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 29 of 133
Found at i:6828742 original size:55 final size:53
Alignment explanation
Indices: 6828587--6828768 Score: 172
Period size: 55 Copynumber: 3.2 Consensus size: 53
6828577 ATTAATATGT
6828587 TTATTTGCATGATTATATATTTAATTACATGTTTATTTGCATGATTATATATTTAATTA
1 TTATTTGCATGATTATATA-TTAATT-CATGTTTATTTGCATGATT-TATA--T-ATTA
* * * *
6828646 CATATTTTGCATGGTTTATATATT-ATT-AT-TTACATGATTGCATGATTTATGTATTA
1 -TTA-TTTGCAT-GATTATATATTAATTCATGTT-TAT--TTGCATGATTTATATATTA
*
6828702 TTATTTTCATGATTATATATCTAATTGCATGTTTATTTGCATGATTTATATATTA
1 TTATTTGCATGATTATATAT-TAATT-CATGTTTATTTGCATGATTTATATATTA
6828757 TTATTTGCATGA
1 TTATTTGCATGA
6828769 ATGGTTATTA
Statistics
Matches: 102, Mismatches: 10, Indels: 25
0.74 0.07 0.18
Matches are distributed among these distances:
53 9 0.09
54 7 0.07
55 34 0.33
56 4 0.04
57 7 0.07
58 6 0.06
59 3 0.03
60 15 0.15
61 9 0.09
62 8 0.08
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (53 bp):
TTATTTGCATGATTATATATTAATTCATGTTTATTTGCATGATTTATATATTA
Found at i:6828761 original size:23 final size:24
Alignment explanation
Indices: 6828734--6828804 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
6828724 AATTGCATGT
6828734 TTATTTGCATGAT-TTATATATTA
1 TTATTTGCATGATGTTATATATTA
*
6828757 TTATTTGCATGAATGGTTAT-TAATA
1 TTATTTGCATG-AT-GTTATATATTA
* *
6828782 -TATTTGCATGATATTTTATATTA
1 TTATTTGCATGATGTTATATATTA
6828805 CTGCATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.08
23 17 0.43
24 12 0.30
25 4 0.10
26 4 0.10
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (24 bp):
TTATTTGCATGATGTTATATATTA
Found at i:6828817 original size:36 final size:34
Alignment explanation
Indices: 6828775--6828876 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 34
6828765 ATGAATGGTT
6828775 ATTAATATATTTGCATGATATTTTATATTAC-TG
1 ATTAATATATTTGCATGATATTTTATATTACATG
*
6828808 CATAATAATATATTTGCATGATATTATATATTTACATG
1 -AT--TAATATATTTGCATGATATTTTATA-TTACATG
*
6828846 ATTAATATATTTGCATAATAATTATTATATT
1 ATTAATATATTTGCATGAT-ATT-TTATATT
6828877 TGCATGACAT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
34 2 0.03
35 16 0.27
36 29 0.49
37 10 0.17
38 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (34 bp):
ATTAATATATTTGCATGATATTTTATATTACATG
Found at i:6828874 original size:20 final size:18
Alignment explanation
Indices: 6828774--6828881 Score: 96
Period size: 18 Copynumber: 5.9 Consensus size: 18
6828764 CATGAATGGT
*
6828774 TATTAATATATTTGCATGA
1 TATT-ATATATTTGCATAA
*
6828793 TATTTTATATTACTGCATAA
1 TATTATATATT--TGCATAA
*
6828813 TA--ATATATTTGCATGA
1 TATTATATATTTGCATAA
* *
6828829 TATTATATATTTACATGA
1 TATTATATATTTGCATAA
*
6828847 T-TAATATATTTGCATAA
1 TATTATATATTTGCATAA
6828864 TAATTATTATATTTGCAT
1 T-ATTA-TATATTTGCAT
6828882 GACATTCTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
16 8 0.11
17 14 0.19
18 26 0.36
19 6 0.08
20 19 0.26
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.49
Consensus pattern (18 bp):
TATTATATATTTGCATAA
Found at i:6836007 original size:43 final size:42
Alignment explanation
Indices: 6835959--6836101 Score: 121
Period size: 49 Copynumber: 3.2 Consensus size: 42
6835949 GTGAAAGGGA
6835959 AGCATTTTATTTTTCAAAAGTTTCAAAGTCTCAGTTATGGGGG
1 AGCATTTTATTTTTCAAAAGTTTCAAAG-CTCAGTTATGGGGG
* * *
6836002 AGCATTTTATTTTAATTTTCCAAAAGTTTCAATGCCTCAGTTATAGGGA
1 AGCATTTTA---T--TTTT-CAAAAGTTTCAAAG-CTCAGTTATGGGGG
* *
6836051 AGCATTTTA-TTTTCTAAAAG-TTCTAAAGCTTTAGTTGTGGGGG
1 AGCATTTTATTTTTC-AAAAGTTTC-AAAGC-TCAGTTATGGGGG
6836094 AGC-TTTTA
1 AGCATTTTA
6836102 AGATTTTCTT
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
42 10 0.12
43 33 0.40
46 1 0.01
48 4 0.05
49 34 0.41
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (42 bp):
AGCATTTTATTTTTCAAAAGTTTCAAAGCTCAGTTATGGGGG
Found at i:6836033 original size:49 final size:48
Alignment explanation
Indices: 6835962--6836063 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 48
6835952 AAAGGGAAGC
* * * *
6835962 ATTTTATTTTTCAAAAGTTTCAAAGTCTCAGTTATGGGGGAGCATTTT
1 ATTTTATTTTCCAAAAGTTTCAAAGCCTCAGTTATAGGGAAGCATTTT
*
6836010 ATTTTAATTTTCCAAAAGTTTCAATGCCTCAGTTATAGGGAAGCATTTT
1 ATTTT-ATTTTCCAAAAGTTTCAAAGCCTCAGTTATAGGGAAGCATTTT
6836059 ATTTT
1 ATTTT
6836064 CTAAAAGTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 5 0.10
49 43 0.90
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (48 bp):
ATTTTATTTTCCAAAAGTTTCAAAGCCTCAGTTATAGGGAAGCATTTT
Found at i:6836347 original size:25 final size:25
Alignment explanation
Indices: 6836319--6836366 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6836309 TTAAGCCCTA
*
6836319 AATTTTATTTATAT-TTTAATTTTTT
1 AATTTAATTT-TATGTTTAATTTTTT
*
6836344 AATTTAATTTTTTGTTTAATTTT
1 AATTTAATTTTATGTTTAATTTT
6836367 AGTTCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
AATTTAATTTTATGTTTAATTTTTT
Found at i:6836351 original size:13 final size:12
Alignment explanation
Indices: 6836333--6836366 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
6836323 TTATTTATAT
6836333 TTTAATTTTTTAA
1 TTTAATTTTTT-A
*
6836346 TTTAATTTTTTG
1 TTTAATTTTTTA
6836358 TTTAATTTT
1 TTTAATTTT
6836367 AGTTCTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:6836790 original size:18 final size:19
Alignment explanation
Indices: 6836751--6836799 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
6836741 GCAAAGTTTT
* *
6836751 AAATCAA-CAAGAAAGAAG
1 AAATCAAGCAAGAAAAAAA
6836769 AAATCAAGCAA-AAAAAAA
1 AAATCAAGCAAGAAAAAAA
6836787 AAATGCAAG-AAGA
1 AAAT-CAAGCAAGA
6836800 TCTAGTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.69, C:0.10, G:0.14, T:0.06
Consensus pattern (19 bp):
AAATCAAGCAAGAAAAAAA
Found at i:6837076 original size:17 final size:17
Alignment explanation
Indices: 6837056--6837091 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6837046 AATATATTTG
6837056 TTTGCATGATTAATATA
1 TTTGCATGATTAATATA
* *
6837073 TTTGCATGGTTTATATA
1 TTTGCATGATTAATATA
6837090 TT
1 TT
6837092 ATTATTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (17 bp):
TTTGCATGATTAATATA
Found at i:6837097 original size:23 final size:23
Alignment explanation
Indices: 6837071--6837180 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 23
6837061 ATGATTAATA
*
6837071 TATTTGCATGGTTTATATATTAT
1 TATTTGCATGATTTATATATTAT
* *
6837094 TATTTACATGATTGCATGATTTATGTGTTAT
1 TATTTGCATGATT---T-A--TA--TATTAT
6837125 TATTTGCATGA-TTATATA-TATT
1 TATTTGCATGATTTATATATTA-T
*
6837147 TAATTGCATGATTTATATATTAT
1 TATTTGCATGATTTATATATTAT
6837170 TATTTGCATGA
1 TATTTGCATGA
6837181 ATGGTTATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
21 2 0.03
22 12 0.17
23 29 0.42
24 4 0.06
26 2 0.03
27 2 0.03
29 2 0.03
30 1 0.01
31 15 0.22
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (23 bp):
TATTTGCATGATTTATATATTAT
Found at i:6837111 original size:31 final size:31
Alignment explanation
Indices: 6837074--6837137 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
6837064 ATTAATATAT
*
6837074 TTGCATGGTTTATATATTATTATTTACATGA
1 TTGCATGATTTATATATTATTATTTACATGA
* * *
6837105 TTGCATGATTTATGTGTTATTATTTGCATGA
1 TTGCATGATTTATATATTATTATTTACATGA
6837136 TT
1 TT
6837138 ATATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTATTTACATGA
Found at i:6837952 original size:17 final size:18
Alignment explanation
Indices: 6837912--6837952 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
6837902 TATTATCATA
*
6837912 TAATTATTTTGATTGATG
1 TAATGATTTTGATTGATG
*
6837930 T-TTGATTTTGATTGAT-
1 TAATGATTTTGATTGATG
6837946 TAATGAT
1 TAATGAT
6837953 ATTATATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.89
18 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (18 bp):
TAATGATTTTGATTGATG
Found at i:6838196 original size:20 final size:21
Alignment explanation
Indices: 6838159--6838211 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
6838149 CTAGATGTTG
* * *
6838159 AAAAATTATTAAATATTAA-A
1 AAAAATAATAAAAGATTAACA
6838179 AAAAATAATAAAAGATTAACA
1 AAAAATAATAAAAGATTAACA
*
6838200 AATAATAATAAA
1 AAAAATAATAAA
6838212 TTTTTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAATAATAAAAGATTAACA
Found at i:6838345 original size:13 final size:13
Alignment explanation
Indices: 6838325--6838369 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
6838315 CGTAAAATTT
6838325 TAAAACCCTAAAA
1 TAAAACCCTAAAA
* *
6838338 TGAAACCCTAAAG
1 TAAAACCCTAAAA
6838351 TAAAACCCTAAAA
1 TAAAACCCTAAAA
*
6838364 CAAAAC
1 TAAAAC
6838370 ACTAGAACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.58, C:0.24, G:0.04, T:0.13
Consensus pattern (13 bp):
TAAAACCCTAAAA
Found at i:6845623 original size:137 final size:137
Alignment explanation
Indices: 6845374--6845642 Score: 405
Period size: 137 Copynumber: 2.0 Consensus size: 137
6845364 GTATTTCTTA
** **
6845374 ACATGGACAAGAATCATGTGGCTTTGGTGTTAGTGTTTAATTTAATGTGCCAATCACAACAATAA
1 ACATGGACAAGAATCATGTGGCTTTGGTGTTAGTGTTTAATGCAATGTAACAATCACAACAATAA
* * * *
6845439 TCGTATTTTAAAACCCTGTCCCGAACTCTCTCCATTATTTTATTCAAAAGAATCATTAAAAAAAG
66 TCATATTTTAAAACCCTGTCCCCAACTCTCCCCATTATTTTAATCAAAAGAATCATTAAAAAAAG
6845504 TGATAGT
131 TGATAGT
* * *
6845511 ACATGGACAGGAATCATGTGGTTTTGGTGTTTGTGTTTAATGCAATGTAACAATCACAACAATAA
1 ACATGGACAAGAATCATGTGGCTTTGGTGTTAGTGTTTAATGCAATGTAACAATCACAACAATAA
* *
6845576 TCATATTTTAAAACCCAT-TCCCCAGCTCTCCCCATTATTTTAATCAAAATAATCATTAAAAAAA
