Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 136 of 160
Found at i:25587980 original size:22 final size:22
Alignment explanation
Indices: 25587932--25588023 Score: 94
Period size: 22 Copynumber: 4.2 Consensus size: 22
25587922 GGATAACAAA
* * * *
25587932 AAATAAATGATAATTTAGTAGT
1 AAATTAATGATAACTTAATAAT
* * *
25587954 TAATTATTGATAACTTACTAAT
1 AAATTAATGATAACTTAATAAT
*
25587976 AAATTAATGACAACTTAATAAT
1 AAATTAATGATAACTTAATAAT
* *
25587998 AAATTAATGATAATTTAATAGT
1 AAATTAATGATAACTTAATAAT
25588020 AAAT
1 AAAT
25588024 CAGTTTCAGT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATTAATGATAACTTAATAAT
Found at i:25588004 original size:11 final size:11
Alignment explanation
Indices: 25587972--25588023 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
25587962 GATAACTTAC
25587972 TAATAAATTAA
1 TAATAAATTAA
* * *
25587983 TGACAACTTAA
1 TAATAAATTAA
25587994 TAATAAATTAA
1 TAATAAATTAA
* *
25588005 TGATAATTTAA
1 TAATAAATTAA
*
25588016 TAGTAAAT
1 TAATAAAT
25588024 CAGTTTCAGT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:25588093 original size:22 final size:22
Alignment explanation
Indices: 25588068--25588171 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 22
25588058 TAAATTTTAA
*
25588068 ATAACTTACTAGTAAATCAA-TG
1 ATAACTTAGTAGTAAAT-AATTG
* * *
25588090 ATAAATTAGTAATAAATAATTA
1 ATAACTTAGTAGTAAATAATTG
* * *
25588112 ATAATTTTGTAGTTAATAATTG
1 ATAACTTAGTAGTAAATAATTG
* **
25588134 AAAACTTAAAAGTAAATCAA-T-
1 ATAACTTAGTAGTAAAT-AATTG
25588155 ATAACTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
25588172 TATCAATTAT
Statistics
Matches: 62, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
21 16 0.26
22 44 0.71
23 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTG
Found at i:25588205 original size:65 final size:66
Alignment explanation
Indices: 25588068--25588205 Score: 143
Period size: 65 Copynumber: 2.1 Consensus size: 66
25588058 TAAATTTTAA
** * * ** * *
25588068 ATAACTTACTAGTAAATCAATGATAAATTAGTAATAAATAATTAATAATTTTGTAGTTAATAATT
1 ATAACTTAAAAGTAAATCAATGATAAATTAGTAATAAATAATCAATAATATAATAATTAATAAGT
25588133 G
66 G
* * * * * *
25588134 AAAACTTAAAAGTAAATCAAT-ATAACTTAGTAGTAAATTATCAATTATATAATAATTAATTAGT
1 ATAACTTAAAAGTAAATCAATGATAAATTAGTAATAAATAATCAATAATATAATAATTAATAAGT
25588198 G
66 G
25588199 ATAACTT
1 ATAACTT
25588206 TCTAATAAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
65 39 0.68
66 18 0.32
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (66 bp):
ATAACTTAAAAGTAAATCAATGATAAATTAGTAATAAATAATCAATAATATAATAATTAATAAGT
G
Found at i:25588383 original size:22 final size:22
Alignment explanation
Indices: 25588357--25588470 Score: 69
Period size: 22 Copynumber: 5.4 Consensus size: 22
25588347 TAAAAAATAT
*
25588357 TAGTAAATCATTAATAATTTAA
1 TAGTAAATCACTAATAATTTAA
* *
25588379 TAGTAAAT---TGATAATTTAG
1 TAGTAAATCACTAATAATTTAA
* * *
25588398 CAGTAAATTACTAATAATATAA
1 TAGTAAATCACTAATAATTTAA
* *
25588420 TTA-TAAATCACTAATAACTTAGT
1 -TAGTAAATCACTAATAATTTA-A
* * *
25588443 TA-TTAATCAGTGATAATTT-A
1 TAGTAAATCACTAATAATTTAA
25588463 TAGTAAAT
1 TAGTAAAT
25588471 TAGTTAATCA
Statistics
Matches: 69, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
19 16 0.23
20 2 0.03
21 4 0.06
22 46 0.67
23 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (22 bp):
TAGTAAATCACTAATAATTTAA
Found at i:25588394 original size:19 final size:19
Alignment explanation
Indices: 25588370--25588406 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25588360 TAAATCATTA
*
25588370 ATAATTTAATAGTAAATTG
1 ATAATTTAACAGTAAATTG
*
25588389 ATAATTTAGCAGTAAATT
1 ATAATTTAACAGTAAATT
25588407 ACTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (19 bp):
ATAATTTAACAGTAAATTG
Found at i:25588412 original size:19 final size:18
Alignment explanation
Indices: 25588370--25588412 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
25588360 TAAATCATTA
*
25588370 ATAATTTAATAGTAAATT
1 ATAATTTAACAGTAAATT
*
25588388 GATAATTTAGCAGTAAATT
1 -ATAATTTAACAGTAAATT
25588407 ACTAAT
1 A-TAAT
25588413 AATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
ATAATTTAACAGTAAATT
Found at i:25588559 original size:44 final size:43
Alignment explanation
Indices: 25588496--25588635 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 43
25588486 AATTTTTTAG
*
25588496 TAAATCATCGAA-AAATTAGTAGTAAATTAGTTATAATTTTATAA
1 TAAATCATC-AATAAATTAGTAGTAAATTA-TTATAATTTAATAA
* * * * ** *
25588540 TAAATTATCAATAACTTAGTGGTAAAGTACCAATAATTTAATTA
1 TAAATCATCAATAAATTAGTAGTAAATTA-TTATAATTTAATAA
* * *
25588584 -AAATTATTC-ATAAATTAGAAGTAAATTATTGATAATTTAATAG
1 TAAATCA-TCAATAAATTAGTAGTAAATTATT-ATAATTTAATAA
25588627 TAAAATCAT
1 T-AAATCAT
25588636 TGATAACTTG
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
43 33 0.45
44 35 0.48
45 5 0.07
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.38
Consensus pattern (43 bp):
TAAATCATCAATAAATTAGTAGTAAATTATTATAATTTAATAA
Found at i:25588599 original size:22 final size:20
Alignment explanation
Indices: 25588572--25588624 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
25588562 TAAAGTACCA
25588572 ATAATTTAATTAAAATTATTC
1 ATAATTTAATT-AAATTATTC
* * *
25588593 ATAAATTAGAAGTAAATTATTG
1 AT-AATT-TAATTAAATTATTC
25588615 ATAATTTAAT
1 ATAATTTAAT
25588625 AGTAAAATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
20 2 0.08
21 6 0.24
22 14 0.56
23 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (20 bp):
ATAATTTAATTAAATTATTC
Found at i:25588628 original size:22 final size:23
Alignment explanation
Indices: 25588572--25588653 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
25588562 TAAAGTACCA
*
25588572 ATAATTTAAT--TAAAATTATTC
1 ATAATTTAATAGTAAAATTATTG
*
25588593 ATAAATTAGA-AGT-AAATTATTG
1 ATAATTTA-ATAGTAAAATTATTG
*
25588615 ATAATTTAATAGTAAAATCATTG
1 ATAATTTAATAGTAAAATTATTG
* *
25588638 ATAACTTGATAGTAAA
1 ATAATTTAATAGTAAA
25588654 TTACTAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 8 0.16
22 19 0.38
23 23 0.46
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.39
Consensus pattern (23 bp):
