTTAATA
7957014 AAATTTAATTATTTAT
1 AAATTTAATT-TTTAT
7957030 GTTTGAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATTTAATTTTTATATTTAATA
Found at i:7965859 original size:2 final size:2
Alignment explanation
Indices: 7965852--7965886 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7965842 AACACTTACA
*
7965852 TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7965887 AACTTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:7974699 original size:21 final size:20
Alignment explanation
Indices: 7974661--7974703 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
7974651 TAAAATTTTA
7974661 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGATTT
7974681 GAAAAAG-AAATTTGATGATTT
1 GAAAAAGAAAATTT--TGATTT
7974702 GA
1 GA
7974704 TGAATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGATTT
Found at i:7983094 original size:21 final size:21
Alignment explanation
Indices: 7983070--7983130 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
7983060 ATCTGTAATC
*
7983070 TTTAATATAATTTTGATTACT
1 TTTAATATAATTTTGATAACT
*
7983091 TTTAATATAGTTTTGATAACT
1 TTTAATATAATTTTGATAACT
* *
7983112 TCTAATATTATTTTGATAA
1 TTTAATATAATTTTGATAA
7983131 TTGATAGTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTAATATAATTTTGATAACT
Found at i:7983397 original size:22 final size:22
Alignment explanation
Indices: 7983371--7983414 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7983361 TTTCGATACA
7983371 TAAGAAAATTCTTAAAATTTTT
1 TAAGAAAATTCTTAAAATTTTT
7983393 TAAGAAAATTCTTAAAATTTTT
1 TAAGAAAATTCTTAAAATTTTT
7983415 CTTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
TAAGAAAATTCTTAAAATTTTT
Found at i:7985588 original size:20 final size:21
Alignment explanation
Indices: 7985563--7985608 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7985553 TAAGGTATAG
*
7985563 ATTTTGATACTTTTT-ATAAA
1 ATTTTGATAATTTTTAATAAA
* *
7985583 ATTTTGGTAATTTTTAATATA
1 ATTTTGATAATTTTTAATAAA
7985604 ATTTT
1 ATTTT
7985609 TTATCTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTTGATAATTTTTAATAAA
Found at i:7985606 original size:21 final size:21
Alignment explanation
Indices: 7985558--7985662 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
7985548 TATATTAAGG
* *
7985558 TATAGATTTTGATACTTTTT-A
1 TATA-ATTTTGGTAATTTTTAA
*
7985579 TAAAATTTTGGTAATTTTTAA
1 TATAATTTTGGTAATTTTTAA
*
7985600 TATAATTTT--TTATCTTTTAA
1 TATAATTTTGGTAAT-TTTTAA
* * * **
7985620 TATCATTGTGTTAATCATTAA
1 TATAATTTTGGTAATTTTTAA
*
7985641 TATAATTTTAGTAATTTTTAA
1 TATAATTTTGGTAATTTTTAA
7985662 T
1 T
7985663 GGATAACTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
19 3 0.05
20 26 0.41
21 32 0.50
22 3 0.05
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (21 bp):
TATAATTTTGGTAATTTTTAA
Found at i:7985849 original size:21 final size:21
Alignment explanation
Indices: 7985796--7986201 Score: 142
Period size: 21 Copynumber: 19.3 Consensus size: 21
7985786 TTGATAGGCA
* * *
7985796 TTGATATAATTTTGGTAATAAT
1 TTGATAAAATTTTGATAAT-CT
* * *
7985818 TTTAAAAAATTTTGGTAATCT
1 TTGATAAAATTTTGATAATCT
* *
7985839 TTGGTAAAATTTTGATAATTT
1 TTGATAAAATTTTGATAATCT
* * *
7985860 TTAATAAATTTTTTATAATCT
1 TTGATAAAATTTTGATAATCT
* *
7985881 TTGATAAAATTTT-AAAAACAT
1 TTGATAAAATTTTGATAATC-T
*
7985902 TTGATACAATTTT-AGTAATCT
1 TTGATAAAATTTTGA-TAATCT
* * *
7985923 TTAATACAATTTTAATAA-CAT
1 TTGATAAAATTTTGATAATC-T
* *
7985944 TTGATAAAAATTTGGTAA-CAT
1 TTGATAAAATTTTGATAATC-T
* *
7985965 CTGATAAAATTTT-ATTGA-CTT
1 TTGATAAAATTTTGA-TAATC-T
* * * *
7985986 TTAATACAATTTTAATAACCT
1 TTGATAAAATTTTGATAATCT
* * *
7986007 TTAATATATTTTTGATAAT-T
1 TTGATAAAATTTTGATAATCT
* *
7986027 TATAATACAATTTT-AGTAA-CTT
1 T-TGATAAAATTTTGA-TAATC-T
* *
7986049 TTGAT-AGATTTATGGTAA-CT
1 TTGATAAAATTT-TGATAATCT
* *
7986069 TTTACTAGAATTTTGATAATC-
1 TTGA-TAAAATTTTGATAATCT
* * *
7986090 TCGAATACAATTTTGATAAT-A
1 TTG-ATAAAATTTTGATAATCT
*
7986111 TTGATAAAATTTTAATAATC-
1 TTGATAAAATTTTGATAATCT
** * *
7986131 TCAATACAATTTTTTGAGAA-CTT
1 TTGATA-AA-ATTTTGATAATC-T
*
7986154 TTGATAAAATTTTGATAATTT
1 TTGATAAAATTTTGATAATCT
* *
7986175 TTTATAAAATTTTGGTAA-CTT
1 TTGATAAAATTTTGATAATC-T
7986196 TTGATA
1 TTGATA
7986202 GAACCTTTAA
Statistics
Matches: 289, Mismatches: 70, Indels: 51
0.70 0.17 0.12
Matches are distributed among these distances:
20 34 0.12
21 212 0.73
22 39 0.13
23 4 0.01