66 TCATATTTTAAAACCC-TGTCCCCAACTCTCCCCATTATTTTAATCAAAAGAATCATTAAAAAAA
6845640 GTG
130 GTG
6845643 CTGTGCTGTG
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
137 117 0.99
138 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (137 bp):
ACATGGACAAGAATCATGTGGCTTTGGTGTTAGTGTTTAATGCAATGTAACAATCACAACAATAA
TCATATTTTAAAACCCTGTCCCCAACTCTCCCCATTATTTTAATCAAAAGAATCATTAAAAAAAG
TGATAGT
Found at i:6845939 original size:11 final size:11
Alignment explanation
Indices: 6845923--6845953 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6845913 TATAATAATA
6845923 TTTAAATTATT
1 TTTAAATTATT
6845934 TTTAAATTATT
1 TTTAAATTATT
*
6845945 TTAAAATTA
1 TTTAAATTA
6845954 AATAGAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAAATTATT
Found at i:6849061 original size:2 final size:2
Alignment explanation
Indices: 6849054--6849116 Score: 60
Period size: 2 Copynumber: 32.5 Consensus size: 2
6849044 AGCTAGATTT
* * **
6849054 TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA TC TA GC TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
6849095 -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
6849117 GTTTCTTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
1 3 0.06
2 46 0.92
3 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:6850540 original size:59 final size:58
Alignment explanation
Indices: 6850477--6850873 Score: 468
Period size: 58 Copynumber: 6.7 Consensus size: 58
6850467 CTTGTGCAGA
* *
6850477 AAAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTTGAAACTTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTGAAA-TTTTATTTTTAAG
* *
6850536 AAAAATTGATACTTTCAAC-TTTT-CTCTAAAAATATTTTTTTGAAAATTTCTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCCTC-AAAAATA-TTTTTTGAAATTTTATTTTTAAG
* *
6850594 GAAAATTGATACTTTCAAC-TTTTCCCCAAAAATATTTTTTTTGGAAA-TTTATTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATA--TTTTTT-GAAATTTTA-TTTTTAAG
* * *
6850654 AAAAATTGATACTTTCAACTTTTT-TTCAAAAATATTTTTTTAAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATA-TTTTTTGAAATTTTATTTTTAAG
* * * *
6850712 GAAAATTGATACTTTCAACTTTTT-TTCAAAAATATTTTTTGAAAACTTTGATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTG-AAA-TTTTATTTTTAAG
*
6850771 AAAAATTGATACTTTCAA-TTTTTCCTCAAAAACTCTTTTTTTTCTTGAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAA-----TATTTT-TTGAAATTTTATTTTTAAG
6850834 AAAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTT
6850874 TTATTTTTAT
Statistics
Matches: 298, Mismatches: 22, Indels: 38
0.83 0.06 0.11
Matches are distributed among these distances:
57 10 0.03
58 107 0.36
59 86 0.29
60 38 0.13
61 4 0.01
63 37 0.12
64 13 0.04
65 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTGAAATTTTATTTTTAAG
Found at i:6850599 original size:58 final size:59
Alignment explanation
Indices: 6850477--6850874 Score: 499
Period size: 59 Copynumber: 6.7 Consensus size: 59
6850467 CTTGTGCAGA
* * *
6850477 AAAAATTGATACTTTCAACTTTT-TCCCCAAAAATA-TTTTTTGAAACTTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCT-CTCAAAAATATTTTTTTGAAA-ATTTATTTTTAAG
*
6850536 AAAAATTGATACTTTCAACTTTTCTCT-AAAAATATTTTTTTGAAAATTTCTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
* * *
6850594 GAAAATTGATACTTTCAACTTTTC-CCCAAAAATATTTTTTTTGGAAATTTATTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTCTCAAAAATA-TTTTTTTGAAAATTTA-TTTTTAAG
* *
6850654 AAAAATTGATACTTTCAACTTTT-TTTCAAAAATATTTTTTTAAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
* * *
6850712 GAAAATTGATACTTTCAACTTTT-TTTCAAAAATA-TTTTTTGAAAACTTTGATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAA-TTT-ATTTTTAAG
* * *
6850771 AAAAATTGATACTTTCAATTTTTC-CTCAAAAACTCTTTTTTTTCTTGAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTCTCAAAAA----TATTTTT-TTGAAAATTTATTTTTAAG
6850834 AAAAATTGATACTTTCAACTTTT-TCTCAAAAATATTTTTTT
1 AAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTT
6850875 TATTTTTATT
Statistics
Matches: 299, Mismatches: 24, Indels: 33
0.84 0.07 0.09
Matches are distributed among these distances:
57 11 0.04
58 93 0.31
59 104 0.35
60 39 0.13
63 39 0.13
64 7 0.02
65 6 0.02
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
Found at i:6850684 original size:27 final size:27
Alignment explanation
Indices: 6850654--6850744 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 27
6850644 ATTTTTTAAG
6850654 AAAAATTGATACTTTCAACTTTTTTTC
1 AAAAATTGATACTTTCAACTTTTTTTC
** * * *
6850681 AAAAA-T-ATTTTTTTAAAAATTTATTTTTA
1 AAAAATTGA-TACTTT--CAACTT-TTTTTC
6850710 AGGAAAATTGATACTTTCAACTTTTTTTC
1 A--AAAATTGATACTTTCAACTTTTTTTC
6850739 AAAAAT
1 AAAAAT
6850745 ATTTTTTGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 10 0.22
28 4 0.09
29 12 0.26
30 4 0.09
31 4 0.09
32 5 0.11
33 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTTTC
Found at i:6850707 original size:14 final size:14
Alignment explanation
Indices: 6850673--6850710 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
6850663 TACTTTCAAC
6850673 TTTTTTTCAAAAATA
1 TTTTTTT-AAAAATA
6850688 TTTTTTTAAAAAT-
1 TTTTTTTAAAAATA
6850701 TTATTTTTAA
1 TT-TTTTTAA
6850711 GGAAAATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 13 0.59
15 7 0.32
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTTTAAAAATA
Found at i:6850936 original size:6 final size:6
Alignment explanation
Indices: 6850908--6850984 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
6850898 ATAATGAAAC
* * * * *
6850908 AAAATA AAAGTG AAAAT- -AAATA AAAATA AAAA-A TAAAGA AAAGT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
6850952 AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
6850985 GAATATTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 38 0.70
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:6850940 original size:17 final size:17
Alignment explanation
Indices: 6850920--6850972 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
6850910 AATAAAAGTG
6850920 AAAATAAATAAAAATAA
1 AAAATAAATAAAAATAA
* *
6850937 AAAATAAAGAAAAGTAA
1 AAAATAAATAAAAATAA
6850954 AACAA-AAATAAAAATAA
1 AA-AATAAATAAAAATAA
6850971 AA
1 AA
6850973 TAAAGATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 29 0.94
18 2 0.06
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:6850981 original size:17 final size:17
Alignment explanation
Indices: 6850927--6850984 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
6850917 GTGAAAATAA
6850927 ATAAAAATAAAAAATAAAG
1 ATAAAAAT--AAAATAAAG
* * *
6850946 --AAAAGTAAAACAAAA
1 ATAAAAATAAAATAAAG
6850961 ATAAAAATAAAATAAAG
1 ATAAAAATAAAATAAAG
6850978 ATAAAAA
1 ATAAAAA
6850985 GAATATTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.23
17 24 0.77
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (17 bp):
ATAAAAATAAAATAAAG
Found at i:6851014 original size:4 final size:4
Alignment explanation
Indices: 6851007--6851048 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
6850997 AACCCACTCT
*
6851007 AATA AATA AA-A AATA AATA AATA AACA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
6851049 TCAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:6851917 original size:9 final size:9
Alignment explanation
Indices: 6851854--6851898 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
6851844 CCAGCCAGAT
6851854 AAATAAAAA
1 AAATAAAAA
*
6851863 AAATAATAA
1 AAATAAAAA
*
6851872 TAATAAAAA
1 AAATAAAAA
6851881 AAATCAAAAGA
1 AAAT-AAAA-A
6851892 AAATAAA
1 AAATAAA
6851899 TCAGATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 18 0.60
10 7 0.23
11 5 0.17
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
AAATAAAAA
Found at i:6852072 original size:11 final size:11
Alignment explanation
Indices: 6852058--6852116 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
6852048 ATATATATAT
6852058 AAAATAAAAATA
1 AAAAT-AAAATA
6852070 AAAATAAAATA
1 AAAATAAAATA
* *
6852081 GAAATAGAATA
1 AAAATAAAATA
* *
6852092 AAAATAATAGA
1 AAAATAAAATA
6852103 ATAAAT-AAATA
1 A-AAATAAAATA
6852114 AAA
1 AAA
6852117 CATATACCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 2 0.05
11 27 0.71
12 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:6852116 original size:22 final size:21
Alignment explanation
Indices: 6852065--6852111 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
6852055 TATAAAATAA
6852065 AAATAAAAATAAAATAGAAAT
1 AAATAAAAATAAAATAGAAAT
6852086 AGAATAAAAAT--AATAG-AAT
1 A-AATAAAAATAAAATAGAAAT
6852105 AAATAAA
1 AAATAAA
6852112 TAAAACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.24
19 4 0.16
20 5 0.20
21 1 0.04
22 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (21 bp):
AAATAAAAATAAAATAGAAAT
Found at i:6852386 original size:43 final size:41
Alignment explanation
Indices: 6852325--6852622 Score: 328
Period size: 41 Copynumber: 7.1 Consensus size: 41
6852315 TTTGACCAAA
* * * *
6852325 GCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGA-AAA-ATAAATT
* * *
6852368 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTG--AAAAATAAATT
* *
6852411 GCTCCTCTAAACAGAGGCACTACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
* * *
6852452 GTTCCTCTAAACAGAGACACAACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGAC-TTTGAAAAATAAATT
* * *
6852494 GCTTCTCTAAACAGAGGGACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
* *