ATAATTTAATAGTAAAATTATTG
Found at i:25588907 original size:3 final size:3
Alignment explanation
Indices: 25588899--25588963 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
25588889 GTTTATAATT
*
25588899 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25588946 TTA TTTA TTCA TT- TTA TT
1 TTA -TTA TT-A TTA TTA TT
25588964 TTTCTTTTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25589336 original size:30 final size:31
Alignment explanation
Indices: 25589302--25589371 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
25589292 AATTTTTTAG
**
25589302 TTTTTGATAAATTTTTCGATGCCGATTGAA-
1 TTTTTGATAAATTTTTCGACACCGATTGAAT
* * *
25589332 TTTTTGGTAACTTTTTCGACATCGATTGAAT
1 TTTTTGATAAATTTTTCGACACCGATTGAAT
25589363 TTTTTGATA
1 TTTTTGATA
25589372 TGTTTTCCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (31 bp):
TTTTTGATAAATTTTTCGACACCGATTGAAT
Found at i:25589892 original size:16 final size:17
Alignment explanation
Indices: 25589855--25589898 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
25589845 AGCCAAGCCG
25589855 TTTTTATTT-TTTAGTA
1 TTTTTATTTATTTAGTA
25589871 TTTTTTATTTATTTAGTA
1 -TTTTTATTTATTTAGTA
25589889 -TTTTATTTAT
1 TTTTTATTTAT
25589899 GTATATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.38
17 9 0.35
18 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTTTATTTATTTAGTA
Found at i:25589906 original size:22 final size:19
Alignment explanation
Indices: 25589855--25589915 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 19
25589845 AGCCAAGCCG
25589855 TTTTTATTT-TTTAGTA-T
1 TTTTTATTTATTTAGTATT
25589872 TTTTTATTTATTTAGTATT
1 TTTTTATTTATTTAGTATT
25589891 TTATTTATGTATATTTAGTATT
1 TT-TTTAT-T-TATTTAGTATT
25589913 TTT
1 TTT
25589916 GCATAATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.23
18 7 0.18
19 3 0.08
20 5 0.13
21 2 0.05
22 13 0.33
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTATTTATTTAGTATT
Found at i:25592587 original size:38 final size:38
Alignment explanation
Indices: 25592518--25592598 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
25592508 ACATCTGACA
* *
25592518 GTGGTAGGGTTAGGCGACGGGATGGGTGGTAGAGCATGG
1 GTGGTAGGGTAAGGCGAAGGGATGGGTGGTAGAGCAT-G
* *
25592557 GTGGTAGGGTAAGGTGAAGGG-TGGGTGGTAGGGCATG
1 GTGGTAGGGTAAGGCGAAGGGATGGGTGGTAGAGCATG
25592594 GTGGT
1 GTGGT
25592599 CAGAAGGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 6 0.16
38 14 0.37
39 18 0.47
ACGTcount: A:0.17, C:0.05, G:0.56, T:0.22
Consensus pattern (38 bp):
GTGGTAGGGTAAGGCGAAGGGATGGGTGGTAGAGCATG
Found at i:25592707 original size:18 final size:18
Alignment explanation
Indices: 25592684--25592723 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
25592674 CTGGTTTTTT
25592684 TTTTTTCAG-TATTTTGTA
1 TTTTTT-AGATATTTTGTA
*
25592702 TTTTTTTGATATTTTGTA
1 TTTTTTAGATATTTTGTA
25592720 TTTT
1 TTTT
25592724 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (18 bp):
TTTTTTAGATATTTTGTA
Found at i:25592708 original size:10 final size:11
Alignment explanation
Indices: 25592695--25592741 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
25592685 TTTTTCAGTA
25592695 TTTTG-TATTT
1 TTTTGATATTT
25592705 TTTTGATATTTT
1 TTTTGATA-TTT
*
25592717 GTATTTTATATTT
1 -T-TTTGATATTT
25592730 TTTTGATATTT
1 TTTTGATATTT
25592741 T
1 T
25592742 GTATTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 5 0.16
11 12 0.39
12 4 0.13
13 4 0.13
14 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTGATATTT
Found at i:25592720 original size:25 final size:25
Alignment explanation
Indices: 25592692--25592747 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
25592682 TTTTTTTTCA
*
25592692 GTATTTTGTATTTTTTTGATATTTT
1 GTATTTTATATTTTTTTGATATTTT
25592717 GTATTTTATATTTTTTTGATATTTT
1 GTATTTTATATTTTTTTGATATTTT
25592742 GTATTT
1 GTATTT
25592748 AATAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (25 bp):
GTATTTTATATTTTTTTGATATTTT
Found at i:25592739 original size:18 final size:17
Alignment explanation
Indices: 25592713--25592747 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25592703 TTTTTTGATA
25592713 TTTTGTATTTTATATTT
1 TTTTGTATTTTATATTT
*
25592730 TTTTGATATTTTGTATTT
1 TTTTG-TATTTTATATTT
25592748 AATAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTGTATTTTATATTT
Found at i:25593334 original size:48 final size:48
Alignment explanation
Indices: 25593006--25593955 Score: 999
Period size: 47 Copynumber: 19.7 Consensus size: 48
25592996 AAAACTCATA
* * * * *
25593006 TCAGCAAAGGCTAAACAACTTTAAAAATTTCATCTT-AAAAAGGGCTTCTT
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAA--GCTCCTC
* * *
25593056 TCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCATC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-AGCTCCTC
* * * * *
25593106 TTAGCAGAGGCTTAACAACTTTAAAAATTTCATC-TAAAAAAACTCCTC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCCTC
* * * * * *
25593154 TCAGCAGAAGCTTAACAATTTTTGAAATCTTC-TCTTGCAAAAGCTCATC
1 TCAGCAGAGGCTCAACAA-CTTTAAAATC-TCATCTTGAAAAAGCTCCTC
* * *
25593203 TTAGCAGAGACTCAACAACTTTAAAATCTTATC-TGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
* * *
25593250 TCAGCAGAGGCTCAACAACTTTAAAAAATTTTATCTTGGAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTGAAAAAGCTCCTC
* * *
25593300 TCAGCAAAGGTTCAACAACTTTAAAATCTCATCTTGGAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
* * *
25593348 TCAGCAGAGGCTCAAAAACTTTAAAA-ATCATCTTGAAAAAGCTCTTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
* * * * *
25593395 TTAGTAGAGGCTTAATAACTTTAAAATCTCATC-TGAAAAAGCTCATC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
* * *
25593442 TCAGCGGAGGCTCAACAACTTTAAAATCTTATCTTGAAAAAGCTCCTA
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
*
25593490 TCAGCAGAGGCTCAACAACTTTAAAAAT-TC-TCTTGAAAAAGCTCATC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCCTC
* * *
25593537 TCAGTAGAGGCTCAACAACTTAAAAATTTCATCTTGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
* *
25593585 TCAACAGAGGCTCAACAACTTTAAAAAT-TC-TCTTGAAAAAGCTCCTT