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.47
Consensus pattern (21 bp):
TTGATAAAATTTTGATAATCT
Found at i:7985893 original size:63 final size:64
Alignment explanation
Indices: 7985823--7986004 Score: 180
Period size: 63 Copynumber: 2.9 Consensus size: 64
7985813 ATAATTTTAA
* * * *
7985823 AAAATTTTGGTAATC-TTTGGTAAAATTTT-GATAATTTTTAATA-AATTTTTTATAATC-TTTG
1 AAAATTTTGGTAAACATTTGATAAAATTTTAG-TAATCTTTAATACAA-TTTTAATAA-CATTTG
7985884 AT
63 AT
** *
7985886 AAAATTTT-AAAAACATTTGATACAATTTTAGTAATCTTTAATACAATTTTAATAACATTTGAT
1 AAAATTTTGGTAAACATTTGATAAAATTTTAGTAATCTTTAATACAATTTTAATAACATTTGAT
* * * *
7985949 AAAAATTTGGT-AACATCTGATAAAATTTTATTGA-CTTTTAATACAATTTTAATAAC
1 AAAATTTTGGTAAACATTTGATAAAATTTTAGTAATC-TTTAATACAATTTTAATAAC
7986005 CTTTAATATA
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
62 5 0.05
63 91 0.92
64 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (64 bp):
AAAATTTTGGTAAACATTTGATAAAATTTTAGTAATCTTTAATACAATTTTAATAACATTTGAT
Found at i:7986166 original size:11 final size:11
Alignment explanation
Indices: 7986152--7986201 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
7986142 TTTTGAGAAC
7986152 TTTTGATAAAA
1 TTTTGATAAAA
*
7986163 TTTTGAT-AAT
1 TTTTGATAAAA
*
7986173 TTTTTATAAAA
1 TTTTGATAAAA
* *
7986184 TTTTGGT-AAC
1 TTTTGATAAAA
7986194 TTTTGATA
1 TTTTGATA
7986202 GAACCTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (11 bp):
TTTTGATAAAA
Found at i:7988229 original size:275 final size:275
Alignment explanation
Indices: 7987723--7988275 Score: 953
Period size: 275 Copynumber: 2.0 Consensus size: 275
7987713 AGGCAAAAAA
* * *
7987723 TTAATTCTTAGAAGCGCTCTAGTATAGTCATTAAGGATAATTTTGTTTTTGTTGTTACCTTTGAA
1 TTAATTCTTAAAAGCGCTCTAGTATAGTCATTAAGGATAATTTTATTTTTGTTCTTACCTTTGAA
* *
7987788 CCTTGGCATGCATAGAATACTACTCTTCATATCCATGGGGCTGCCTATTGTTTTTTTCTCCATTT
66 CCTTGGCATGCATAGAATACTACTCTTCATATCCATGGGGCTACCTATTATTTTTTTCTCCATTT
* *
7987853 TCTTTAAACGTTTGCCTTTGATAATGAGAGCCTATTTATGTAGGAGAATCTAGTTCTAGTGTAAC
131 TCTCTAAACATTTGCCTTTGATAATGAGAGCCTATTTATGTAGGAGAATCTAGTTCTAGTGTAAC
* *
7987918 AAACAATTTTTATATGCATGTGCTTTACTATGTTTGCTTACTAAGTAAATGAATATGTATCTTTT
196 AAACAATTTTTATATGCATGTACTTTACTATGTTTGCTTACTAAGTAAATAAATATGTATCTTTT
7987983 ATTTATTGTATATTG
261 ATTTATTGTATATTG
*
7987998 TTAATTCTTAAAAGCGCTCTAGTATAGTCATTGAGGATAATTTTATTTTTGTTCTTACCTTTGAA
1 TTAATTCTTAAAAGCGCTCTAGTATAGTCATTAAGGATAATTTTATTTTTGTTCTTACCTTTGAA
* *
7988063 CCTTGGCATGCATAGAATACTACTCTTCATATCCATGGTGCTATCTATTATTTTTTTCTCCATTT
66 CCTTGGCATGCATAGAATACTACTCTTCATATCCATGGGGCTACCTATTATTTTTTTCTCCATTT
* * *
7988128 TCTCTAATCATTTGCCTTTGATAATGAGAGCCTGTTTATGTAGGAGAATTTAGTTCTAGTGTAAC
131 TCTCTAAACATTTGCCTTTGATAATGAGAGCCTATTTATGTAGGAGAATCTAGTTCTAGTGTAAC
* *
7988193 AAACAATTTTTATATGCATGTATTTTACTGTGTTTGCTTACTAAGTAAATAAATATGTATCTTTT
196 AAACAATTTTTATATGCATGTACTTTACTATGTTTGCTTACTAAGTAAATAAATATGTATCTTTT
7988258 ATTTATTGTATATTG
261 ATTTATTGTATATTG
7988273 TTA
1 TTA
7988276 TGATTAATTT
Statistics
Matches: 261, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
275 261 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (275 bp):
TTAATTCTTAAAAGCGCTCTAGTATAGTCATTAAGGATAATTTTATTTTTGTTCTTACCTTTGAA
CCTTGGCATGCATAGAATACTACTCTTCATATCCATGGGGCTACCTATTATTTTTTTCTCCATTT
TCTCTAAACATTTGCCTTTGATAATGAGAGCCTATTTATGTAGGAGAATCTAGTTCTAGTGTAAC
AAACAATTTTTATATGCATGTACTTTACTATGTTTGCTTACTAAGTAAATAAATATGTATCTTTT
ATTTATTGTATATTG
Found at i:7988710 original size:12 final size:12
Alignment explanation
Indices: 7988693--7988717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7988683 TGGGAATTAA
7988693 TTGGTTTATAAT
1 TTGGTTTATAAT
7988705 TTGGTTTATAAT
1 TTGGTTTATAAT
7988717 T
1 T
7988718 AGAAATTTTG
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGTTTATAAT
Found at i:7991610 original size:17 final size:16
Alignment explanation
Indices: 7991585--7991616 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7991575 GATCATTAAC
7991585 AAAAAATCTATAAAAA
1 AAAAAATCTATAAAAA
7991601 AAAAAGATCTATAAAA
1 AAAAA-ATCTATAAAA
7991617 TTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAAAATCTATAAAAA
Found at i:7992101 original size:20 final size:22
Alignment explanation
Indices: 7992067--7992106 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7992057 GAAATGTGAA
7992067 AAAAAAAAAGAAAGA-AAAAGC
1 AAAAAAAAAGAAAGATAAAAGC
*
7992088 AAAAAAATAG-AAGATAAAA
1 AAAAAAAAAGAAAGATAAAA