6852535 GCTCCTCTAAACAGAGGCACCACGATTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-AAAAATAAATT
* * * * * *
6852577 GCTTCTCTAAATAAAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
6852618 G-TCCT
1 GCTCCT
6852623 TTGACAATCA
Statistics
Matches: 223, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.01
41 84 0.38
42 73 0.33
43 59 0.26
44 3 0.01
45 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
Found at i:6852519 original size:83 final size:83
Alignment explanation
Indices: 6852329--6852619 Score: 332
Period size: 83 Copynumber: 3.5 Consensus size: 83
6852319 ACCAAAGCTC
* * * * * * * * * * * *
6852329 CTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAACAAC
1 CTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATTGTTCCTCTAAACAGAGACACAACGAT
*
6852394 TTTGAAAAAAATAAATTGCTC
64 TTTG-AAAAAATAAATTGCTT
*
6852415 CTCTAAACAGAGGCACTACGACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGACACAACGACTT
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGACACAACGA-TT
*
6852480 TTG-AAAAGTAAATTGCTT
65 TTGAAAAAATAAATTGCTT
* * * * *
6852498 CTCTAAACAGAGGGACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGATTT
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGACACAACGATTT
6852563 TGAAAAAATAAATTGCTT
66 TGAAAAAATAAATTGCTT
* * *
6852581 CTCTAAATAAAGGCACCACGACTTTGGAAAGTAAATTGT
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGT
6852620 CCTTTGACAA
Statistics
Matches: 176, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
82 5 0.03
83 116 0.66
84 25 0.14
85 7 0.04
86 23 0.13
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (83 bp):
CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGACACAACGATTT
TGAAAAAATAAATTGCTT
Found at i:6853903 original size:20 final size:21
Alignment explanation
Indices: 6853875--6853916 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6853865 CTTTTTTTCA
*
6853875 TTTTCTCA-TTTTTTCTTTTT
1 TTTTATCACTTTTTTCTTTTT
6853895 TTTTATCATCTTTTTTCTTTTT
1 TTTTATCA-CTTTTTTCTTTTT
6853917 GCTCGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATCACTTTTTTCTTTTT
Found at i:6857841 original size:59 final size:58
Alignment explanation
Indices: 6857778--6858171 Score: 505
Period size: 59 Copynumber: 6.7 Consensus size: 58
6857768 TTGTGCAGGG
*
6857778 AAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTT-GAAACTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTTGGAAA--TTTATTTTTAAGA
*
6857837 AAAATTGATACTTTCAAC-TTTTCCCCAAAAATCTTTTTTTTGGAAATTTATTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCCCAAAAA--TATTTTTTGGAAATTTA-TTTTTAAGA
* * *
6857897 AAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTTTTGGAAATTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTTAAGA
* * *
6857956 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTTTAAGA
*
6858014 AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTTTGGAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTTAAGA
* * *
6858074 AAAATTGATACTTTTAACTTTTT-TCCAAAAATATTTTTTGGAAACTTTGATTTTCAA-A
1 AAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTTTAAGA
*
6858132 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTT
1 -AAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTT
6858172 TGATTTTTAT
Statistics
Matches: 300, Mismatches: 21, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
57 11 0.04
58 67 0.22
59 114 0.38
60 100 0.33
61 8 0.03
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGA
Found at i:6858073 original size:177 final size:179
Alignment explanation
Indices: 6857776--6858174 Score: 650
Period size: 177 Copynumber: 2.2 Consensus size: 179
6857766 TCTTGTGCAG
* *
6857776 GGAAAATTGATACTTTCAACTTTTTCCCCAAAAATA-TTTTTTGAAACTTTTATTTTCAAGAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAACATTTATTTTCAAGAAAA
* *
6857840 ATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTGGAAATTTATTTTTTAAGAAAAATTGA
65 ATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGGAAATTTATTTTTTAAGAAAAATTGA
6857905 TACTTTCAACTTTTTTCCAAAAATATTTTTTTTGGAAA-TTT-ATTTT-AAA
130 TACTTTCAACTTTTTTCCAAAAATA--TTTTTTGGAAACTTTGATTTTCAAA
* *
6857954 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-ATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACATTTATTTTCAAGAAAAA
6858018 TTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTTTGGAAATTTA-TTTTTAAGAAAAATTGA
66 TTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTTTGGAAATTTATTTTTTAAGAAAAATTGA
*
6858082 TACTTTTAACTTTTTTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAA
130 TACTTTCAACTTTTTTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAA
6858132 -GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGA
6858175 TTTTTATTTA
Statistics
Matches: 209, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
175 11 0.05
176 3 0.01
177 132 0.63
178 63 0.30
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (179 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACATTTATTTTCAAGAAAAA
TTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGGAAATTTATTTTTTAAGAAAAATTGAT
ACTTTCAACTTTTTTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAA
Found at i:6858232 original size:6 final size:6
Alignment explanation
Indices: 6858206--6858282 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
6858196 ATAATGAAAC
* * * * *
6858206 AAAATA AAAATG GAAAT- -AAATA AAAATA AAAA-A TAAAGA AAAGT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
6858250 AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
6858283 GAATATTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 39 0.71
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:6858239 original size:17 final size:17
Alignment explanation
Indices: 6858219--6858270 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
6858209 ATAAAAATGG
6858219 AAATAAATAAAAATAAA
1 AAATAAATAAAAATAAA
* *
6858236 AAATAAAGAAAAGTAAA
1 AAATAAATAAAAATAAA
6858253 ACAA-AAATAAAAATAAA
1 A-AATAAATAAAAATAAA
6858270 A
1 A
6858271 TAAAGATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 28 0.93
18 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (17 bp):
AAATAAATAAAAATAAA
Found at i:6858279 original size:17 final size:17
Alignment explanation
Indices: 6858225--6858282 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
6858215 ATGGAAATAA
6858225 ATAAAAATAAAAAATAAAG
1 ATAAAAAT--AAAATAAAG
* * *
6858244 --AAAAGTAAAACAAAA
1 ATAAAAATAAAATAAAG
6858259 ATAAAAATAAAATAAAG
1 ATAAAAATAAAATAAAG
6858276 ATAAAAA
1 ATAAAAA
6858283 GAATATTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.23
17 24 0.77
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (17 bp):
ATAAAAATAAAATAAAG
Found at i:6858861 original size:23 final size:23
Alignment explanation
Indices: 6858834--6858885 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
6858824 CGGAATCTGG
* *
6858834 AAATTTT-TCAAAAATTTCTAGAA
1 AAATTTTCCCAAAAATCTCTA-AA
6858857 AAATTTTCGCCAAAAATCTCTAAA
1 AAATTTTC-CCAAAAATCTCTAAA
6858881 AAATT
1 AAATT
6858886 ATTTTCGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 7 0.28
25 11 0.44
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATTTTCCCAAAAATCTCTAAA
Found at i:6859209 original size:21 final size:21
Alignment explanation
Indices: 6859142--6859212 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
6859132 AATCTCCAGT
6859142 CAGATAAAT-AAAAATAA-TAA
1 CAGATAAATCAAAAA-AATTAA
* * * *
6859162 TAAAAAAATCAAAAAAAATAAA
1 CAGATAAATC-AAAAAAATTAA
6859184 TCAGATAAATCAAAAAAATTAA
1 -CAGATAAATCAAAAAAATTAA
6859206 CAGATAA
1 CAGATAA
6859213 TTAAACTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
20 6 0.15
21 9 0.23
22 17 0.44
23 7 0.18
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.18
Consensus pattern (21 bp):
CAGATAAATCAAAAAAATTAA
Found at i:6859353 original size:5 final size:5
Alignment explanation
Indices: 6859343--6859435 Score: 68
Period size: 5 Copynumber: 18.2 Consensus size: 5
6859333 ATATATATAT
* *
6859343 ATAAA ATAAAA ATAAAA ATAAA ATAGAA ATAGA ATAAA A-ATA ATAAA
1 ATAAA AT-AAA AT-AAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA
* *
6859390 AT-AA ATAAA AAATAA ATAAAA ACGAAA ATAAA AT-AA AT-AA ATAAA
1 ATAAA ATAAA ATA-AA AT-AAA A-TAAA ATAAA ATAAA ATAAA ATAAA
6859435 A
1 A
6859436 CATATACCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
4 15 0.21
5 30 0.42
6 26 0.36
7 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:6859354 original size:6 final size:6
Alignment explanation
Indices: 6859308--6859426 Score: 72
Period size: 6 Copynumber: 20.3 Consensus size: 6
6859298 GTAAATAGCT
* * *
6859308 AAAATA AAAA-A AAAAGA AGAAA-A AAATATA TATATA TAAAATA AAAATA
1 AAAATA AAAATA AAAATA A-AAATA AAA-ATA AAAATA -AAAATA AAAATA
* * *
6859357 AAAAT- AAAATA GAAAT- AGAATA AAAATA ATAAA-A TAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA
* **
6859402 TAAATA AAAACG AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
6859427 TAAATAAAAC
Statistics
Matches: 87, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
5 27 0.31
6 48 0.55
7 12 0.14
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:6859359 original size:11 final size:11
Alignment explanation
Indices: 6859308--6859426 Score: 75
Period size: 11 Copynumber: 10.2 Consensus size: 11
6859298 GTAAATAGCT
*
6859308 AAAATAAAAAA
1 AAAATAAAATA
*
6859319 AAAAGAAGAA-A
1 AAAATAA-AATA
6859330 AAAATATATATATA