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCCTC
* *
25593632 TCAACAGAGGCTTAACAACTTTAAAATCTCATC-TGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
** * *
25593679 TCATTAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
* * * * * *
25593727 TCAACAGAGACTTAATAACTTTAAAAATTTCATCTTGAAAAGGGCTCCTC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-AGCTCCTC
* * **
25593777 TCAGCAGAGGCTTAACAACTTTAAAAT-TAAATCTTGAAAAAGCTTATC
1 TCAGCAGAGGCTCAACAACTTTAAAATCT-CATCTTGAAAAAGCTCCTC
* * **
25593825 TCAGCAGAGGCTCAACAACTTTAAAAAT-TAAATCTTAAAAAAGCTTATC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCT-CATCTTGAAAAAGCTCCTC
* * * * *
25593874 TCAACAAAGACTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCCTC
*
25593923 TCAGTAGAGGCTCAACAACTTTTAAAATCTCAT
1 TCAGCAGAGGCTCAACAAC-TTTAAAATCTCAT
25593956 ATATTCTCAA
Statistics
Matches: 769, Mismatches: 107, Indels: 49
0.83 0.12 0.05
Matches are distributed among these distances:
46 10 0.01
47 230 0.30
48 220 0.29
49 174 0.23
50 131 0.17
51 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (48 bp):
TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTC
Found at i:25593476 original size:95 final size:96
Alignment explanation
Indices: 25593006--25593952 Score: 1006
Period size: 95 Copynumber: 9.8 Consensus size: 96
25592996 AAAACTCATA
* * * * *
25593006 TCAGCAAAGGCTAAACAACTTTAAAAATTTCATCTT-AAAAAGGGCTTCTTTCAGCAAAGGCTCA
1 TCAGCAGAGGCTCAACAACTTT-AAAA-TTCATCTTGAAAAA--GCTCCTCTCAGCAGAGGCTCA
* * *
25593070 ACAACTTTAAAAATCTCATCTTGAAAAGGGCTCATC
62 ACAACTTTAAAAATCTTATCTTGAAAA-AGCTCCTC
* * * * * *
25593106 TTAGCAGAGGCTTAACAACTTTAAAAATTTCATC-TAAAAAAACTCCTCTCAGCAGAAGCTTAAC
1 TCAGCAGAGGCTCAACAACTTT-AAAA-TTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAAC
* ** * * *
25593170 AATTTTTGAAATCTTCTCTTGCAAAAGCTCATC
64 AACTTTAAAAATCTTATCTTGAAAAAGCTCCTC
* * *
25593203 TTAGCAGAGACTCAACAACTTTAAAATCTTATC-TGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
1 TCAGCAGAGGCTCAACAACTTTAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* *
25593267 ACTTTAAAAAATTTTATCTTGGAAAAGCTCCTC
65 ACTTT-AAAAATCTTATCTTGAAAAAGCTCCTC
* * * *
25593300 TCAGCAAAGGTTCAACAACTTTAAAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAAAA
1 TCAGCAGAGGCTCAACAACTTTAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
25593365 ACTTTAAAAATC--ATCTTGAAAAAGCTCTTC
65 ACTTTAAAAATCTTATCTTGAAAAAGCTCCTC
* * * * * *
25593395 TTAGTAGAGGCTTAATAACTTTAAAATCTCATC-TGAAAAAGCTCATCTCAGCGGAGGCTCAACA
1 TCAGCAGAGGCTCAACAACTTTAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
25593459 ACTTT-AAAATCTTATCTTGAAAAAGCTCCTA
65 ACTTTAAAAATCTTATCTTGAAAAAGCTCCTC
* *
25593490 TCAGCAGAGGCTCAACAACTTTAAAAATTC-TCTTGAAAAAGCTCATCTCAGTAGAGGCTCAACA
1 TCAGCAGAGGCTCAACAACTTT-AAAATTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
25593554 AC-TTAAAAAT-TTCATCTTGAAAAAGCTCCTC
65 ACTTTAAAAATCTT-ATCTTGAAAAAGCTCCTC
* * * *
25593585 TCAACAGAGGCTCAACAACTTTAAAAATTC-TCTTGAAAAAGCTCCTTTCAACAGAGGCTTAACA
1 TCAGCAGAGGCTCAACAACTTT-AAAATTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
25593649 ACTTT-AAAATCTCATC-TGAAAAAGCTCCTC
65 ACTTTAAAAATCTTATCTTGAAAAAGCTCCTC
** * * * * *
25593679 TCATTAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCCTCTCAACAGAGACTTAATA
1 TCAGCAGAGGCTCAACAACTTTAAAA-TTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
25593744 ACTTTAAAAAT-TTCATCTTGAAAAGGGCTCCTC
65 ACTTTAAAAATCTT-ATCTTGAAAA-AGCTCCTC
* * **
25593777 TCAGCAGAGGCTTAACAACTTTAAAATTAAATCTTGAAAAAGCTTATCTCAGCAGAGGCTCAACA
1 TCAGCAGAGGCTCAACAACTTTAAAATT-CATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * **
25593842 ACTTTAAAAAT-TAAATCTTAAAAAAGCTTATC
65 ACTTTAAAAATCT-TATCTTGAAAAAGCTCCTC
* * * * *
25593874 TCAACAAAGACTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAAC
1 TCAGCAGAGGCTCAACAACTTT-AAAA-TTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAAC
*
25593939 AACTTTTAAAATCT
64 AACTTTAAAAATCT
25593953 CATATATTCT
Statistics
Matches: 726, Mismatches: 98, Indels: 47
0.83 0.11 0.05
Matches are distributed among these distances:
93 10 0.01
94 74 0.10
95 238 0.33
96 55 0.08
97 113 0.16
98 196 0.27
99 4 0.01
100 36 0.05
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (96 bp):
TCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
CTTTAAAAATCTTATCTTGAAAAAGCTCCTC
Found at i:25598213 original size:14 final size:14
Alignment explanation
Indices: 25598191--25598234 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
25598181 CAAAAATAGA
*
25598191 ATGGCAAGAAAATG
1 ATGGAAAGAAAATG
25598205 ATGGAAAGAAAA-G
1 ATGGAAAGAAAATG
25598218 AATGGAAAGTAAAATG
1 -ATGGAAAG-AAAATG
25598234 A
1 A
25598235 AAATAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 19 0.73
15 5 0.19
16 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (14 bp):
ATGGAAAGAAAATG
Found at i:25607373 original size:8 final size:7
Alignment explanation
Indices: 25607349--25607429 Score: 72
Period size: 7 Copynumber: 12.9 Consensus size: 7
25607339 TATTTTTTCG
25607349 GTATTTT
1 GTATTTT
25607356 GTA-TTT
1 GTATTTT
*
25607362 -T-TTTG
1 GTATTTT
25607367 GTATTTT
1 GTATTTT
25607374 GTATTTT
1 GTATTTT
*
25607381 ATA-TTT
1 GTATTTT
25607387 -T-TTTT
1 GTATTTT
25607392 GTATTTT
1 GTATTTT
25607399 GTATTTT
1 GTATTTT
*
25607406 ATA-TTT
1 GTATTTT
25607412 -T-TTTT
1 GTATTTT
25607417 GTATTTT
1 GTATTTT
25607424 GTATTT
1 GTATTT
25607430 AATAATAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
5 11 0.18
6 12 0.20
7 38 0.62
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (7 bp):
GTATTTT
Found at i:25607379 original size:25 final size:25
Alignment explanation
Indices: 25607349--25607429 Score: 144
Period size: 25 Copynumber: 3.2 Consensus size: 25
25607339 TATTTTTTCG
* *
25607349 GTATTTTGTATTTTTTTGGTATTTT
1 GTATTTTATATTTTTTTTGTATTTT
25607374 GTATTTTATATTTTTTTTGTATTTT
1 GTATTTTATATTTTTTTTGTATTTT
25607399 GTATTTTATATTTTTTTTGTATTTT
1 GTATTTTATATTTTTTTTGTATTTT
25607424 GTATTT
1 GTATTT
25607430 AATAATAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (25 bp):
GTATTTTATATTTTTTTTGTATTTT