7992107 AAAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.80, C:0.03, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAGAAAGATAAAAGC
Found at i:7994054 original size:17 final size:17
Alignment explanation
Indices: 7994017--7994054 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7994007 TATATATAAG
*
7994017 AAAATAAAAAAACATTT
1 AAAATAAAAAAACATTA
7994034 AAAATAACAAAAA-ATTA
1 AAAATAA-AAAAACATTA
7994051 AAAA
1 AAAA
7994055 AGAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAAACATTA
Found at i:7997055 original size:37 final size:35
Alignment explanation
Indices: 7997014--7997086 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 35
7997004 TTGTTATTAA
7997014 ATTATAATTCAA-TAA-TTATTTAAATTTTTAATATTTT
1 ATTATAA-TCAATTAAGTT-TTT-AATTTTTAAT-TTTT
7997051 ATTATAATCAATTAAGTTTTTAATTTTTAATTTTT
1 ATTATAATCAATTAAGTTTTTAATTTTTAATTTTT
7997086 A
1 A
7997087 CACAACTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
35 5 0.15
36 14 0.41
37 13 0.38
38 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (35 bp):
ATTATAATCAATTAAGTTTTTAATTTTTAATTTTT
Found at i:8012019 original size:62 final size:62
Alignment explanation
Indices: 8011948--8012082 Score: 234
Period size: 62 Copynumber: 2.2 Consensus size: 62
8011938 TCTTTGTTTC
* * *
8011948 ATTTGCATGAATTGCCATCCATATTCTTTACGCTTTATTTGTATATTTTCTTTTGACATCTT
1 ATTTGCATGAATTACCATCCATATTCTCTACGCTTTAGTTGTATATTTTCTTTTGACATCTT
*
8012010 ATTTGCATGAATTACCATCCATATTCTCTATGCTTTAGTTGTATATTTTCTTTTGACATCTT
1 ATTTGCATGAATTACCATCCATATTCTCTACGCTTTAGTTGTATATTTTCTTTTGACATCTT
8012072 ATTTGCATGAA
1 ATTTGCATGAA
8012083 AATCAACTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (62 bp):
ATTTGCATGAATTACCATCCATATTCTCTACGCTTTAGTTGTATATTTTCTTTTGACATCTT
Found at i:8022059 original size:6 final size:6
Alignment explanation
Indices: 8022048--8022072 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8022038 GCAAAAAAAT
8022048 ATGAAA ATGAAA ATGAAA ATGAAA A
1 ATGAAA ATGAAA ATGAAA ATGAAA A
8022073 AGAGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGAAA
Found at i:8022335 original size:3 final size:3
Alignment explanation
Indices: 8022327--8022372 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
8022317 AAGATGTACA
8022327 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8022373 GTTGTTGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8029655 original size:22 final size:22
Alignment explanation
Indices: 8029611--8029655 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8029601 GCTACGGGAC
* * * *
8029611 ATTTTTCACTTTTTTATTTTTT
1 ATTTTTAAATTTTTTAATATTT
8029633 ATTTTTAAATTTTTTAATATTT
1 ATTTTTAAATTTTTTAATATTT
8029655 A
1 A
8029656 ATAAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (22 bp):
ATTTTTAAATTTTTTAATATTT
Found at i:8029684 original size:18 final size:21
Alignment explanation
Indices: 8029641--8029689 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
8029631 TTATTTTTAA
*
8029641 ATTTTTTAATATTTAATAAAT
1 ATTTTTTAAGATTTAATAAAT
8029662 ATTTTTTAAGATTT-A-AAAT
1 ATTTTTTAAGATTTAATAAAT
8029681 -TTTTTTAAG
1 ATTTTTTAAG
8029690 TAAGATCCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 1 0.04
21 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTTTAAGATTTAATAAAT
Found at i:8031491 original size:30 final size:29
Alignment explanation
Indices: 8031418--8031504 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 29
8031408 TTGATTTACA
8031418 TTAAGGGCTTATTTA-AGTGCAAATTAAAG
1 TTAAGGGCTTATTTAGA-TGCAAATTAAAG
* * ** *
8031447 GTAAAGATTTATTTAGATACAAATTAAAG
1 TTAAGGGCTTATTTAGATGCAAATTAAAG
*
8031476 TTTAAGGGCTTATTTAGGTGCAAATTAAA
1 -TTAAGGGCTTATTTAGATGCAAATTAAA
8031505 AATTAAAACT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
29 22 0.49
30 23 0.51
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (29 bp):
TTAAGGGCTTATTTAGATGCAAATTAAAG
Found at i:8031526 original size:29 final size:30
Alignment explanation
Indices: 8031425--8031550 Score: 80
Period size: 29 Copynumber: 4.3 Consensus size: 30
8031415 ACATTAAGGG
* ** *
8031425 CTTATTTAAGTGCAAATTAAAGGTAAAG-A
1 CTTATTTAAATGCAAATTAAAAATTAAGAA
* * * ** **
8031454 TTTATTTAGATACAAATTAAAGTTTAAGGG
1 CTTATTTAAATGCAAATTAAAAATTAAGAA
**
8031484 CTTATTTAGGTGCAAATTAAAAATTAA-AA
1 CTTATTTAAATGCAAATTAAAAATTAAGAA
* *
8031513 CTTATTTAAATGC-AA-TAAAAATATAATAG