1 AAAATA-A-A-ATA
6859344 TAAAATAAAAATA
1 -AAAAT-AAAATA
6859357 AAAATAAAATA
1 AAAATAAAATA
* *
6859368 GAAATAGAATA
1 AAAATAAAATA
6859379 AAAATAATAA-A
1 AAAATAA-AATA
6859390 ATAAATAAAA-A
1 A-AAATAAAATA
6859401 ATAAATAAAA-A
1 A-AAATAAAATA
6859412 CGAAAATAAAATA
1 --AAAATAAAATA
6859425 AA
1 AA
6859427 TAAATAAAAC
Statistics
Matches: 90, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
11 50 0.56
12 25 0.28
13 6 0.07
14 2 0.02
15 6 0.07
16 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:6859359 original size:28 final size:28
Alignment explanation
Indices: 6859328--6859435 Score: 82
Period size: 28 Copynumber: 3.9 Consensus size: 28
6859318 AAAAAGAAGA
* * *
6859328 AAAAAATATATATATATAAAATAAAAAT
1 AAAAAATAAATAGAAATAAAATAAAAAT
*
6859356 -AAAAATAAAATAGAAATAGAATAAAAAT
1 AAAAAAT-AAATAGAAATAAAATAAAAAT
*
6859384 AATAAAATAAATA-AAAAATAAATAAAAA-
1 AA-AAAATAAATAGAAATA-AAATAAAAAT
** *
6859412 CGAAAATAAA-ATAAAT-AAATAAAA
1 AAAAAATAAATAGAAATAAAATAAAA
6859436 CATATACCTA
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
25 8 0.12
26 1 0.02
27 17 0.26
28 21 0.32
29 14 0.21
30 5 0.08
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAAAATAAATAGAAATAAAATAAAAAT
Found at i:6860246 original size:2 final size:2
Alignment explanation
Indices: 6860239--6860267 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6860229 CATGCCAGAT
6860239 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 T
6860268 TATTTGGCAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6861719 original size:16 final size:16
Alignment explanation
Indices: 6861675--6861728 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
6861665 GTTAAGTATA
6861675 AATATATGTTTTATTATT
1 AATATAT-TTTTA-TATT
* *
6861693 AATTTAATTTTATATT
1 AATATATTTTTATATT
* *
6861709 TATATATTTTTTTATT
1 AATATATTTTTATATT
6861725 AATA
1 AATA
6861729 AAATTATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 19 0.66
17 5 0.17
18 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
AATATATTTTTATATT
Found at i:6862082 original size:29 final size:30
Alignment explanation
Indices: 6862050--6862118 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
6862040 TCTTTATTTA
*
6862050 TTTTATATATATTAT-A-TTAATAAAGTTAT
1 TTTTATATATATTATAATTTAATAAA-ATAT
*
6862079 TTTT-TA-ATATTTTAATTTAATAAAATAT
1 TTTTATATATATTATAATTTAATAAAATAT
6862107 TATTTATATATA
1 T-TTTATATATA
6862119 ATTAAGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
27 6 0.18
28 7 0.21
29 15 0.45
30 2 0.06
31 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTTATATATATTATAATTTAATAAAATAT
Found at i:6862521 original size:13 final size:13
Alignment explanation
Indices: 6862503--6862528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6862493 ACATAGCTCC
6862503 CATTTGTTTATTT
1 CATTTGTTTATTT
6862516 CATTTGTTTATTT
1 CATTTGTTTATTT
6862529 TTTTAATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CATTTGTTTATTT
Found at i:6863358 original size:25 final size:25
Alignment explanation
Indices: 6863316--6863367 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
6863306 ATTATGGTAA
* *
6863316 AAGAGATATTTTAGTAATTTT-ATT
1 AAGAGATATTATAATAATTTTAATT
6863340 AAGAGAATATTATAATAATTTTAATT
1 AAGAG-ATATTATAATAATTTTAATT
6863366 AA
1 AA
6863368 CTATAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 14 0.58
26 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
AAGAGATATTATAATAATTTTAATT
Found at i:6865194 original size:7 final size:7
Alignment explanation
Indices: 6865184--6865209 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6865174 TTTTTTTTGT
6865184 TTTTTAA
1 TTTTTAA
6865191 TTTTTAA
1 TTTTTAA
6865198 TTTTTAA
1 TTTTTAA
6865205 TTTTT
1 TTTTT
6865210 TTTTTGTTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:6865194 original size:14 final size:13
Alignment explanation
Indices: 6865163--6865214 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
6865153 ATGAACTCTT
**
6865163 TTTTTTTTCTTTTT
1 TTTTTTTT-TTTAA
6865177 TTTTTGTTTTTTAA
1 TTTTT-TTTTTTAA
*
6865191 TTTTTAATTTTTAA
1 TTTTT-TTTTTTAA
6865205 TTTTTTTTTT
1 TTTTTTTTTT
6865215 GTTTTTATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 4 0.12
14 25 0.78
15 3 0.09
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTAA
Found at i:6865220 original size:12 final size:11
Alignment explanation
Indices: 6865159--6865188 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6865149 CCCAATGAAC
6865159 TCTTTTTTTTT
1 TCTTTTTTTTT
6865170 TCTTTTTTTTT
1 TCTTTTTTTTT
*
6865181 TGTTTTTT
1 TCTTTTTT
6865189 AATTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:6865624 original size:25 final size:24
Alignment explanation
Indices: 6865587--6865637 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
6865577 CATGGGACCC
6865587 ATATATTTAATTTTAGTTTATTTTT
1 ATATATTTAATTTT-GTTTATTTTT
* *
6865612 ATATATTTTATTTTTTTTATTTTT
1 ATATATTTAATTTTGTTTATTTTT
6865636 AT
1 AT
6865638 TATCTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
ATATATTTAATTTTGTTTATTTTT
Found at i:6866715 original size:21 final size:21
Alignment explanation
Indices: 6866691--6866730 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6866681 TGTCTTTGTG
6866691 AAAAAA-ATCACAATATAAACC
1 AAAAAATATCA-AATATAAACC
*
6866712 AAAAAATATTAAATATAAA
1 AAAAAATATCAAATATAAA
6866731 AAAGCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAATATCAAATATAAACC
Found at i:6867674 original size:20 final size:20
Alignment explanation
Indices: 6867637--6867688 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
6867627 TTTTTTGAAA
6867637 TTTTTTCAC-TTTCACTTTCAC
1 TTTTTTC-CTTTTCACTTT-AC
**
6867658 TTTTTTCCTTTTC-CTTTTT
1 TTTTTTCCTTTTCACTTTAC
6867677 TTTTTTCCTTTT
1 TTTTTTCCTTTT
6867689 TTCCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTCCTTTTCACTTTAC
Found at i:6867677 original size:8 final size:8
Alignment explanation
Indices: 6867652--6867698 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
6867642 TCACTTTCAC
6867652 TTTCACTTT
1 TTTC-CTTT
6867661 TTTCC--T
1 TTTCCTTT
6867667 TTTCC-TT
1 TTTCCTTT
6867674 TTT--TTT
1 TTTCCTTT
6867680 TTTCCTTT
1 TTTCCTTT
6867688 TTTCCTTT
1 TTTCCTTT
6867696 TTT
1 TTT
6867699 TTATCTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
6 11 0.32
7 4 0.12
8 15 0.44
9 4 0.12
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTCCTTT
Found at i:6867680 original size:19 final size:20
Alignment explanation
Indices: 6867658--6867700 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
6867648 TCACTTTCAC
6867658 TTTTTTCC-TTTTCCTTTTT
1 TTTTTTCCTTTTTCCTTTTT
6867677 TTTTTTCCTTTTTTCCTTTTT
1 TTTTTTCC-TTTTTCCTTTTT
6867698 TTT
1 TTT
6867701 ATCTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
21 14 0.64
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCCTTTTTCCTTTTT
Found at i:6867682 original size:13 final size:14
Alignment explanation
Indices: 6867652--6867696 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
6867642 TCACTTTCAC
6867652 TTTCACTTTTTTCCT
1 TTTC-CTTTTTTCCT
*
6867667 TTTCCTTTTTT-TT
1 TTTCCTTTTTTCCT
6867680 TTTCCTTTTTTCCT
1 TTTCCTTTTTTCCT
6867694 TTT
1 TTT
6867697 TTTTATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCCTTTTTTCCT
Found at i:6879738 original size:62 final size:63
Alignment explanation
Indices: 6879663--6879785 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 63
6879653 TTTTAAAGCC
* * *
6879663 ATTTTTAAACCAAAAACACTTTAAATAATAC-CCTTTAATTTTTTTCTTTAGCTTATTTAAGGT
1 ATTTTTAAACCAAAAACACCTTAAATAAT-CTCCTTCAATTTTTTTATTTAGCTTATTTAAGGT
* * * *
6879726 ATTTTT-ATCCAAAAATACCTTAAATAATCTTCTTCAATTTTTTTATTTGGCTTATTTAAG
1 ATTTTTAAACCAAAAACACCTTAAATAATCTCCTTCAATTTTTTTATTTAGCTTATTTAAG
6879786 ACGTTATTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 1 0.02
62 45 0.87
63 6 0.12
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (63 bp):
ATTTTTAAACCAAAAACACCTTAAATAATCTCCTTCAATTTTTTTATTTAGCTTATTTAAGGT
Found at i:6880086 original size:123 final size:123
Alignment explanation
Indices: 6879948--6880174 Score: 280
Period size: 124 Copynumber: 1.8 Consensus size: 123
6879938 ATAAGTAATG
* ** ** ** * *
6879948 AAAGAGATTATTTAAGATG-TTTTAGACCAAAAATGTCTTAAAAAAGCC-CTTTCAAAATTGAAG
1 AAAGAGATTATTTAAGACGTTTTTA-ACCAAAAATACCTTAAAAAAGCCAAATAAAAAAATAAAG
6880011 GGTATTATTT-AAGATATTTTTAGACTAAAAACACCTTAAAAAATTAGCTGATACATTTT
65 GGTATTATTTAAAG-TATTTTTAGACTAAAAACACCTTAAAAAATTAGCTGATACATTTT
* * *
6880070 AAAGAGATTTATTTAAGGCGTTTTTATCCAAAAATACCTTAAATAAGCCAAATAAAAAAATAAAG
1 AAAGAGA-TTATTTAAGACGTTTTTAACCAAAAATACCTTAAAAAAGCCAAATAAAAAAATAAAG
* *
6880135 GGTATTATTTAAAGTGTTTTTAGTCTAAAAACACCTTAAA
65 GGTATTATTTAAAGTATTTTTAGACTAAAAACACCTTAAA
6880175 TGGATTATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
122 7 0.08
123 29 0.33
124 48 0.55
125 3 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (123 bp):
AAAGAGATTATTTAAGACGTTTTTAACCAAAAATACCTTAAAAAAGCCAAATAAAAAAATAAAGG
GTATTATTTAAAGTATTTTTAGACTAAAAACACCTTAAAAAATTAGCTGATACATTTT
Found at i:6880196 original size:101 final size:103
Alignment explanation
Indices: 6880078--6880277 Score: 291
Period size: 101 Copynumber: 2.0 Consensus size: 103
6880068 TTAAAGAGAT
* *
6880078 TTATTTAAGGCGTTTTTATCCAAAAATACCTTAAATAAGCCAAAT-AAAAAAA-T-AAAGGGTAT
1 TTATTTAAGACGTTTTTATCCAAAAACACCTTAAATAAGCCAAATAAAAAAAATTGAAA-GGTAT
*
6880140 TATTTAAAGTGTTTTTAGTCTAAAAACACCTTAAATGGA