Found at i:25607428 original size:18 final size:18
Alignment explanation
Indices: 25607339--25607429 Score: 86
Period size: 18 Copynumber: 5.3 Consensus size: 18
25607329 TCTGTTTGTT
**
25607339 TATTTTTTCGGTATTTTG
1 TATTTTTTTTGTATTTTG
*
25607357 TATTTTTTTGGTATTTTG
1 TATTTTTTTTGTATTTTG
25607375 TATTTTATATTT-T-TTTTG
1 TATTTT-T-TTTGTATTTTG
*
25607393 TA----TTTTGTATTTTA
1 TATTTTTTTTGTATTTTG
25607407 TATTTTTTTTGTATTTTG
1 TATTTTTTTTGTATTTTG
25607425 TATTT
1 TATTT
25607430 AATAATAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
12 3 0.05
13 2 0.03
14 6 0.10
18 46 0.75
19 2 0.03
20 2 0.03
ACGTcount: A:0.14, C:0.01, G:0.11, T:0.74
Consensus pattern (18 bp):
TATTTTTTTTGTATTTTG
Found at i:25609497 original size:17 final size:18
Alignment explanation
Indices: 25609475--25609509 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25609465 CATGTAAATG
25609475 AAAATG-AATAAACATAT
1 AAAATGCAATAAACATAT
*
25609492 AAAATGCAATAAAGATAT
1 AAAATGCAATAAACATAT
25609510 GGGCCGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.63, C:0.06, G:0.09, T:0.23
Consensus pattern (18 bp):
AAAATGCAATAAACATAT
Found at i:25609623 original size:48 final size:47
Alignment explanation
Indices: 25609545--25609688 Score: 191
Period size: 48 Copynumber: 3.0 Consensus size: 47
25609535 AATATCAATA
* *
25609545 TGCACCAAGTGGGCCATGCTACAAAGATATCATT-AGTAAATGGCTTTG
1 TGCATCAAGTGGGCCATGCAACAAA-ATATCATTCA-TAAATGGCTTTG
*
25609593 TGCATCAAGTGGGCCATGCGACAAACATATCATTCATAAATGGCTTTG
1 TGCATCAAGTGGGCCATGCAACAAA-ATATCATTCATAAATGGCTTTG
* * *
25609641 TGCATCAAGTGGCCCATGCAACAAAACTATCATCCATAAATGACTTTG
1 TGCATCAAGTGGGCCATGCAACAAAA-TATCATTCATAAATGGCTTTG
25609689 CTCACTAACC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 85 0.98
49 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (47 bp):
TGCATCAAGTGGGCCATGCAACAAAATATCATTCATAAATGGCTTTG
Found at i:25610731 original size:11 final size:11
Alignment explanation
Indices: 25610717--25610778 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
25610707 GATGTTTATA
*
25610717 AATAACTTAAT
1 AATAAATTAAT
*
25610728 AATAAATCAAT
1 AATAAATTAAT
*
25610739 AATAATTTAAT
1 AATAAATTAAT
*
25610750 AATAAATTAGT
1 AATAAATTAAT
* *
25610761 AATTACTTAAT
1 AATAAATTAAT
*
25610772 AGTAAAT
1 AATAAAT
25610779 CAATTTCAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:25610748 original size:22 final size:22
Alignment explanation
Indices: 25610717--25610782 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
25610707 GATGTTTATA
25610717 AATAACTTAATAATAAATCAAT
1 AATAACTTAATAATAAATCAAT
* * *
25610739 AATAATTTAATAATAAATTAGT
1 AATAACTTAATAATAAATCAAT
* *
25610761 AATTACTTAATAGTAAATCAAT
1 AATAACTTAATAATAAATCAAT
25610783 TTCAATGTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (22 bp):
AATAACTTAATAATAAATCAAT
Found at i:25610836 original size:22 final size:22
Alignment explanation
Indices: 25610810--25610860 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
25610800 TTATTTATTT
* *
25610810 ATTTATTAATAAATTATTAATA
1 ATTTAGTAATAAATTAATAATA
* *
25610832 ATTTAGTAGTAAATTAATGATA
1 ATTTAGTAATAAATTAATAATA
25610854 A-TTAGTA
1 ATTTAGTA
25610861 GTTAATCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (22 bp):
ATTTAGTAATAAATTAATAATA
Found at i:25610960 original size:22 final size:22
Alignment explanation
Indices: 25610929--25611033 Score: 92
Period size: 22 Copynumber: 4.8 Consensus size: 22
25610919 TTACTAATTT
25610929 AATAATTTAATAATAAATCATG
1 AATAATTTAATAATAAATCATG
*
25610951 AA-AATTTTAAT-ATAAATTGATG
1 AATAA-TTTAATAATAAA-TCATG
* *
25610973 -ATAATTTAATAATGAATTAT-
1 AATAATTTAATAATAAATCATG
* * *
25610993 AATTAATTTAACAATAAATCTTT
1 AA-TAATTTAATAATAAATCATG
*
25611016 AATAATTTTATAATAAAT
1 AATAATTTAATAATAAAT
25611034 AATCAAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
21 18 0.27
22 47 0.70
23 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (22 bp):
AATAATTTAATAATAAATCATG
Found at i:25611184 original size:22 final size:21
Alignment explanation
Indices: 25611159--25611222 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
25611149 TTAATCATTT
25611159 ATAATTTTATAATAAATTATCG
1 ATAATTTTATAATAAATTAT-G
* * * *
25611181 ATAAATTAATAGTAAATTAGTT
1 ATAATTTTATAATAAATTA-TG
*
25611203 ATAATTTTATAACAAATTAT
1 ATAATTTTATAATAAATTAT
25611223 AAGTAACCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAATTTTATAATAAATTATG
Found at i:25611274 original size:22 final size:22
Alignment explanation
Indices: 25611249--25611347 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
25611239 AAATATCAAA
25611249 AATTTAGTAGTAAATAATTTAT
1 AATTTAGTAGTAAATAATTTAT
* * * *
25611271 AATTTATTATTAAATTATTCAT
1 AATTTAGTAGTAAATAATTTAT
* *
25611293 AAATTAGT-GATAAATAATGT-T
1 AATTTAGTAG-TAAATAATTTAT
* *
25611314 AATTTAGTAGTAAATCATATAT
1 AATTTAGTAGTAAATAATTTAT
*
25611336 AATTTAATAGTA
1 AATTTAGTAGTA
25611348 TATCATCGAT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
21 16 0.27
22 44 0.73
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (22 bp):
AATTTAGTAGTAAATAATTTAT
Found at i:25611556 original size:13 final size:12
Alignment explanation
Indices: 25611528--25611552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25611518 TCATGAACCT
25611528 ATTTAATAAAAA
1 ATTTAATAAAAA
25611540 ATTTAATAAAAA
1 ATTTAATAAAAA
25611552 A
1 A
25611553 ATTTTAAATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:25611809 original size:21 final size:21
Alignment explanation
Indices: 25611762--25611809 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25611752 ATTATAAAAA
*
25611762 TTATATCATAAGTTATCAAAC
1 TTATATCATAAGTGATCAAAC
* *
25611783 TAATATCA-AAGGTGATCAAAG
1 TTATATCATAA-GTGATCAAAC
25611804 TTATAT
1 TTATAT
25611810 AAAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (21 bp):
TTATATCATAAGTGATCAAAC
Found at i:25611834 original size:27 final size:27
Alignment explanation
Indices: 25611797--25611850 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
25611787 ATCAAAGGTG
* *
25611797 ATCAAAGTTATATAAAAATTTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
25611824 ATCAAAATTATATAAAAAATTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
25611851 TATTACTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (27 bp):
ATCAAAATTATATAAAAAATTATCAAA
Found at i:25615206 original size:16 final size:16
Alignment explanation
Indices: 25615165--25615208 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
25615155 GATTTTAGGG
* *
25615165 TTTGGGATTTTGAATT
1 TTTGGGTTTTTGAAAT
**
25615181 TTTGAATTTTTGAAAT
1 TTTGGGTTTTTGAAAT
25615197 TTTGGGTTTTTG
1 TTTGGGTTTTTG
25615209 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (16 bp):
TTTGGGTTTTTGAAAT
Found at i:25615352 original size:3 final size:3
Alignment explanation
Indices: 25615344--25615388 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
25615334 TTATGAAAAT
25615344 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
25615389 GTAGTAGTAG
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:25615393 original size:3 final size:3
Alignment explanation
Indices: 25615387--25615443 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
25615377 TTATTATTAT
* * * * * * *
25615387 TAG TAG TAG TAG TAG TAG TAG CAG CAG CAG CAA CAG CAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
25615435 TAG TAG TAG
1 TAG TAG TAG
25615444 CAGCATTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.23
Consensus pattern (3 bp):
TAG
Found at i:25616776 original size:44 final size:44
Alignment explanation
Indices: 25616711--25617207 Score: 590
Period size: 44 Copynumber: 11.2 Consensus size: 44
25616701 ACTTCGAAAA
* * *
25616711 AAAAAATAAACAAAGGCTCCTCTAAGCAGAGGCTTAACAACTTTG
1 AAAAAATAAATAAA-GCTCCTCTAAGCAGAGGCTCAACGACTTTG
** *
25616756 AAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTG
1 AAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
* * * *
25616800 GAAAAATAAACAAAAGCTCCTCTAAGTAGAAGCTC-ACGACTTTG
1 AAAAAATAAA-TAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
** *
25616844 AAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTG
1 AAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
* * *
25616888 GAAAAATAAATAAAAGCTCCTTTAAGCAGAGGCTC-ACGAGTTTG
1 AAAAAATAAAT-AAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
* *
25616932 AAAAAATAAATAAAGGCTCCTCTAAGCAGAAGCTCAATGACTTTG
1 AAAAAATAAATAAA-GCTCCTCTAAGCAGAGGCTCAACGACTTTG
* ** **
25616977 AAAAAATAAATAAAGCTTCTCTAAATAGAGGCTCAATAACTTTG
1 AAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
* * * *
25617021 AAAAAATAAACAAAAGATCCTCTAAGCAGATGCTC-ATGACTTTG
1 AAAAAATAAA-TAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
** *
25617065 AAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTG
1 AAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
* *
25617109 AAAAAATAAACAGAAGCTCTTCTAAGCAGAGGCTC-ACGACTTTG
1 AAAAAATAAATA-AAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
* *
25617153 GAAAAATAAATAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTG
1 AAAAAATAAATAAA-GCTCCTCTAAGCAGAGGCTCAACGACTTTG
25617198 -AAAAATAAAT
1 AAAAAATAAAT
25617208 GGCTCCTTGA
Statistics
Matches: 389, Mismatches: 53, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
43 45 0.12
44 223 0.57
45 121 0.31
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (44 bp):
AAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTG
Found at i:25617093 original size:221 final size:221
Alignment explanation
Indices: 25616711--25617207 Score: 809
Period size: 221 Copynumber: 2.3 Consensus size: 221
25616701 ACTTCGAAAA
* * *
25616711 AAAAAATAAACAAAGGCTCCTCTAAGCAGAGGCTTAACAACTTTGAAAAAATAAATAAAGCTCCT
1 AAAAAATAAATAAAGGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATAAAGCTCCT
* * *
25616776 CTAAATAGAGGCTCAACAACTTTGGAAAAATAAACAAAAGCTCCTCTAAGTAGAAGCTCACGACT
66 CTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAAAAGATCCTCTAAGCAGAAGCTCACGACT
* *
25616841 TTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGGAAAAATAAATAAAAGCT
131 TTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAAAAGCT
*
25616906 CCTT-TAAGCAGAGGCTCACGAGTTTG
196 -CTTCTAAGCAGAGGCTCACGACTTTG
* * *
25616932 AAAAAATAAATAAAGGCTCCTCTAAGCAGAAGCTCAATGACTTTGAAAAAATAAATAAAGCTTCT
1 AAAAAATAAATAAAGGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATAAAGCTCCT
* * *
25616997 CTAAATAGAGGCTCAATAACTTTGAAAAAATAAACAAAAGATCCTCTAAGCAGATGCTCATGACT
66 CTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAAAAGATCCTCTAAGCAGAAGCTCACGACT
*
25617062 TTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAGAAGCT
131 TTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAAAAGCT
25617127 CTTCTAAGCAGAGGCTCACGACTTTG
196 CTTCTAAGCAGAGGCTCACGACTTTG
* *
25617153 GAAAAATAAATAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAAATAAAT
1 AAAAAATAAATAAAGGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAAT
25617208 GGCTCCTTGA
Statistics
Matches: 255, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
220 13 0.05
221 242 0.95
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (221 bp):
AAAAAATAAATAAAGGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATAAAGCTCCT
CTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAAAAGATCCTCTAAGCAGAAGCTCACGACT
TTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAAATAAACAAAAGCT
CTTCTAAGCAGAGGCTCACGACTTTG
Found at i:25617576 original size:43 final size:42
Alignment explanation
Indices: 25617513--25617594 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
25617503 TTTGGCAAAC
* *
25617513 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCAAAAAATTC-AAAGCTTTTCATTTGAATT
25617555 TTGGATATTCACATCAAAAAATTCAAAGCTTTTCATTTGA
1 TTGGA-ATTCACATCAAAAAATTCAAAGCTTTTCATTTGA
25617595 GTTCAAAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 5 0.14
43 29 0.81
44 2 0.06
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (42 bp):
TTGGAATTCACATCAAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:25617811 original size:22 final size:21
Alignment explanation
Indices: 25617762--25617802 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