1 CTTATTTAAATGCAAATTAAAAAT-TAAGAA
8031542 CTTATTTAA
1 CTTATTTAA
8031551 GTAAAGTGAT
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
27 7 0.09
28 5 0.06
29 43 0.56
30 22 0.29
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (30 bp):
CTTATTTAAATGCAAATTAAAAATTAAGAA
Found at i:8033897 original size:18 final size:19
Alignment explanation
Indices: 8033874--8033911 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8033864 TAAAAAAGAA
*
8033874 AAATTTTG-AAAATCTTTG
1 AAATTTTGCAAAAGCTTTG
8033892 AAATTTTGCAAAAGCTTTG
1 AAATTTTGCAAAAGCTTTG
8033911 A
1 A
8033912 CTTTAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATTTTGCAAAAGCTTTG
Found at i:8040597 original size:18 final size:19
Alignment explanation
Indices: 8040576--8040634 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 19
8040566 ATAAAACCAA
*
8040576 AAAAAAAAATT-AATAAAT
1 AAAAAAAAATTAAAAAAAT
8040594 AAAAAAAAATTAAAAAAAT
1 AAAAAAAAATTAAAAAAAT
*
8040613 -AAAAAAAA-TAAAAAAAG
1 AAAAAAAAATTAAAAAAAT
8040630 AAAAA
1 AAAAA
8040635 CCTGCAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.22
18 23 0.62
19 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAAAAATTAAAAAAAT
Found at i:8040608 original size:26 final size:24
Alignment explanation
Indices: 8040563--8040634 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 24
8040553 ATTCTTTTTT
*
8040563 TAAATAAAACCAAAAAAAAAAATTAA
1 TAAATAAAA--AAAAAAAAAAAATAA
8040589 TAAATAAAAAAAAATTAAAAAAATAA
1 TAAATAAAAAAAAA--AAAAAAATAA
*
8040615 -AAA-AAATAAAAAAAGAAAAA
1 TAAATAAA-AAAAAAAAAAAAA
8040635 CCTGCAATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
23 6 0.15
24 8 0.20
25 9 0.22
26 18 0.44
ACGTcount: A:0.82, C:0.03, G:0.01, T:0.14
Consensus pattern (24 bp):
TAAATAAAAAAAAAAAAAAAATAA
Found at i:8040610 original size:9 final size:8
Alignment explanation
Indices: 8040574--8040634 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
8040564 AAATAAAACC
8040574 AAAAAAA-
1 AAAAAAAT
*
8040581 AAAATTAAT
1 AAAA-AAAT
*
8040590 AAATAAA-
1 AAAAAAAT
*
8040597 AAAAAATT
1 AAAAAAAT
8040605 AAAAAAAT
1 AAAAAAAT
8040613 AAAAAAAAT
1 -AAAAAAAT
*
8040622 AAAAAAAG
1 AAAAAAAT
8040630 AAAAA
1 AAAAA
8040635 CCTGCAATCT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
7 9 0.21
8 23 0.53
9 11 0.26
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8049544 original size:31 final size:30
Alignment explanation
Indices: 8049506--8049566 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
8049496 ATCTTTTTTT
*
8049506 TATATTAAAATCATATCAAATTTATAAATTA
1 TATATTAAAATCAAATCAAATTT-TAAATTA
* *
8049537 TATATTAAATTTAAATCAAATTTTAAATTA
1 TATATTAAAATCAAATCAAATTTTAAATTA
8049567 AAAACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TATATTAAAATCAAATCAAATTTTAAATTA
Found at i:8049675 original size:13 final size:13
Alignment explanation
Indices: 8049655--8049696 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8049645 AATTTATTTA
8049655 AATATATTAAAAT
1 AATATATTAAAAT
**
8049668 TTTATATTAAAAT
1 AATATATTAAAAT
8049681 AATATATATAAAAT
1 AATATAT-TAAAAT
8049695 AA
1 AA
8049697 AAAATTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:8049707 original size:17 final size:18
Alignment explanation
Indices: 8049643--8049724 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 18
8049633 ATTTTACATC
* *
8049643 AAAATTTATTTAAATATATT
1 AAAATTT-TATAAA-ATAAT
*
8049663 AAAATTTTATATTAA-AAT
1 AAAATTTTATA-AAATAAT
* *
8049681 AATA-TATATAAAATAA-
1 AAAATTTTATAAAATAAT
*
8049697 AAAATTTTATAAATTAAT
1 AAAATTTTATAAAATAAT
8049715 AAAATTTTAT
1 AAAATTTTAT
8049725 TTAATTTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.10
17 17 0.35
18 15 0.31
19 4 0.08
20 8 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTTTATAAAATAAT
Found at i:8050629 original size:8 final size:8
Alignment explanation
Indices: 8050616--8050640 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8050606 TCATCCCTCT
8050616 CCTTCTTC
1 CCTTCTTC
8050624 CCTTCTTC
1 CCTTCTTC
8050632 CCTTCTTC
1 CCTTCTTC
8050640 C
1 C
8050641 TCCCTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (8 bp):
CCTTCTTC
Found at i:8057455 original size:5 final size:5
Alignment explanation
Indices: 8057445--8057472 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8057435 GAAATCCAGA
8057445 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