65 AATTTAAAGTGTTTTTAGTCTAAAAACACCTTAAATGGA
*
6880179 TTATTTAAGAC-TGTTTTATCCAAAAACGCCTTAAATAAGCCAAATAAAAAAAATTGAAAGGTAT
1 TTATTTAAGACGT-TTTTATCCAAAAACACCTTAAATAAGCCAAATAAAAAAAATTGAAAGGTAT
* **
6880243 AATTTAAGGTGTTTTTAGTCTAAAAATGCCTTAAA
65 AATTTAAAGTGTTTTTAGTCTAAAAACACCTTAAA
6880278 AAATTTGCTA
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
100 1 0.01
101 40 0.45
102 7 0.08
103 37 0.42
104 3 0.03
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (103 bp):
TTATTTAAGACGTTTTTATCCAAAAACACCTTAAATAAGCCAAATAAAAAAAATTGAAAGGTATA
ATTTAAAGTGTTTTTAGTCTAAAAACACCTTAAATGGA
Found at i:6880214 original size:39 final size:40
Alignment explanation
Indices: 6880138--6880214 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 40
6880128 AATAAAGGGT
* *
6880138 ATTATTTAAAGTGTTTTTAGTCTAAAAACACCTTAAATGG
1 ATTATTTAAACTGTTTTTAGTCCAAAAACACCTTAAATGG
*
6880178 ATTATTTAAGACTG-TTTTA-TCCAAAAACGCCTTAAAT
1 ATTATTTAA-ACTGTTTTTAGTCCAAAAACACCTTAAAT
6880215 AAGCCAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.48
40 14 0.42
41 3 0.09
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (40 bp):
ATTATTTAAACTGTTTTTAGTCCAAAAACACCTTAAATGG
Found at i:6880297 original size:101 final size:101
Alignment explanation
Indices: 6880091--6880282 Score: 253
Period size: 103 Copynumber: 1.9 Consensus size: 101
6880081 TTTAAGGCGT
* *
6880091 TTTTATCCAAAAATACCTTAAATAAGCCAAATAAAAAAATAAAGGGTATTATTTAAAGTGTTTTT
1 TTTTATCCAAAAACACCTTAAATAAGCCAAATAAAAAAATAAAGGGTATAATTTAAAGTGTTTTT
** * *
6880156 AGTCTAAAAACACCTTAAATGGATTATTTAAGACTG
66 AGTCTAAAAACACCTTAAATAAATTATCTAAGACTA
* *
6880192 TTTTATCCAAAAACGCCTTAAATAAGCCAAATAAAAAAAATTGAAA-GGTATAATTTAAGGTGTT
1 TTTTATCCAAAAACACCTTAAATAAGCCAAAT-AAAAAAA-T-AAAGGGTATAATTTAAAGTGTT
**
6880256 TTTAGTCTAAAAATGCCTTAAA-AAATT
63 TTTAGTCTAAAAACACCTTAAATAAATT
6880283 TGCTAATACA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
101 30 0.38
102 10 0.12
103 37 0.46
104 3 0.04
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (101 bp):
TTTTATCCAAAAACACCTTAAATAAGCCAAATAAAAAAATAAAGGGTATAATTTAAAGTGTTTTT
AGTCTAAAAACACCTTAAATAAATTATCTAAGACTA
Found at i:6884185 original size:16 final size:18
Alignment explanation
Indices: 6884150--6884186 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
6884140 GTTCATTTTA
*
6884150 TAATTTTGTATATTATAT
1 TAATTTTGTATATTAAAT
6884168 TAATTTT-TA-ATTAAAT
1 TAATTTTGTATATTAAAT
6884184 TAA
1 TAA
6884187 ATTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATTTTGTATATTAAAT
Found at i:6884589 original size:21 final size:21
Alignment explanation
Indices: 6884565--6884606 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6884555 TATCAAACTA
6884565 ATATAG-AAGATTATTAAAATT
1 ATATAGAAAG-TTATTAAAATT
*
6884586 ATATTGAAAGTTATTAAAATT
1 ATATAGAAAGTTATTAAAATT
6884607 TTATCAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
ATATAGAAAGTTATTAAAATT
Found at i:6884620 original size:21 final size:20
Alignment explanation
Indices: 6884574--6884636 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
6884564 AATATAGAAG
* *
6884574 ATTATTAAAATTATATTGAAA
1 ATTATTAAAATTTTA-TCAAA
*
6884595 GTTATTAAAATTTTATCAAA
1 ATTATTAAAATTTTATCAAA
* * *
6884615 TATTATGAAACTTTTAACAAA
1 -ATTATTAAAATTTTATCAAA
6884636 A
1 A
6884637 ATTAACAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATTAAAATTTTATCAAA
Found at i:6884743 original size:3 final size:3
Alignment explanation
Indices: 6884735--6884781 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
6884725 CGATTAACAT
6884735 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
6884781 T
1 T
6884782 CGTCCGCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6885570 original size:9 final size:9
Alignment explanation
Indices: 6885556--6885585 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6885546 TTCCATGACT
6885556 AATAGTTGG
1 AATAGTTGG
6885565 AATAGTTGG
1 AATAGTTGG
*
6885574 AACAGTTGG
1 AATAGTTGG
6885583 AAT
1 AAT
6885586 TCCAAACAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.30, T:0.30
Consensus pattern (9 bp):
AATAGTTGG
Found at i:6894104 original size:22 final size:22
Alignment explanation
Indices: 6894076--6894120 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6894066 CACAAACACT
6894076 ATGGTCTCATGGTTCTTATCAG
1 ATGGTCTCATGGTTCTTATCAG
6894098 ATGGTCTCATGGTTCTTATCAG
1 ATGGTCTCATGGTTCTTATCAG
6894120 A
1 A
6894121 CAAGTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (22 bp):
ATGGTCTCATGGTTCTTATCAG
Found at i:6905036 original size:43 final size:43
Alignment explanation
Indices: 6904972--6905058 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
6904962 AACATTAAAC
6904972 ATTCTATTCTACATTTCACAAAAGCATAACTGATAATTTTAGA
1 ATTCTATTCTACATTTCACAAAAGCATAACTGATAATTTTAGA
*
6905015 ATTCTATTCTACATTTGACAAAAGCATAACTGATAATTTTAGA
1 ATTCTATTCTACATTTCACAAAAGCATAACTGATAATTTTAGA
6905058 A
1 A
6905059 CTGCAAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (43 bp):
ATTCTATTCTACATTTCACAAAAGCATAACTGATAATTTTAGA
Found at i:6908000 original size:3 final size:3
Alignment explanation
Indices: 6907992--6908036 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
6907982 AGATGAGTAT
6907992 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6908037 CTTAGTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6908926 original size:16 final size:16
Alignment explanation
Indices: 6908897--6908978 Score: 51
Period size: 17 Copynumber: 4.9 Consensus size: 16
6908887 GATTGCAAAT
*
6908897 TTTTTTTTTCATTTACA
1 TTTTTATTT-ATTTACA
*
6908914 TTTTTATTTATTTTA-T
1 TTTTTATTTA-TTTACA
* *
6908930 TTTTTATATATTTTC-
1 TTTTTATTTATTTACA
6908945 TTATTTATTTCATTTTACA
1 TT-TTTATTT-A-TTTACA
*
6908964 TGTTTTATTTGTTTA
1 T-TTTTATTTATTTA
6908979 TTAAGTATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
15 5 0.10
16 16 0.31
17 17 0.33
18 4 0.08
19 8 0.16
20 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTTATTTATTTACA
Found at i:6912342 original size:60 final size:59
Alignment explanation
Indices: 6912276--6912611 Score: 438
Period size: 61 Copynumber: 5.7 Consensus size: 59
6912266 TTGTGCAGGA
* *
6912276 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTTGATTTTAAAGG
* *
6912336 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGGAAATTTTGATTTTCAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAATTTGATTTT-AAAGG
* *
6912397 AAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTG-AAATTTTATTTTAAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAATTTGATTTTAAAGG
*
6912455 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTGGAAACTTTGATTTTAAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-TTTTTTT-GAAAATTTGATTTTAAAGG
*
6912516 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTGATTTTAAAGG
*
6912576 -AAA---A-ACTTTCAACTTTTCCCCAAAAATATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTT
6912612 TATTTTATTT
Statistics
Matches: 250, Mismatches: 14, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
53 3 0.01
54 6 0.02
55 21 0.08
56 1 0.00
57 1 0.00
58 28 0.11
59 26 0.10
60 64 0.26
61 90 0.36
62 8 0.03
63 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTGATTTTAAAGG
Found at i:6912612 original size:119 final size:117
Alignment explanation
Indices: 6912276--6912612 Score: 450
Period size: 119 Copynumber: 2.8 Consensus size: 117
6912266 TTGTGCAGGA
* *
6912276 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTT-ATTTTAAAGG-AAA-
** *
6912341 TGATACTTTCAACTTTTCTTCAAAAATA-TTTTTTTGGAAATTTTGATTTTCAAAGG
62 T-ATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAGG
* *
6912397 AAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTGAAATTTTATTTTAAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAATTTATTTTAAAG-GAAA-T
*
6912461 GATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTGATTTT-AAAGG
63 -ATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAGG
*
6912516 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGGAAA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTAAAGGAAATA
6912580 -ACTTTCAACTTTTCCCCAAAAATATATTTTTTT
64 TACTTTCAACTTTTCCCCAAAAATAT-TTTTTTT
6912613 ATTTTATTTA
Statistics
Matches: 197, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
116 24 0.12
117 8 0.04
119 73 0.37
120 28 0.14
121 63 0.32
122 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTAAAGGAAATATA
CTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAGG
Found at i:6912747 original size:4 final size:4
Alignment explanation
Indices: 6912740--6912780 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
6912730 AACCTAATCT
*
6912740 AATA AAT- AA-A AATA AATA AATA AACA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
6912781 TCCAAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 4 0.12
4 29 0.88
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:6913354 original size:9 final size:10
Alignment explanation
Indices: 6913331--6913355 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6913321 ATTCTCAGAA
6913331 AAAAATCTCC
1 AAAAATCTCC
6913341 AAAAATCTCC
1 AAAAATCTCC
6913351 AAAAA
1 AAAAA
6913356 ATTTTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:6913660 original size:21 final size:21
Alignment explanation
Indices: 6913591--6913703 Score: 88
Period size: 21 Copynumber: 5.2 Consensus size: 21
6913581 AATTTTCAGC
6913591 CAGATAAATCAAAAAAA-TAA