25617752 GGTTTCACTC
25617762 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
25617784 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
25617803 GTTCTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:25618307 original size:63 final size:63
Alignment explanation
Indices: 25618223--25618345 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 63
25618213 GTTTATCAGC
* **
25618223 ACTAACCATTTCAAAATAAATTTCATGTTTTATCACTTGGTCATCATTCATAAGCTTCTCAAT
1 ACTAACCATTTCAAAACAAATTTCATCATTTATCACTTGGTCATCATTCATAAGCTTCTCAAT
* *
25618286 ACTAGCCATTTCAAAACAAATTTCATCATTTGTCACTTGGTCATCATTCATAAGCTTCTC
1 ACTAACCATTTCAAAACAAATTTCATCATTTATCACTTGGTCATCATTCATAAGCTTCTC
25618346 GACACCAGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (63 bp):
ACTAACCATTTCAAAACAAATTTCATCATTTATCACTTGGTCATCATTCATAAGCTTCTCAAT
Found at i:25619051 original size:9 final size:9
Alignment explanation
Indices: 25619037--25619092 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
25619027 TTGAATCTTT
25619037 TTTTTTTCA
1 TTTTTTTCA
25619046 -TTTTTTCA
1 TTTTTTTCA
25619054 TTTTTTTC-
1 TTTTTTTCA
* *
25619062 ---CTTTCT
1 TTTTTTTCA
25619068 TTTTTTTCA
1 TTTTTTTCA
*
25619077 TTTTTTTAA
1 TTTTTTTCA
25619086 TTTTTTT
1 TTTTTTT
25619093 TCATCATCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
5 4 0.11
8 8 0.21
9 26 0.68
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:25619051 original size:29 final size:32
Alignment explanation
Indices: 25619010--25619088 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 32
25619000 CCCAAATTAC
**
25619010 TTTTTCAGGTTTTCAATTTGAAT-C-TT-TTT
1 TTTTTCATTTTTTCAATTTGAATCCTTTCTTT
***
25619039 TTTTTCATTTTTTC-ATTTTTTTCCTTTCTTT
1 TTTTTCATTTTTTCAATTTGAATCCTTTCTTT
*
25619070 TTTTTCATTTTTTTAATTT
1 TTTTTCATTTTTTCAATTT
25619089 TTTTTCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 5 0.12
29 13 0.32
30 2 0.05
31 16 0.40
32 4 0.10
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (32 bp):
TTTTTCATTTTTTCAATTTGAATCCTTTCTTT
Found at i:25619093 original size:23 final size:23
Alignment explanation
Indices: 25619046--25619093 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
25619036 TTTTTTTTCA
**
25619046 TTTTTTCATTTTTTTCCTTTCTT
1 TTTTTTCATTTTTTTAATTTCTT
25619069 TTTTTTCATTTTTTTAATTT-TT
1 TTTTTTCATTTTTTTAATTTCTT
25619091 TTT
1 TTT
25619094 CATCATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTCATTTTTTTAATTTCTT
Found at i:25619115 original size:16 final size:16
Alignment explanation
Indices: 25619086--25619119 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
25619076 ATTTTTTTAA
25619086 TTTTTTTTCATCATCTT
1 TTTTTTTTCATCAT-TT
25619103 TTTTTTTTC-TCATTT
1 TTTTTTTTCATCATTT
25619118 TT
1 TT
25619120 CATCCATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCATCATTT
Found at i:25619123 original size:23 final size:22
Alignment explanation
Indices: 25619034--25619122 Score: 53
Period size: 23 Copynumber: 4.0 Consensus size: 22
25619024 AATTTGAATC
25619034 TTTTT-TTTTTCATTTTTTCATT
1 TTTTTATTTTTCA-TTTTTCATT
* *
25619056 TTTTTCCTTTCTT-TTTTTTCATT
1 TTTTT-ATTT-TTCATTTTTCATT
*
25619079 TTTTTAATTTTT--TTTCATCATCT
1 TTTTT-ATTTTTCATTT-TTCAT-T
25619102 TTTTT-TTTTCTCATTTTTCAT
1 TTTTTATTTT-TCATTTTTCAT
25619123 CCATTGTTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
21 7 0.13
22 12 0.22
23 27 0.50
24 6 0.11
25 2 0.04
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTTCATTTTTCATT
Found at i:25627495 original size:11 final size:11
Alignment explanation
Indices: 25627481--25627536 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
25627471 AATAATTTAG
25627481 TAATAAATCAA
1 TAATAAATCAA
*
25627492 TAATAACTTC-A
1 TAATAA-ATCAA
* *
25627503 TAGTAAATTAA
1 TAATAAATCAA
* *
25627514 TAATAACTTAA
1 TAATAAATCAA
25627525 TAATAAATCAA
1 TAATAAATCAA
25627536 T
1 T
25627537 TTCAGTTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.91
12 2 0.06
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAAATCAA
Found at i:25627509 original size:22 final size:22
Alignment explanation
Indices: 25627471--25627536 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
25627461 GATGTTTACA
* *
25627471 AATAATTTAGTAATAAATCAAT
1 AATAACTTAATAATAAATCAAT
* * *
25627493 AATAACTTCATAGTAAATTAAT
1 AATAACTTAATAATAAATCAAT
25627515 AATAACTTAATAATAAATCAAT
1 AATAACTTAATAATAAATCAAT
25627537 TTCAGTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (22 bp):
AATAACTTAATAATAAATCAAT
Found at i:25627621 original size:21 final size:21
Alignment explanation
Indices: 25627583--25627630 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25627573 TAAATCATAA
*
25627583 ATAATTTAGTAGTGAATCAATG
1 ATAA-TTAGTAATGAATCAATG
* *
25627605 ATAATTAGTAATTAATCATTG
1 ATAATTAGTAATGAATCAATG
25627626 A-AATT
1 ATAATT
25627631 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (21 bp):
ATAATTAGTAATGAATCAATG
Found at i:25627690 original size:15 final size:15
Alignment explanation
Indices: 25627648--25627702 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
25627638 TAAATCAATG
*
25627648 TAACTTAAT-AGTACA
1 TAACTTAATAATTA-A
*
25627663 TAA-TTAATCATTAA
1 TAACTTAATAATTAA
25627677 TAACTTAATAATTAAA
1 TAACTTAATAATT-AA
*
25627693 TAATTTAATA
1 TAACTTAATA
25627703 GTAAATCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 9 0.26
15 14 0.41
16 11 0.32
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (15 bp):
TAACTTAATAATTAA
Found at i:25627864 original size:22 final size:21
Alignment explanation
Indices: 25627834--25627890 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
25627824 ATAACTTATA
25627834 TAATAGTAAATTACTAATAATT
1 TAATAGTAAATTA-TAATAATT
* * *
25627856 TAGTTGTAAATTGATGATAATT
1 TAATAGTAAATT-ATAATAATT
25627878 TAATAGTAAATTA
1 TAATAGTAAATTA
25627891 GTTAATCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (21 bp):
TAATAGTAAATTATAATAATT
Found at i:25628020 original size:22 final size:22
Alignment explanation
Indices: 25627995--25628117 Score: 66
Period size: 22 Copynumber: 5.6 Consensus size: 22
25627985 TATAAAAAAT