8057473 CAAAGGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8064322 original size:59 final size:60
Alignment explanation
Indices: 8064216--8064332 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 60
8064206 TTATATTCGA
* ** * *
8064216 ATAATTTTGAATTTAAATTATATAAGTTTTCTTAATTAAATCAGATTGGATCAAGTTTAG
1 ATAATTTTGAATTTAAATCATATAACCTTTCTTAATCAAATCAGATTGGATAAAGTTTAG
* **
8064276 ATAATTTTGAATTTGAATCAT-TAACCTTTCTTAATCAAATTGGATTGGATAAAGTTT
1 ATAATTTTGAATTTAAATCATATAACCTTTCTTAATCAAATCAGATTGGATAAAGTTT
8064333 GGACGTAGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 30 0.61
60 19 0.39
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (60 bp):
ATAATTTTGAATTTAAATCATATAACCTTTCTTAATCAAATCAGATTGGATAAAGTTTAG
Found at i:8066957 original size:34 final size:34
Alignment explanation
Indices: 8066910--8067028 Score: 130
Period size: 34 Copynumber: 3.5 Consensus size: 34
8066900 TTCTAAACAC
* * * *
8066910 AAACGCCGTTAATATAATGGCTTTTTTTAGATAT
1 AAACGCTGCTAATATAATGGCATTTTTTACATAT
* * * *
8066944 AAACGCTGCTAATATAGTAGCATTTTTTATATTT
1 AAACGCTGCTAATATAATGGCATTTTTTACATAT
* * *
8066978 AAACGCGGCTAATATAGTGGCATTTTTCACATAT
1 AAACGCTGCTAATATAATGGCATTTTTTACATAT
*
8067012 AAACGTTGCTAATATAA
1 AAACGCTGCTAATATAA
8067029 CGATGTTTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (34 bp):
AAACGCTGCTAATATAATGGCATTTTTTACATAT
Found at i:8066963 original size:68 final size:68
Alignment explanation
Indices: 8066883--8067027 Score: 173
Period size: 68 Copynumber: 2.1 Consensus size: 68
8066873 TAGAAACACC
* * * * *
8066883 GCTAAAATAGTAGCATTTTCTAAACACAAACGCCGTTAATATAATGGCTTTTTTTAGATATAAAC
1 GCTAATATAGTAGCATTTTCTAAACACAAACGCCGCTAATATAATGGCATTTTTCACATATAAAC
8066948 GCT
66 GCT
* * *** * *
8066951 GCTAATATAGTAGCATTTTTTATATTTAAACGCGGCTAATATAGTGGCATTTTTCACATATAAAC
1 GCTAATATAGTAGCATTTTCTAAACACAAACGCCGCTAATATAATGGCATTTTTCACATATAAAC
*
8067016 GTT
66 GCT
8067019 GCTAATATA
1 GCTAATATA
8067028 ACGATGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (68 bp):
GCTAATATAGTAGCATTTTCTAAACACAAACGCCGCTAATATAATGGCATTTTTCACATATAAAC
GCT
Found at i:8068468 original size:15 final size:14
Alignment explanation
Indices: 8068443--8068494 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
8068433 GTTCAATTGG
8068443 ATAAAAATAAATAT
1 ATAAAAATAAATAT
*
8068457 ATAAAAATTAAATAAA
1 ATAAAAA-TAAAT-AT
*
8068473 ATAAAAATACATAT
1 ATAAAAATAAATAT
*
8068487 TTAAAAAT
1 ATAAAAAT
8068495 TTAACTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 15 0.47
15 9 0.28
16 8 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAAATAAATAT
Found at i:8071187 original size:3 final size:3
Alignment explanation
Indices: 8071181--8071212 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8071171 AATAATAATA
*
8071181 ATG ATG ATG ATA ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
8071213 TGAACTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:8071193 original size:12 final size:12
Alignment explanation
Indices: 8071178--8071212 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
8071168 AATAATAATA
8071178 ATAATGATGATG
1 ATAATGATGATG
8071190 ATAATGATGATG
1 ATAATGATGATG
*
8071202 ATGATGATGAT
1 ATAATGATGAT
8071213 TGAACTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (12 bp):
ATAATGATGATG
Found at i:8072293 original size:19 final size:19
Alignment explanation
Indices: 8072258--8072297 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
8072248 TATATTTAAA
8072258 TTTAAAATTTATATAGAATT
1 TTTAAAATTTATATAG-ATT
*
8072278 TTTAATATTT-TATAGATT
1 TTTAAAATTTATATAGATT
8072296 TT
1 TT
8072298 GATTTGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTAAAATTTATATAGATT
Found at i:8072695 original size:20 final size:19
Alignment explanation
Indices: 8072667--8072714 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
8072657 TTAAAACTAA
*
8072667 AAAATAATAATAAAAGAAAT
1 AAAAGAATAATAAAA-AAAT
*
8072687 AAAAGAATAATAAAAACAT
1 AAAAGAATAATAAAAAAAT
8072706 AAAATGAAT
1 AAAA-GAAT
8072715 TTACTTGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (19 bp):
AAAAGAATAATAAAAAAAT
Found at i:8073099 original size:964 final size:969
Alignment explanation
Indices: 8071402--8073277 Score: 2468
Period size: 964 Copynumber: 1.9 Consensus size: 969
8071392 GTTTAACTAA
*
8071402 ATATATATATATATAAACATATGAACCAATTTATTTTAGAATAAATAAAATCTAGATGCATATAT
1 ATATATATATATATAAACATATGAACCAATTTATTTTAGAATAAATAAAATCTAAATGCATATAT