1 CAGATAAATCAAAAAAATTAA
* * *
6913611 AAGAAAAAATCAAACGAAAATAAA
1 CAG-ATAAATCAAA--AAAATTAA
6913635 TCAGATAAATCAAAAAAATTAA
1 -CAGATAAATCAAAAAAATTAA
*
6913657 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAATCAAAA--AAATTAA
* *
6913679 CAGAT-AATACACAAATATTAA
1 CAGATAAAT-CAAAAAAATTAA
6913700 CAGA
1 CAGA
6913704 AAAAAAAGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
20 4 0.05
21 32 0.43
22 18 0.24
23 7 0.09
24 11 0.15
25 2 0.03
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.19
Consensus pattern (21 bp):
CAGATAAATCAAAAAAATTAA
Found at i:6913677 original size:45 final size:43
Alignment explanation
Indices: 6913591--6913707 Score: 112
Period size: 45 Copynumber: 2.7 Consensus size: 43
6913581 AATTTTCAGC
* *
6913591 CAGATAAATCAAAAAAA-TAAAAGAAAAAATCAAACGAAAATAAA
1 CAGATAAATCAAAAAAATTAACAG-AAAAATCAAAAGAAAAT-AA
* * **
6913635 TCAGATAAATCAAAAAAATTAACAGATAAATTAAAATTAAATAA
1 -CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAA
* *
6913679 CAGAT-AATACACAAATATTAACAGAAAAA
1 CAGATAAAT-CAAAAAAATTAACAGAAAAA
6913708 AAAGAAGAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.05
43 22 0.36
44 2 0.03
45 29 0.48
46 5 0.08
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (43 bp):
CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAA
Found at i:6913856 original size:7 final size:6
Alignment explanation
Indices: 6913821--6913875 Score: 56
Period size: 6 Copynumber: 8.5 Consensus size: 6
6913811 ATACATATAT
* *
6913821 AAAATA ATAATA AAAATA AAAATGTA AAATACAA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAA--TA AAA-A-TA AAAATA AAAATA AAAATA
6913873 AAA
1 AAA
6913876 TGAAGAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
6 30 0.73
7 1 0.02
8 9 0.22
9 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:6914244 original size:41 final size:41
Alignment explanation
Indices: 6914144--6914444 Score: 467
Period size: 41 Copynumber: 7.3 Consensus size: 41
6914134 AACTTTAAAA
* *
6914144 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
6914185 AAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACAACTTTG
1 -AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
6914227 GAAAGTAAATTGCTCCTCTAATCAGAGGCACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
6914268 AGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTTG
1 A-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTG
*
6914311 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
6914352 AAAAGTAAATTGCTCTTCTAAACAGAGGCACCATGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
6914393 AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
6914434 GAAAGTAAATT
1 AAAAGTAAATT
6914445 ACTCTTTGAT
Statistics
Matches: 237, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
41 127 0.54
42 105 0.44
43 5 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
Found at i:6914296 original size:125 final size:123
Alignment explanation
Indices: 6914144--6914444 Score: 512
Period size: 125 Copynumber: 2.4 Consensus size: 123
6914134 AACTTTAAAA
*
6914144 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAAC
1 AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAAC
* *
6914209 AAAGGCACCACAACTTTGGAAAGTAAATTGCTCCTCTAATCAGAGGCACCACGACTTTG
65 AAAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
6914268 AGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAA
1 A-AAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAA
* * *
6914333 CAGAGGCACCACAACTTTGAAAAGTAAATTGCTCTTCTAAACAGAGGCACCATGACTTTG
64 CAAAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
6914393 AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
6914445 ACTCTTTGAT
Statistics
Matches: 168, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
123 14 0.08
124 37 0.22
125 113 0.67
126 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (123 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACA
AAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
Found at i:6914477 original size:82 final size:82
Alignment explanation
Indices: 6914144--6914450 Score: 326
Period size: 83 Copynumber: 3.7 Consensus size: 82
6914134 AACTTTAAAA
* * * * *
6914144 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAAC
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG-AAAAGTAAATTACTCTTCTAAAC
* * * ** *
6914209 AAAGGCACCACAACTTTG
65 AGAGCCACAAGGACGTTG
* * * * *
6914227 GAAAGTAAATTGCTCCTCTAATCAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAAC
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGA-AAAGTAAATTACTCTTCTAAAC
** * * *
6914292 AGAGGTACCACGACTTTTG
65 AGAGCCACAAGGAC-GTTG
*
6914311 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCTTCTAAACA
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTACTCTTCTAAACA
* * * *
6914376 GAGGCACCATGACTTTG
66 GAGCCACAAGGACGTTG
* * *
6914393 AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATTACTCTT
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTACTCTT
6914451 TGATAATCAT
Statistics
Matches: 205, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
82 59 0.29
83 103 0.50
84 43 0.21
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (82 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTACTCTTCTAAACA
GAGCCACAAGGACGTTG
Found at i:6915482 original size:9 final size:9
Alignment explanation
Indices: 6915459--6915522 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
6915449 TCCTTTTTCA
*
6915459 TTCACTTTT
1 TTCATTTTT
6915468 TT-ATTTTT
1 TTCATTTTT
6915476 TTCATTTTT
1 TTCATTTTT
6915485 TTCA-TTTT
1 TTCATTTTT
6915493 TTCA-TTTT
1 TTCATTTTT
6915501 TTCATTTTT
1 TTCATTTTT
6915510 TTCATTTTT
1 TTCATTTTT
6915519 TTCA
1 TTCA
6915523 AGCATAGTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
8 23 0.44
9 29 0.56
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCATTTTT
Found at i:6915484 original size:17 final size:17
Alignment explanation
Indices: 6915459--6915520 Score: 90
Period size: 17 Copynumber: 3.6 Consensus size: 17
6915449 TCCTTTTTCA
*
6915459 TTCACTTTTTTATTTTT
1 TTCATTTTTTTATTTTT
6915476 TTCATTTTTTTCA-TTTT
1 TTCATTTTTTT-ATTTTT
*
6915493 TTCATTTTTTCATTTTT
1 TTCATTTTTTTATTTTT
6915510 TTCATTTTTTT
1 TTCATTTTTTT
6915521 CAAGCATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
16 1 0.03
17 38 0.95
18 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (17 bp):
TTCATTTTTTTATTTTT
Found at i:6915517 original size:7 final size:8
Alignment explanation
Indices: 6915459--6915519 Score: 79
Period size: 8 Copynumber: 7.2 Consensus size: 8
6915449 TCCTTTTTCA
6915459 TTCACTTTT
1 TTCA-TTTT
6915468 TT-ATTTTT
1 TTCA-TTTT
6915476 TTCATTTTT
1 TTCA-TTTT
6915485 TTCATTTT
1 TTCATTTT
6915493 TTCATTTT
1 TTCATTTT
6915501 TTCATTTTT
1 TTCA-TTTT
6915510 TTCATTTT
1 TTCATTTT
6915518 TT
1 TT
6915520 TCAAGCATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
8 29 0.59
9 20 0.41
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCATTTT
Found at i:6922762 original size:15 final size:16
Alignment explanation
Indices: 6922742--6922773 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6922732 TGTTAAGTGT
6922742 AATGAATG-AAAATGC
1 AATGAATGAAAAATGC
6922757 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
6922773 A
1 A
6922774 TGTATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:6925603 original size:60 final size:60
Alignment explanation
Indices: 6925532--6925928 Score: 521
Period size: 60 Copynumber: 6.7 Consensus size: 60
6925522 TTGTGCAGGA
6925532 AAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTTGAAAACTTTGATTTTCAAA-G
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAA-TTTGATTTT-AAAGG
* * ** *
6925592 AAAATTAATACTTTTAACTTTTC-CTCAAAAACGTTGTTTTT--AAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAATATT-TTTTTGAAAATTTGATTTTAAAGG
*
6925650 AAAATTGATACTTTCAACTTTT-TCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAA-TTTGATTTTAAAGG
** *
6925710 AAAATTGATACTTTCAACTTTTC-CTCAAAAACCTTTTTTTG-AAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAATTTGATTTTAAAGG
*
6925768 AAAATTGATACTTTCAACTTTT-TCCCAAAAATTATTTTTTTGAAAACTTTGATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAA-TATTTTTTTGAAAA-TTTGATTTTAAAGG
* *
6925829 AAAATTGATACTTTCAACTTTTC-CTCAAAAATTTATTTTTTTGAAAATTT-ATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAA--TATTTTTTTGAAAATTTGATTTTAAAGG
*
6925889 AAAATTGATACTTTCAACTTTT-TCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTT
6925929 TATTTTTATT
Statistics
Matches: 299, Mismatches: 23, Indels: 32
0.84 0.06 0.09
Matches are distributed among these distances:
57 8 0.03
58 89 0.30
59 18 0.06
60 119 0.40
61 50 0.17
62 15 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTTGAAAATTTGATTTTAAAGG
Found at i:6925859 original size:119 final size:118
Alignment explanation
Indices: 6925532--6925928 Score: 620
Period size: 118 Copynumber: 3.3 Consensus size: 118
6925522 TTGTGCAGGA
6925532 AAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTGAAAACTTTGATTTTCAAA-GAAA
1 AAAATTGATACTTTCAACTTTTTC-CCAAAAATATTTTTTTGAAAACTTTGATTTT-AAAGGAAA
* * *
6925595 ATTAATACTTTTAACTTTTCCTCAAAAACGTTGTTTTT-AAATTTTATTTTAAAGG
64 ATTGATACTTTCAACTTTTCCTCAAAAACATT-TTTTTGAAATTTTATTTTAAAGG
* * *
6925650 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTTGATTTTAAAGGAAAAT
*