25627995 TTAGTAATAAATCATTTATAAC
1 TTAGTAATAAATCATTTATAAC
** * * *
25628017 TTAGTCTTAAATTATTCATAAA
1 TTAGTAATAAATCATTTATAAC
** * * *
25628039 TTAGTGGTAAATCAATTCTAAT
1 TTAGTAATAAATCATTTATAAC
* * *
25628061 TTAGTTATAAATCATTAATAAT
1 TTAGTAATAAATCATTTATAAC
* * * * *
25628083 TTAATAGTATATCATTGATACC
1 TTAGTAATAAATCATTTATAAC
* *
25628105 TTAGCATTAAATC
1 TTAGTAATAAATC
25628118 GTTGATAATA
Statistics
Matches: 73, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (22 bp):
TTAGTAATAAATCATTTATAAC
Found at i:25637198 original size:16 final size:16
Alignment explanation
Indices: 25637177--25637227 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
25637167 TTAAATATGA
25637177 TTATTATTTTTATTAT
1 TTATTATTTTTATTAT
25637193 TTATTAATTTTTTATTAAT
1 TTATT-A-TTTTTATT-AT
25637212 TTA--ATTTTTATT-T
1 TTATTATTTTTATTAT
25637225 TTA
1 TTA
25637228 AAAGATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.12
15 8 0.25
16 6 0.19
17 1 0.03
18 8 0.25
19 5 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTATTTTTATTAT
Found at i:25637205 original size:39 final size:40
Alignment explanation
Indices: 25637152--25637227 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
25637142 TTTATTTATC
*
25637152 TTTAATAATATTTTT-TTAAATATGATTATTATTTTTATTA
1 TTTAATAATATTTTTATT-AATATAATTATTATTTTTATTA
* * *
25637192 TTTATTAAT-TTTTTATTAATTTAATTTTTATTTTTA
1 TTTAATAATATTTTTATTAATATAATTATTATTTTTA
25637228 AAAGATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 21 0.68
40 10 0.32
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (40 bp):
TTTAATAATATTTTTATTAATATAATTATTATTTTTATTA
Found at i:25637219 original size:15 final size:17
Alignment explanation
Indices: 25637178--25637223 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
25637168 TAAATATGAT
*
25637178 TATT-ATTTTTATTATT
1 TATTAATTTTTATTATA
25637194 TATTAATTTTTTATTA-A
1 TATTAA-TTTTTATTATA
25637211 T-TTAATTTTTATT
1 TATTAATTTTTATT
25637224 TTTAAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.30
16 8 0.30
17 2 0.07
18 9 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTAATTTTTATTATA
Found at i:25637880 original size:14 final size:14
Alignment explanation
Indices: 25637861--25637891 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25637851 TTTTAGATTT
*
25637861 TTAATTTAAAATTA
1 TTAATTTAAAAATA
25637875 TTAATTTAAAAATA
1 TTAATTTAAAAATA
25637889 TTA
1 TTA
25637892 TAAAAATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATTTAAAAATA
Found at i:25639431 original size:32 final size:31
Alignment explanation
Indices: 25639393--25639464 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 31
25639383 ATGAAAATCT
*
25639393 AATTTAAAT-AGTATTAAAGACATAAATGATG
1 AATTTAAATGA-TATAAAAGACATAAATGATG
*
25639424 AATTTTAAATGATATAAAAGACATAAATTATG
1 AA-TTTAAATGATATAAAAGACATAAATGATG
25639456 AATTTAAAT
1 AATTTAAAT
25639465 TTAATTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 9 0.24
32 27 0.73
33 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (31 bp):
AATTTAAATGATATAAAAGACATAAATGATG
Found at i:25641676 original size:13 final size:13
Alignment explanation
Indices: 25641643--25641690 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 13
25641633 TATAATTTTT
25641643 TATAATTTTT-AA
1 TATAATTTTTAAA
25641655 -A-AA-TTTTAAA
1 TATAATTTTTAAA
25641665 TATAATTTTTAAA
1 TATAATTTTTAAA
*
25641678 TAATAAATTTTAA
1 T-ATAATTTTTAA
25641691 TTTAAAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
11 2 0.07
12 2 0.07
13 8 0.27
14 10 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATAATTTTTAAA
Found at i:25641688 original size:14 final size:13
Alignment explanation
Indices: 25641655--25641690 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
25641645 TAATTTTTAA
25641655 AAATTTTAAATAT
1 AAATTTTAAATAT
*
25641668 AATTTTTAAATAAT
1 AAATTTTAAAT-AT
25641682 AAATTTTAA
1 AAATTTTAA
25641691 TTTAAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTTAAATAT
Found at i:25642068 original size:16 final size:16
Alignment explanation
Indices: 25642037--25642079 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
25642027 AAAATAAGAT
25642037 AAATTAATTAATTTAAA
1 AAATTAATT-ATTTAAA
*
25642054 AAATTAATTATTTAAG
1 AAATTAATTATTTAAA
*
25642070 AGATTAATTA
1 AAATTAATTA
25642080 AATTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
AAATTAATTATTTAAA
Found at i:25642541 original size:22 final size:22
Alignment explanation
Indices: 25642507--25642554 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25642497 TTTATTTAAT
25642507 AAAA-AATTGATTGATCAATGA
1 AAAATAATTGATTGATCAATGA
* * *
25642528 AAAATAATTTATTGGTCGATGA
1 AAAATAATTGATTGATCAATGA
25642550 AAAAT
1 AAAAT
25642555 GAGATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (22 bp):
AAAATAATTGATTGATCAATGA
Found at i:25642629 original size:16 final size:16
Alignment explanation
Indices: 25642608--25642638 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25642598 ATTTTTAAGA
25642608 AATTATTTATAAATAG
1 AATTATTTATAAATAG
*
25642624 AATTATTTATCAATA
1 AATTATTTATAAATA
25642639 CTTTTAAGCA
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:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTATTTATAAATAG
Found at i:25642683 original size:18 final size:17
Alignment explanation
Indices: 25642660--25642723 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 17
25642650 AATTTTACCT
25642660 ATAAATAATATTAAATTA
1 ATAAATAATATT-AATTA
25642678 ATAAATAATAATATTATATTA
1 AT--A-AATAATATTA-ATTA
*
25642699 ATAAATAACA-T-ATTA
1 ATAAATAATATTAATTA
25642714 ATAAATAATA
1 ATAAATAATA
25642724 AAAGAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 13 0.32
17 1 0.03
18 8 0.20
19 1 0.03
20 2 0.05
21 15 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATAATATTAATTA
Found at i:25642689 original size:21 final size:21
Alignment explanation
Indices: 25642663--25642714 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
25642653 TTTACCTATA
25642663 AATAATATTAAATTAATAAAT
1 AATAATATTAAATTAATAAAT
*
25642684 AATAATATTATATTAATAAAT
1 AATAATATTAAATTAATAAAT