* *
8071467 CATATAATGCAAATAAAACCAAATAATAAGTTTGAAGAAACAAACAAATAGAGAAAAATAATAAA
66 CATATAATGCAAATAAAACCAAACAATAAGTTGGAAGAAACAAACAAATAGAGAAAAATAAT---
* *
8071532 AAAGGAAATATAATATTAAAAAAAAGTAATGAACTACACCTATTACCTAGTTGAAACCCAGCCAA
128 -AAGG----A-AATATTAAAAAAAAGTAATGAACTACACCTATTACCTAGTTAAAACCAAGCCAA
8071597 ATATGCACTCATTTTCCTTTCATTATTGAAATCTAAAAAAAAAAACAAAAAAAATCAATATTATA
187 ATATGCACTCATTTTCCTTTCATTATTGAAATCTAAAAAAAAAAACAAAAAAAATCAATA-TATA
* *
8071662 AAAAGAAAAACAATCCAACACCATCACAAACCTATTTTTAAAACTAAAAAATATAAATAATAAAT
251 AAAAGAAAAACAATCCAACACCAACACAAACCTATTTTTAAAACTAAAAAATATAAATAAAAAAT
** * * *
8071727 AATAAAGGCATAAAATGAATTTACTTATTCATGAGTATGATATGGTTATTATTCTTTCTAGCTTT
316 AATAAAAACATAAAATGAATTTACTTACTCATGAGTATGATATGATTATTATTCTTTCTAACTTT
** * * *
8071792 TACCCATTTTTGTCAAAAATCGTAAACCGTAACCATCAAATACAAAAAAAATGATTGTATTCTTC
381 TACCCATTCCTGTCAAAAATCATAAACCATAACCATCAAATA-AAAAAAAATGATTCTATTCTTC
* * * **
8071857 AATTTCTAATTCTAATAATAATAAATAAAATAACATTTGTGAGAAGATGATGCACTCACTTTATG
445 AATTTCTAATTCTAATAATAACAAATAAAATAACATTGGTGAGAAGATCACACACTCACTTTATG
* *
8071922 AATTCTTTAATTTTATTTTGAGATTTTGATTTCAGCAAATAAAAATTTATTAAGCTCACACATAC
510 AACTCTTTAATTTTATTTTGAGATTTAGATTTCAGCAAATAAAAATTTATTAAGCTCACACATAC
* * *
8071987 ACACACACACATATATATACATGTAGAGTTATGATTAAATTTTAAAAAAAAAAAGATAAATTATG
575 ACAAACACACATATATATACATGTAAAGCTATGATTAAATTTTAAAAAAAAAAAGATAAATTATG
* * *
8072052 ATTTAATATATTTAAATTCAAAATTTATGTAAAATTTTTAATTTTTGATATAGTTTGATTTAAAT
640 ATTTAATATATTTAAATTCAAAATTTATGTAAAACTTTTAATTTTTGATAAAGTTTAATTTAAAT
* * *
8072117 TTAAATAGTTATCCAAAAATATTAAATTTATATAATTTATTAAATAAAATTATTTGAA-A-ATAG
705 TTAAATAATTACCCAAAAATATTAAATTTATATAATTTATTAAATAAAATTATTT-AACACA-AA
8072180 ATAAAAGTTTATTAAGCC-TATATATATTTAGAATTATGATTAAATTAAAAAG-G-TAATTTATA
768 ATAAAAGTTTATTAAGCCATATATATATTTAGAATTATGATTAAATTAAAAAGAGATAATTTATA
* *
8072242 ATTTAATATATTTAAATTTAAAATTTATATAGAATTTTTAATATTTTATAGATTTTGATTTGATC
833 ATTTAATATATTTAAATTTAAAATTTATATAAAATTTTCAATATTTTATAGATTTTGATTTGATC
8072307 AAATATACAATTGAGAACATAGATATAATTTAAATTTCCTATACTTATGCATAGTAAATATCCAA
898 AAATATACAATTGAGAACATAGATATAATTTAAATTTCCTATACTTATGCATAGTAAATATCCAA
8072372 TATATAT
963 TATATAT
* * *
8072379 ATATATATATATATAAACATATGAACCAATTTTTTTTAGAATAAATCAAATCTAAATGTATATAT
1 ATATATATATATATAAACATATGAACCAATTTATTTTAGAATAAATAAAATCTAAATGCATATAT
*
8072444 CATATAATGTAAATAAAACCAAACAA-AATGTTGGAAGAAACAAACAAATAGAGGAAAAA-AAT-
66 CATATAATGCAAATAAAACCAAACAATAA-GTTGGAAGAAACAAACAAATAGA-GAAAAATAATA
* * * * * *
8072506 A-G-AATA-TGAAAAAAA-TAATGAACTATACCTATTACCTAGTTAAAACCAATCTAAATGTGTA
129 AGGAAATATTAAAAAAAAGTAATGAACTACACCTATTACCTAGTTAAAACCAAGCCAAATATGCA
* * * ** *
8072567 CTCATTTTCCTTTCATTATTGAAATCTTAAAAAAAAATC-AATATTAT-AA-A-A-ACAAAGAAA
194 CTCATTTTCCTTTCATTATTGAAATCTAAAAAAAAAAACAAAAAAAATCAATATATAAAAAG-AA
* *
8072627 AAACAATCCAGCACCAACACAAACTTATTTTTAAAACTAAAAAATAATAATAAAAGAAATAAAAG
258 AAACAATCCAACACCAACACAAACCTATTTTTAAAACT--AAAA-AAT-AT-----AAATAAAA-
* * *
8072692 AATAATAAAAACATAAAATGAATTTACTTGCTCATGAGTATGATGTGATTATTATT-TTTCTAAT
313 AATAATAAAAACATAAAATGAATTTACTTACTCATGAGTATGATATGATTATTATTCTTTCTAAC
* ** * * *
8072756 TTTTACCCATTCCTGTGAAACCTCATAAACCATAATCGTCAAAT-AAAAAAAA-GATTCTATTTT
378 TTTTACCCATTCCTGTCAAAAATCATAAACCATAACCATCAAATAAAAAAAAATGATTCTATTCT
* * * * * * * *
8072819 TTAATTTCTAATTCTAATAATAACAAGTAAATTAACATTGGTTAG-GGGTCACACTCTCATTTTA
443 TCAATTTCTAATTCTAATAATAACAAATAAAATAACATTGGTGAGAAGATCACACACTCACTTTA
* * * *
8072883 T-AAGCTCTTTATTTTTATTTTGAGATTTAGATTTTATCAAATAAAAATTTATTAAGCTTACACA
508 TGAA-CTCTTTAATTTTATTTTGAGATTTAGATTTCAGCAAATAAAAATTTATTAAGCTCACACA
* * * * * *
8072947 TACACATATAATATATATATATATATATGTAAAGCTATGATTAAA-TTT-GAAAAGAAAAGATAA
572 TACAC--A-AACACACATATATATACATGTAAAGCTATGATTAAATTTTAAAAAAAAAAAGATAA
*
8073010 ATTATGATTTAGTATATTTAAATTCAAAATTTATGTAAAACTTTTAATTTTTGATAAAGTTTAAT
634 ATTATGATTTAATATATTTAAATTCAAAATTTATGTAAAACTTTTAATTTTTGATAAAGTTTAAT
* *
8073075 TTGAATTTAAATAATTACCCAAAAATATTTAATTTATATAATTTATTAAATAAAATTATTTAACA
699 TTAAATTTAAATAATTACCCAAAAATATTAAATTTATATAATTTATTAAATAAAATTATTTAACA
* *
8073140 GCAAAATAAAAGTTTATTAAGCCTATATATATATATTTGGATTTATGATTAAATTAAAAAGAAAG
764 -CAAAATAAAAGTTTATTAAGCC---ATATATATATTTAGAATTATGATTAAATTAAAAAG--AG
* * *
8073205 ATAGTTTATAATTTAATATATTTGAATTTAAAATTTATGTAAAATTTTCAATATTTTATAGATTT
823 ATAATTTATAATTTAATATATTTAAATTTAAAATTTATATAAAATTTTCAATATTTTATAGATTT