6925715 TGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
66 TGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAATTTTATTTTAAAGG
6925768 AAAATTGATACTTTCAACTTTTTCCCAAAAATTATTTTTTTGAAAACTTTGATTTTAAAGGAAAA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAA-TATTTTTTTGAAAACTTTGATTTTAAAGGAAAA
* * * *
6925833 TTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGA
65 TTGATACTTTCAACTTTTCCTCAAAAA--CATTTTTTTGAAATTTTATTTTAAAGG
6925889 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
6925929 TATTTTTATT
Statistics
Matches: 259, Mismatches: 14, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
117 7 0.03
118 127 0.49
119 63 0.24
120 9 0.03
121 53 0.20
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTTGATTTTAAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAATTTTATTTTAAAGG
Found at i:6925875 original size:17 final size:17
Alignment explanation
Indices: 6925855--6925894 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6925845 ACTTTTCCTC
**
6925855 AAAAATTTATTTTTTTG
1 AAAAATTTATTTTTAAG
6925872 -AAAATTTATTTTTAAG
1 AAAAATTTATTTTTAAG
6925888 AAAAATT
1 AAAAATT
6925895 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AAAAATTTATTTTTAAG
Found at i:6925976 original size:4 final size:4
Alignment explanation
Indices: 6925963--6926087 Score: 52
Period size: 4 Copynumber: 31.0 Consensus size: 4
6925953 TAATAAAACA
6925963 AAAT -AAT AAAT AAAT AAAT AAAT AAAAGT AAA- ACAA- AAAT -AA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAA-T AAAT A-AAT AAAT AAAT AAAT
* * *
6926009 AAAAT AAAGAT AAAA AGAAT -ATT AAAT AAACCT -AAT CTAAT AAAT -AA-
1 -AAAT -AA-AT AAAT A-AAT AAAT AAAT AAA--T AAAT -AAAT AAAT AAAT
* *
6926056 AAAT AAAT AAAC AAAC AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
6926088 TCAAAAAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 34
0.70 0.05 0.25
Matches are distributed among these distances:
3 17 0.18
4 54 0.56
5 22 0.23
6 4 0.04
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:6925984 original size:12 final size:11
Alignment explanation
Indices: 6925945--6926087 Score: 59
Period size: 12 Copynumber: 12.7 Consensus size: 11
6925935 TATTTAAAGA
6925945 AAATAGAATAAT
1 AAATA-AATAAT
6925957 AAA-ACAA-AAT
1 AAATA-AATAAT
6925967 -AATAAATAAAT
1 AAATAAAT-AAT
6925978 AAATAAATAA-
1 AAATAAATAAT
* *
6925988 AAGTAAA-ACAA
1 AAATAAATA-AT
6925999 AAATAAA-AAT
1 AAATAAATAAT
*
6926009 AAAATAAA-GAT
1 -AAATAAATAAT
* *
6926020 AAAAAGAATATT
1 AAATA-AATAAT
6926032 AAATAAACCTAAT
1 AAATAAA--TAAT
*
6926045 CTAATAAATAA-
1 -AAATAAATAAT
*
6926056 AAATAAATAAAC
1 AAATAAAT-AAT
*
6926068 AAACAAATAAAT
1 AAATAAAT-AAT
6926080 AAATAAAT
1 AAATAAAT
6926088 TCAAAAAAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
9 5 0.05
10 23 0.23
11 30 0.29
12 35 0.34
13 3 0.03
14 6 0.06
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:6926001 original size:6 final size:6
Alignment explanation
Indices: 6925962--6926024 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
6925952 ATAATAAAAC
* * *
6925962 AAAATA ATAAATA AATAA-A TAAATA AAAGT- AAAACA AAAATA AAAAT-
1 AAAATA A-AAATA AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
6926009 AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAA
6926025 GAATATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
5 10 0.23
6 26 0.59
7 8 0.18
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:6926004 original size:29 final size:29
Alignment explanation
Indices: 6925945--6926005 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
6925935 TATTTAAAGA
*
6925945 AAATAGAATAATAAAACAAAATAATAAAT
1 AAATAGAATAATAAAACAAAACAATAAAT
*
6925974 AAATA-AATAAATAAAAGTAAAACAA-AAAT
1 AAATAGAAT-AATAAAA-CAAAACAATAAAT
6926003 AAA
1 AAA
6926006 AATAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 19 0.68
30 6 0.21
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (29 bp):
AAATAGAATAATAAAACAAAACAATAAAT
Found at i:6926021 original size:17 final size:17
Alignment explanation
Indices: 6925944--6926024 Score: 76
Period size: 17 Copynumber: 4.6 Consensus size: 17
6925934 TTATTTAAAG
6925944 AAAATAGAATAATAAAAC-
1 AAAATA-AA-AATAAAACA
6925962 AAAATAATAAATAAATA-A
1 AAAATAA-AAATAAA-ACA
*
6925980 ATAAATAAAAGTAAAACA
1 A-AAATAAAAATAAAACA
*
6925998 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAACA
*
6926015 AAGATAAAAA
1 AAAATAAAAA
6926025 GAATATTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
17 31 0.57
18 17 0.31
19 6 0.11
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:6927025 original size:43 final size:45
Alignment explanation
Indices: 6926936--6927062 Score: 119
Period size: 43 Copynumber: 3.0 Consensus size: 45
6926926 AATTTTCAAC
*
6926936 CAGATAAATCAAAAAAA-TAA-A-AAAAATCAAACGAAAATAAAT
1 CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
* * **
6926978 CAGATAAATCAAAAAAATTAACAGATAAATTAAAATTAAAT-AA-
1 CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
* *
6927021 CAGAT-AATACACAAATATTAACAGAAAAA--AAAAGAAAA-AAAT
1 CAGATAAAT-CAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
6927063 AATAATAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
41 9 0.13
42 20 0.29
43 25 0.36
44 3 0.04
45 12 0.17
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.17
Consensus pattern (45 bp):
CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
Found at i:6927201 original size:39 final size:41
Alignment explanation
Indices: 6927118--6927228 Score: 122
Period size: 39 Copynumber: 2.8 Consensus size: 41
6927108 CCTAAGATAA
* * *
6927118 AAAATAATAATAAAAGAAAAGAAAAA-AAAATATACATATAT
1 AAAATAATAATAATA-AAAATAAAAATAAAATATACAAATAT
* *
6927159 AAAATAATAATAATAAAAATAAAAATACAATA-A-AAATGT
1 AAAATAATAATAATAAAAATAAAAATAAAATATACAAATAT
*
6927198 AAAATACA-AAAAATAAAAATAAAAATAAAAT
1 AAAATA-ATAATAATAAAAATAAAAATAAAAT
6927229 GAAGAAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
39 31 0.51
40 11 0.18
41 19 0.31
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (41 bp):
AAAATAATAATAATAAAAATAAAAATAAAATATACAAATAT
Found at i:6927217 original size:6 final size:6
Alignment explanation
Indices: 6927164--6927227 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
6927154 TATATAAAAT
* * *
6927164 AATAAT AATAAA AATAAA AAT-AC AATAAA AATGTAAA ATACAAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA--TAAA A-A-TAAA AATAAA
6927215 AATAAA AATAAA A
1 AATAAA AATAAA A
6927228 TGAAGAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 4 0.08
6 33 0.69
7 1 0.02
8 9 0.19
9 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:6929408 original size:22 final size:22
Alignment explanation
Indices: 6929380--6929423 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6929370 TGAATTTTAG
6929380 GATATAGTT-GTTAGCAGTTGTT
1 GATATAGTTAG-TAGCAGTTGTT
*
6929402 GATATAGTTAGTAGTAGTTGTT
1 GATATAGTTAGTAGCAGTTGTT
6929424 ATACATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.45
Consensus pattern (22 bp):
GATATAGTTAGTAGCAGTTGTT
Found at i:6931577 original size:22 final size:22
Alignment explanation
Indices: 6931552--6931593 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6931542 TGTTAGACAT
**
6931552 GGGTTTGTTGCATTATTTTTTA
1 GGGTTTGAGGCATTATTTTTTA
6931574 GGGTTTGAGGCATTATTTTT
1 GGGTTTGAGGCATTATTTTT
6931594 GGGGCTTAAA
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:0.14, C:0.05, G:0.26, T:0.55
Consensus pattern (22 bp):
GGGTTTGAGGCATTATTTTTTA
Found at i:6932536 original size:38 final size:38
Alignment explanation
Indices: 6932483--6932556 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
6932473 ACTTAATGTC
* *
6932483 TTGGTTTTTAGGATATAATTGGTAGTAGTTGTTATATG
1 TTGGTTTTTAAGATATAATTCGTAGTAGTTGTTATATG
*
6932521 TTGGTTTTTAAGATATAGTTCGTAGTAGTTGTTATA
1 TTGGTTTTTAAGATATAATTCGTAGTAGTTGTTATA
6932557 CGTGGCTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.50
Consensus pattern (38 bp):
TTGGTTTTTAAGATATAATTCGTAGTAGTTGTTATATG
Found at i:6938898 original size:17 final size:16
Alignment explanation
Indices: 6938873--6938906 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6938863 CATTAATCTT
*
6938873 TTATTTTTTTCAAAAAA
1 TTATATTTTT-AAAAAA
6938890 TTATATTTTTAAAAAA
1 TTATATTTTTAAAAAA
6938906 T
1 T
6938907 AAAAATCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATATTTTTAAAAAA
Found at i:6940105 original size:17 final size:18
Alignment explanation
Indices: 6940080--6940114 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6940070 TAATAAATTT
6940080 GTAACATAAA-AAAAATA
1 GTAACATAAATAAAAATA
*
6940097 GTAATATAAATAAAAATA
1 GTAACATAAATAAAAATA
6940115 ATTTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (18 bp):
GTAACATAAATAAAAATA
Found at i:6941216 original size:18 final size:18
Alignment explanation
Indices: 6941193--6941229 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6941183 CGTAATTAAT
6941193 TAAATTGAT-TTCATAAAA
1 TAAATTGATATT-ATAAAA
6941211 TAAATTGATATTATAAAA
1 TAAATTGATATTATAAAA
6941229 T
1 T
6941230 TAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
TAAATTGATATTATAAAA
Found at i:6943877 original size:47 final size:47
Alignment explanation
Indices: 6943822--6943918 Score: 151
Period size: 47 Copynumber: 2.1 Consensus size: 47
6943812 ATTTTACAAG
6943822 TTTTATTTCTAAATTTTTTACCATTTGGGCCAATTTA-AAATTTTTT
1 TTTTATTTCTAAATTTTTTACCATTTGGGCCAATTTAGAAATTTTTT
* * *