8073270 TGATTTGA
888 TGATTTGA
8073278 ATTTAAATAA
Statistics
Matches: 783, Mismatches: 88, Indels: 60
0.84 0.09 0.06
Matches are distributed among these distances:
957 5 0.01
958 38 0.05
960 5 0.01
961 5 0.01
962 9 0.01
963 150 0.19
964 188 0.24
965 35 0.04
966 30 0.04
967 48 0.06
968 50 0.06
969 32 0.04
971 1 0.00
972 2 0.00
973 67 0.09
976 2 0.00
977 110 0.14
978 6 0.01
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (969 bp):
ATATATATATATATAAACATATGAACCAATTTATTTTAGAATAAATAAAATCTAAATGCATATAT
CATATAATGCAAATAAAACCAAACAATAAGTTGGAAGAAACAAACAAATAGAGAAAAATAATAAG
GAAATATTAAAAAAAAGTAATGAACTACACCTATTACCTAGTTAAAACCAAGCCAAATATGCACT
CATTTTCCTTTCATTATTGAAATCTAAAAAAAAAAACAAAAAAAATCAATATATAAAAAGAAAAA
CAATCCAACACCAACACAAACCTATTTTTAAAACTAAAAAATATAAATAAAAAATAATAAAAACA
TAAAATGAATTTACTTACTCATGAGTATGATATGATTATTATTCTTTCTAACTTTTACCCATTCC
TGTCAAAAATCATAAACCATAACCATCAAATAAAAAAAAATGATTCTATTCTTCAATTTCTAATT
CTAATAATAACAAATAAAATAACATTGGTGAGAAGATCACACACTCACTTTATGAACTCTTTAAT
TTTATTTTGAGATTTAGATTTCAGCAAATAAAAATTTATTAAGCTCACACATACACAAACACACA
TATATATACATGTAAAGCTATGATTAAATTTTAAAAAAAAAAAGATAAATTATGATTTAATATAT
TTAAATTCAAAATTTATGTAAAACTTTTAATTTTTGATAAAGTTTAATTTAAATTTAAATAATTA
CCCAAAAATATTAAATTTATATAATTTATTAAATAAAATTATTTAACACAAAATAAAAGTTTATT
AAGCCATATATATATTTAGAATTATGATTAAATTAAAAAGAGATAATTTATAATTTAATATATTT
AAATTTAAAATTTATATAAAATTTTCAATATTTTATAGATTTTGATTTGATCAAATATACAATTG
AGAACATAGATATAATTTAAATTTCCTATACTTATGCATAGTAAATATCCAATATATAT
Found at i:8073308 original size:27 final size:27
Alignment explanation
Indices: 8073277--8073343 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
8073267 TTTTGATTTG
8073277 AATTTAAATAATTATCCAAACATATTA
1 AATTTAAATAATTATCCAAACATATTA
* *
8073304 AATTTACATAATTATCCAAACATATTT
1 AATTTAAATAATTATCCAAACATATTA
*
8073331 AATGTAAATAATT
1 AATTTAAATAATT
8073344 TATTAAATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.39
Consensus pattern (27 bp):
AATTTAAATAATTATCCAAACATATTA
Found at i:8076561 original size:26 final size:25
Alignment explanation
Indices: 8076524--8076573 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
8076514 AAAATATTAA
8076524 AAATTATGTATTATTAAAATATATTG
1 AAATTATGTATTATTAAAAT-TATTG
* *
8076550 AAATTATTTATTATTAGAATTATT
1 AAATTATGTATTATTAAAATTATT
8076574 AACATTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (25 bp):
AAATTATGTATTATTAAAATTATTG
Found at i:8076628 original size:26 final size:27
Alignment explanation
Indices: 8076599--8076649 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
8076589 TTATATTTTA
**
8076599 ATAATAATATTTAATA-TTAAAATATT
1 ATAATAATATAAAATACTTAAAATATT
8076625 ATAATAATATAAAATACTTAAAATA
1 ATAATAATATAAAATACTTAAAATA
8076650 AAACTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATAATAATATAAAATACTTAAAATATT
Found at i:8076632 original size:19 final size:19
Alignment explanation
Indices: 8076610--8076650 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8076600 TAATAATATT
*
8076610 TAATATTAAAATA-TTATAA
1 TAATA-TAAAATACTTAAAA
8076629 TAATATAAAATACTTAAAA
1 TAATATAAAATACTTAAAA
8076648 TAA
1 TAA
8076651 AACTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATATAAAATACTTAAAA
Found at i:8076734 original size:22 final size:21
Alignment explanation
Indices: 8076672--8076737 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
8076662 TTCTTTGTAT
*
8076672 TAATATTTTAAAATATTTAAAA
1 TAATATTTTATAATA-TTAAAA
* *
8076694 T-AT-TATTACTATTATTAAAA
1 TAATATTTTA-TAATATTAAAA
8076714 TAATATTTTATTAATATTAAAA
1 TAATATTTTA-TAATATTAAAA
8076736 TA
1 TA
8076738 GTAATATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 11 0.31
21 7 0.20
22 17 0.49
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATTTTATAATATTAAAA
Found at i:8077152 original size:18 final size:20
Alignment explanation
Indices: 8077131--8077167 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8077121 TTTAATTAAA
8077131 ATTAA-ATAA-AATATTTTT
1 ATTAATATAATAATATTTTT
8077149 ATTAATATAATAATATTTT
1 ATTAATATAATAATATTTT
8077168 AAGTCGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAATATAATAATATTTTT
Found at i:8077730 original size:18 final size:18
Alignment explanation
Indices: 8077703--8077737 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8077693 TTTTTATTGA
*
8077703 TTAATAAATTATTTTTCG
1 TTAATAAATTAATTTTCG
*
8077721 TTAATCAATTAATTTTC
1 TTAATAAATTAATTTTC
8077738 TACCAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAATAAATTAATTTTCG
Found at i:8080326 original size:217 final size:207
Alignment explanation
Indices: 8079846--8080475 Score: 852
Period size: 217 Copynumber: 3.0 Consensus size: 207
8079836 ACAGATAAGT
* * * *
8079846 AAAAGCTATTACTTTTGAATTTGAAGTTTAATTTAGTTTGTTCATATAATTATTTTTAAATGTAG
1 AAAAGCTATTACTTTTGAATTTGAAATTTAATTTA-ATTGTTCATATAATTATCTTTAAATGTAA
* * *
8079911 CATTCAGCATATCTGAATCTCAAATATTCAATAAATTTGAAACTCAAATTTTAGCTCCTCCAATC
65 CATTAAGCATGTCTGAATCTCAAATATTCAATAAATTTGAAACTAAAATTTTAGCTCCTCC-ATC
* * * * *
8079976 TCTTTTATTAGCCCAAACTATGACCTTT-AAAAAATATA-TATTATTTTGTATGAATTCTATGCC
129 TCTTTTATTAGCCCAAACTGTGA-CTTTAAAAAAAAAAACTATTATTTTGTATGATTTCTACGCC
* *
8080039 AAATGAATACACAAT
193 AAATGAATGCACAAA
* * *
8080054 AAAAGCTATTACTTTTGAATTTGAAATTTAATTTAGTTGGTTCACATACTTATCTTTAAATGTAA
1 AAAAGCTATTACTTTTGAATTTGAAATTTAATTTAATT-GTTCATATAATTATCTTTAAATGTAA
* *
8080119 CATTAAGCATGTCTGAATCTTAAATATTCAATAAATTTGACACTAAAATTTTAGCTCCTCCATCT
65 CATTAAGCATGTCTGAATCTCAAATATTCAATAAATTTGAAACTAAAATTTTAGCTCCTCCATCT
*
8080184 CTTTTATTAGTCCAAACCCAAACTGTGACTTTAAAAAAAAAAAAAACTATTATTTTATATGATTT
130 CTTTTATTAG------CCCAAACTGTGACTTT---AAAAAAAAAAACTATTATTTTGTATGATTT
*
8080249 CTACGCCAATTGAATGCACAAA
186 CTACGCCAAATGAATGCACAAA
* * *
8080271 AAAAGCTATTACTTTTGAATTTAAAATTTAATTTAATTGATTTATATAATTATCTTTAAATGCAA
1 AAAAGCTATTACTTTTGAATTTGAAATTTAATTTAATTG-TTCATATAATTATCTTTAAATGTAA
* *
8080336 CATTTAA-CATGTCTGAATCTCAAATATTCAATAAATTTGAAACTTAAATTTTAGCTCCTCAAAT
65 CA-TTAAGCATGTCTGAATCTCAAATATTCAATAAATTTGAAACTAAAATTTTAGCTCCTC-CAT
*
8080400 CTCTTTTATTAGCCCAAACTGTGACTTTAAAATAAAAAACTATTATTTTGTATGATTTCTACGCC
128 CTCTTTTATTAGCCCAAACTGTGACTTTAAAAAAAAAAACTATTATTTTGTATGATTTCTACGCC
8080465 AAATGAATGCA
193 AAATGAATGCA
8080476 TAGTATCCAA
Statistics
Matches: 374, Mismatches: 33, Indels: 29
0.86 0.08 0.07
Matches are distributed among these distances:
207 16 0.04
208 112 0.30
209 45 0.12
212 20 0.05
213 11 0.03
216 9 0.02
217 143 0.38
218 18 0.05
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (207 bp):
AAAAGCTATTACTTTTGAATTTGAAATTTAATTTAATTGTTCATATAATTATCTTTAAATGTAAC
ATTAAGCATGTCTGAATCTCAAATATTCAATAAATTTGAAACTAAAATTTTAGCTCCTCCATCTC
TTTTATTAGCCCAAACTGTGACTTTAAAAAAAAAAACTATTATTTTGTATGATTTCTACGCCAAA
TGAATGCACAAA
Found at i:8082010 original size:59 final size:58
Alignment explanation
Indices: 8081850--8082387 Score: 410
Period size: 59 Copynumber: 9.1 Consensus size: 58
8081840 TTTGTACAAC
* * * * **
8081850 AAAAATTGATACTTTTAACTTTTCCTT-AAAGTA--TTTGAGAGTTTTTA-TTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTATAAATTTTATTTTTAAG
* *
8081904 AAAAATTGATACTTTCAACTTTTTCTT-AAAATATTTTTCTTGATAATTTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTT-TT-ATAAATTTTATTTTTAAG
* * *
8081964 AAAAATT-AGTACTTCCAACTTTTCCTTAAAATATATATTTTT-T-AATTTTAATTTCAAG
1 AAAAATTGA-TACTTTCAACTTTTCCTTAAAA-ATAT-TTTTTATAAATTTTATTTTTAAG
* * *
8082022 AAAAATTGATACTTTCAACTTTT-TTTCAAAATACTTTTCTTCATAATTTTTATTTTTTAA-
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTT-TT-ATAAATTTTA-TTTTTAAG
* * * *
8082082 AAAAATTAATACTTTCAACACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAATTTTATTTTCA
1 AAAAATTGATACTTTCAAC-TTTTC--C-----TT-AAAAATATTTTTTATAAATTTTATTTTTA
8082147 A-
57 AG
* * * *
8082148 AGAAAATTGATACTTTCAACTTTTTCGTAAAAATATTTTTTA-AACCTTTTTATTTTCAA-
1 A-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTATAA--ATTTTATTTTTAAG
* * * *
8082207 AGGAAATTGATACTTTCAACTTTTTCTCAAAAATATGTTATTT-TAAATTTTATTTTCAAG
1 A-AAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TT-TTTATAAATTTTATTTTTAAG
* * * *
8082267 AAAAATTGATACTTTTAACTTTTTCC-CAGAAATATTTTTTTAAAAATTTTATTTTTAA-
1 AAAAATTGATACTTTCAAC-TTTTCCTTAAAAATA-TTTTTTATAAATTTTATTTTTAAG
* *
8082325 AGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTA-TTTT-AG
1 A-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTATAAATTTTATTTTTAAG
8082382 AAAAAT
1 AAAAAT
8082388 CATTGAAAAA
Statistics
Matches: 403, Mismatches: 41, Indels: 78
0.77 0.08 0.15
Matches are distributed among these distances:
54 30 0.07
56 12 0.03
57 17 0.04
58 73 0.18
59 133 0.33
60 63 0.16
61 19 0.05
62 6 0.01
64 1 0.00
66 10 0.02
67 25 0.06
68 2 0.00
69 6 0.01
70 6 0.01
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTATAAATTTTATTTTTAAG
Done.