6943868 TTTTAATTTCTAAATTTTTTACTATTTGGGTCTATTTAGAAATTTTTT
1 TTTT-ATTTCTAAATTTTTTACCATTTGGGCCAATTTAGAAATTTTTT
6943916 TTT
1 TTT
6943919 GTTTTTTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 4 0.09
47 30 0.65
48 12 0.26
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.60
Consensus pattern (47 bp):
TTTTATTTCTAAATTTTTTACCATTTGGGCCAATTTAGAAATTTTTT
Found at i:6944128 original size:12 final size:12
Alignment explanation
Indices: 6944094--6944137 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
6944084 TTTCAACAAA
6944094 ATTTTTTTA-TT
1 ATTTTTTTATTT
**
6944105 AAATTTTTATTT
1 ATTTTTTTATTT
6944117 ATTTTTTTATTT
1 ATTTTTTTATTT
6944129 ATTATTTTT
1 ATT-TTTTT
6944138 TTAATTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 7 0.26
12 15 0.56
13 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:6944133 original size:15 final size:16
Alignment explanation
Indices: 6944110--6944140 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6944100 TTATTAAATT
6944110 TTTATTTATTTTTTTA
1 TTTATTTATTTTTTTA
6944126 TTTA-TTATTTTTTTA
1 TTTATTTATTTTTTTA
6944141 ATTGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTATTTTTTTA
Found at i:6945640 original size:17 final size:17
Alignment explanation
Indices: 6945615--6945663 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
6945605 CAGTTTTGTA
6945615 AAAAATTTTAAATTCAC
1 AAAAATTTTAAATTCAC
* * **
6945632 AAGAATTTTCAAGTTTGC
1 AAAAATTTT-AAATTCAC
6945650 AAAAATTTTAAATT
1 AAAAATTTTAAATT
6945664 TGCAAGATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAAATTTTAAATTCAC
Found at i:6945667 original size:17 final size:17
Alignment explanation
Indices: 6945615--6945668 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
6945605 CAGTTTTGTA
**
6945615 AAAAATTTTAAATTCAC
1 AAAAATTTTAAATTTGC
* *
6945632 AAGAATTTTCAAGTTTGC
1 AAAAATTTT-AAATTTGC
6945650 AAAAATTTTAAATTTGC
1 AAAAATTTTAAATTTGC
6945667 AA
1 AA
6945669 GATTTTCAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (17 bp):
AAAAATTTTAAATTTGC
Found at i:6945733 original size:32 final size:33
Alignment explanation
Indices: 6945653--6945736 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 33
6945643 AGTTTGCAAA
** *
6945653 AATTTTAAATTTGCAAGATTTTCAGATTCGTAAG
1 AATTTTAGGTTTGCAAGAATTT-AGATTCGTAAG
* *
6945687 AATTTTGGGCTTGCAAGAATTT-GATTC-TCAAG
1 AATTTTAGGTTTGCAAGAATTTAGATTCGT-AAG
*
6945719 ATTTTTAGGTTTGCAAGA
1 AATTTTAGGTTTGCAAGA
6945737 CACAAAGATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.02
32 23 0.56
34 17 0.41
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (33 bp):
AATTTTAGGTTTGCAAGAATTTAGATTCGTAAG
Found at i:6945828 original size:16 final size:16
Alignment explanation
Indices: 6945790--6945853 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 16
6945780 CAAAGATTAA
* *
6945790 AGATTCACAAGATTTC
1 AGATTCATAAGATTTT
*
6945806 ATATTCATAAGATTTT
1 AGATTCATAAGATTTT
* * *
6945822 AGCTTCACAAGAATTT
1 AGATTCATAAGATTTT
*
6945838 -GATTCTTAAGATTTT
1 AGATTCATAAGATTTT
6945853 A
1 A
6945854 ATATTCATAT
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
15 11 0.31
16 25 0.69
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (16 bp):
AGATTCATAAGATTTT
Found at i:6946178 original size:22 final size:22
Alignment explanation
Indices: 6946153--6946262 Score: 62
Period size: 23 Copynumber: 4.9 Consensus size: 22
6946143 TTTCACATCT
6946153 AAATTTAAAGGTTCTCATTCAA
1 AAATTTAAAGGTTCTCATTCAA
*** * *
6946175 AAATATTTGGGGTTCACATCCAA
1 AAAT-TTAAAGGTTCTCATTCAA
* * *
6946198 AAGTTCAAAGATTCTCATTCAAAA
1 AAATTTAAAGGTTCTCATTC--AA
* *
6946222 AAATTTGAA-GTTCAT-ATCCAA
1 AAATTTAAAGGTTC-TCATTCAA
* *
6946243 AAGTTTAAAGCTTCTCATTC
1 AAATTTAAAGGTTCTCATTC
6946263 GAGTTCAAAG
Statistics
Matches: 60, Mismatches: 22, Indels: 12
0.64 0.23 0.13
Matches are distributed among these distances:
21 10 0.17
22 19 0.32
23 22 0.37
24 9 0.15
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
AAATTTAAAGGTTCTCATTCAA
Found at i:6946216 original size:45 final size:45
Alignment explanation
Indices: 6946159--6946262 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
6946149 ATCTAAATTT
* * **
6946159 AAAGGTTCTCATTCAAAAATATTTGGGGTTCACATCCAAAAGTTC
1 AAAGATTCTCATTCAAAAAAATTTGAAGTTCACATCCAAAAGTTC
* *
6946204 AAAGATTCTCATTCAAAAAAATTTGAAGTTCATATCCAAAAGTTT
1 AAAGATTCTCATTCAAAAAAATTTGAAGTTCACATCCAAAAGTTC
*
6946249 AAAGCTTCTCATTC
1 AAAGATTCTCATTC
6946263 GAGTTCAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (45 bp):
AAAGATTCTCATTCAAAAAAATTTGAAGTTCACATCCAAAAGTTC
Found at i:6946272 original size:20 final size:20
Alignment explanation
Indices: 6946244--6946284 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6946234 CATATCCAAA
* * *
6946244 AGTTTAAAGCTTCTCATTCG
1 AGTTCAAAGATTCACATTCG
6946264 AGTTCAAAGATTCACATTCG
1 AGTTCAAAGATTCACATTCG
6946284 A
1 A
6946285 TAATTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (20 bp):
AGTTCAAAGATTCACATTCG
Found at i:6947009 original size:79 final size:79
Alignment explanation
Indices: 6946878--6947036 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 79
6946868 TTCCTTTTTA
* * * * * *
6946878 GCTTCTCAACACTAATAATTTTAGAACAAATTTTGTTAACTGCTTCATATTATTTTCATCACTTG
1 GCTTCACAACACTAACAACTTTAGAACAAATTTTGTCAACTGCTCCACATTATTTTCATCACTTG
6946943 ATCACAACTCACAG
66 ATCACAACTCACAG
* *
6946957 GCTTCACAACACTAGCAACTTTAGAACAAATTTTGTCAACTGCTCCACATTATTTTCATCATTTG
1 GCTTCACAACACTAACAACTTTAGAACAAATTTTGTCAACTGCTCCACATTATTTTCATCACTTG
6947022 ATCACAACTCACAG
66 ATCACAACTCACAG
6947036 G
1 G
6947037 TTATGTCAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (79 bp):
GCTTCACAACACTAACAACTTTAGAACAAATTTTGTCAACTGCTCCACATTATTTTCATCACTTG
ATCACAACTCACAG
Found at i:6947646 original size:18 final size:17
Alignment explanation
Indices: 6947635--6947707 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
6947625 TTTTCTCTCA
6947635 TTTTTTTATTTTTTCAC
1 TTTTTTTATTTTTTCAC
6947652 TTTTTTTCATTTTTTTCA-
1 TTTTTTT-A-TTTTTTCAC
* *
6947670 TATTCTTCA-TTTTTCAC
1 T-TTTTTTATTTTTTCAC
*
6947687 TTTTTTCT-TTTTTTCAG
1 TTTTTT-TATTTTTTCAC
6947704 TTTT
1 TTTT
6947708 CATTTTCATC
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 11 0.24
17 19 0.42
18 3 0.07
19 12 0.27
ACGTcount: A:0.11, C:0.14, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTTTTATTTTTTCAC
Found at i:6947656 original size:10 final size:9
Alignment explanation
Indices: 6947632--6947707 Score: 72
Period size: 9 Copynumber: 8.8 Consensus size: 9
6947622 TTTTTTTCTC
6947632 TCATTTTTT
1 TCATTTTTT
6947641 T-A-TTTTT
1 TCATTTTTT
6947648 TCACTTTTTT
1 TCA-TTTTTT
6947658 TCATTTTTT
1 TCATTTTTT
* *
6947667 TCATATTCT
1 TCATTTTTT
6947676 TCA--TTTT
1 TCATTTTTT
*
6947683 TCACTTTTT
1 TCATTTTTT
6947692 TC-TTTTTT
1 TCATTTTTT
6947700 TCAGTTTT
1 TCA-TTTT
6947708 CATTTTCATC
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
7 12 0.21
8 9 0.16
9 23 0.41
10 12 0.21
ACGTcount: A:0.12, C:0.14, G:0.01, T:0.72
Consensus pattern (9 bp):
TCATTTTTT
Found at i:6947682 original size:24 final size:24
Alignment explanation
Indices: 6947655--6947713 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
6947645 TTTTCACTTT
*
6947655 TTTTCATTTTTTTCATATTCTTCAT
1 TTTTCATTTTTTTC-TATTCTTCAG
* * *
6947680 TTTTCACTTTTTTCTTTTTTTCAG
1 TTTTCATTTTTTTCTATTCTTCAG
6947704 TTTTCATTTT
1 TTTTCATTTT
6947714 CATCCATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTCATTTTTTTCTATTCTTCAG
Found at i:6953344 original size:24 final size:23
Alignment explanation
Indices: 6953300--6953344 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
6953290 AAAACATATG
*
6953300 ATAAAAACAAAATAAAGTCTAAA
1 ATAAAAACAAAATAAACTCTAAA
6953323 ATAAAAA-ATAAATAAAACTCTA
1 ATAAAAACA-AAAT-AAACTCTA
6953345 CAATCGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.05
23 11 0.58
24 7 0.37
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (23 bp):
ATAAAAACAAAATAAACTCTAAA
Found at i:6954991 original size:14 final size:15
Alignment explanation
Indices: 6954953--6955003 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
6954943 CCTTTTTTCT
*
6954953 TAAAAATTTTAAATAA
1 TAAAATTTTTAAA-AA
*
6954969 -AAAAATTTTAAAAA
1 TAAAATTTTTAAAAA
* *
6954983 TAAAGTTTTTAAAAG
1 TAAAATTTTTAAAAA
6954998 TAAAAT
1 TAAAAT
6955004 AAAATGTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 2 0.07
15 28 0.93
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
TAAAATTTTTAAAAA
Found at i:6961683 original size:52 final size:52
Alignment explanation
Indices: 6961594--6961695 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
6961584 TATAACCATA
*
6961594 CAAACTTGCCCATTAAGAATCCCTCTCTTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCTTTTTAGAATTCTTCTCTTGCAAGT
* * *
6961646 CAAACTTACCTATTAAGAAT-CCTCT-TTCTCTTGGAATTCTTCTTTTGCAA
1 CAAACTTACCCATTAAGAATCCCTCTCTT-T-TTAGAATTCTTCTCTTGCAA
6961696 ATCTTCTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 2 0.05
51 6 0.14
52 36 0.82
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCCTCTCTTTTTAGAATTCTTCTCTTGCAAGT
Found at i:6961739 original size:11 final size:11
Alignment explanation
Indices: 6961723--6961753 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
6961713 GCAATATCTG
6961723 ACAAATCTCAA
1 ACAAATCTCAA
6961734 ACAAATCTCAA
1 ACAAATCTCAA
6961745 ACAAATCTC
1 ACAAATCTC
6961754 TTATGGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Done.