*
25642705 AA-CATATTAA
1 AATAATATTAA
25642715 TAAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATATTAAATTAATAAAT
Found at i:25642696 original size:26 final size:26
Alignment explanation
Indices: 25642667--25642716 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
25642657 CCTATAAATA
*
25642667 ATATTAAATTAATAA-ATAATAATATT
1 ATATT-AATAAATAACATAATAATATT
*
25642693 ATATTAATAAATAACATATTAATA
1 ATATTAATAAATAACATAATAATA
25642717 AATAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATTAATAAATAACATAATAATATT
Found at i:25642711 original size:15 final size:15
Alignment explanation
Indices: 25642693--25642721 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25642683 TAATAATATT
25642693 ATATTAATAAATAAC
1 ATATTAATAAATAAC
25642708 ATATTAATAAATAA
1 ATATTAATAAATAA
25642722 TAAAAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATTAATAAATAAC
Found at i:25642724 original size:18 final size:17
Alignment explanation
Indices: 25642660--25642725 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 17
25642650 AATTTTACCT
25642660 ATAAATAATATTAA-ATTA
1 ATAAATAATA--AATATTA
25642678 ATAAATAAT-AATATTA
1 ATAAATAATAAATATTA
*
25642694 TATTAATAAATAACATATTA
1 -ATAAAT-AATAA-ATATTA
25642714 ATAAATAATAAA
1 ATAAATAATAAA
25642726 AGAATAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.05
16 4 0.10
17 6 0.15
18 17 0.41
19 6 0.15
20 6 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAATAATAAATATTA
Found at i:25642797 original size:19 final size:19
Alignment explanation
Indices: 25642752--25642797 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
25642742 TTATTTTAAG
*
25642752 TATTTTTATATTAATATAA
1 TATTTTAATATTAATATAA
*
25642771 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAATATAA
25642789 TATTATTAA
1 TATT-TTAA
25642798 AATAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTAATATTAATATAA
Found at i:25642838 original size:16 final size:16
Alignment explanation
Indices: 25642763--25642842 Score: 58
Period size: 16 Copynumber: 4.8 Consensus size: 16
25642753 ATTTTTATAT
25642763 TAATATAAT-ATTTTAA
1 TAATA-AATAATTTTAA
*
25642779 TATTAAATATTATTATTAA
1 TAATAAATA--ATT-TTAA
*
25642798 -AATAAATTAGTTTTGAA
1 TAATAAA-TAATTTT-AA
*
25642815 T-ATTAATAATTTTAA
1 TAATAAATAATTTTAA
25642830 TAATAAATAATTT
1 TAATAAATAATTT
25642843 CATTTTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
15 6 0.12
16 22 0.44
17 8 0.16
18 8 0.16
19 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TAATAAATAATTTTAA
Found at i:25642986 original size:25 final size:24
Alignment explanation
Indices: 25642958--25643006 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
25642948 TATTAAGTTT
* *
25642958 TTCAAATAATAAATAATTTTTTTAA
1 TTCAAAAAATAAA-AATATTTTTAA
*
25642983 TTCAAAAAATATAAATATTTTTAA
1 TTCAAAAAATAAAAATATTTTTAA
25643007 AAAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TTCAAAAAATAAAAATATTTTTAA
Found at i:25646683 original size:29 final size:28
Alignment explanation
Indices: 25646627--25646688 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
25646617 TACTTTTCGA
* * *
25646627 ATTTTAAAAATTTAGTCCCTCTAATATT
1 ATTTTAAAAATTTAATCCATATAATATT
*
25646655 ATTTTAAAAAATTTAATCCATATAGTATT
1 ATTTT-AAAAATTTAATCCATATAATATT
25646684 ATTTT
1 ATTTT
25646689 TTAAGGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTTTAAAAATTTAATCCATATAATATT
Found at i:25646796 original size:29 final size:29
Alignment explanation
Indices: 25646737--25646796 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
25646727 CTAAATTAAC
* * * **
25646737 ATAATACTATAGGAGCTAAATTTATTTAA
1 ATAATACTATAAGAACTAAATTCATAAAA
*
25646766 ATAATACTATAAGAACTAAATTCCTAAAA
1 ATAATACTATAAGAACTAAATTCATAAAA
25646795 AT
1 AT
25646797 CAAAGAGTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
ATAATACTATAAGAACTAAATTCATAAAA
Found at i:25647013 original size:16 final size:16
Alignment explanation
Indices: 25646959--25647014 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
25646949 ATTATTTTTG
* *
25646959 TTTTAATATATTCACTA
1 TTTT-ATATATTAATTA
*
25646976 TTTATATATATTAATGA
1 TTT-TATATATTAATTA
25646993 TTTTAT-TATTAATATA
1 TTTTATATATTAAT-TA
25647009 TTTTAT
1 TTTTAT
25647015 GAGTTGATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 7 0.21
16 10 0.30
17 15 0.45
18 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTATATATTAATTA
Found at i:25647501 original size:15 final size:17
Alignment explanation
Indices: 25647473--25647504 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25647463 GACCTAATGT
25647473 AAATTATTCTAAGTAAA
1 AAATTATTCTAAGTAAA
25647490 AAATTA-TC-AAGTAAA
1 AAATTATTCTAAGTAAA
25647505 GCAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
AAATTATTCTAAGTAAA
Found at i:25647733 original size:5 final size:5
Alignment explanation
Indices: 25647723--25647747 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25647713 CAAGGTTAGG
25647723 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
25647748 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:25647797 original size:17 final size:17
Alignment explanation
Indices: 25647775--25647823 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
25647765 AATATTTTAT
*
25647775 ATAATAAAAATTTATGA
1 ATAATAAAAATTTATAA
* *
25647792 ATAATAAAATTTTTTAA
1 ATAATAAAAATTTATAA
*
25647809 ATAAAATAAAATTTA
1 ATAATA-AAAATTTA
25647824 AGCTTTCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATAAAAATTTATAA
Found at i:25650527 original size:12 final size:12
Alignment explanation
Indices: 25650507--25650546 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
25650497 AGTTTTGAAA
*
25650507 ATATTTATGTAT
1 ATATGTATGTAT
25650519 ATATGTATGTAT
1 ATATGTATGTAT
* *
25650531 GTATGTATATAT
1 ATATGTATGTAT
25650543 ATAT
1 ATAT
25650547 ATATATGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (12 bp):
ATATGTATGTAT
Found at i:25650638 original size:23 final size:23
Alignment explanation
Indices: 25650608--25650655 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
25650598 ATTTGCCTCT
*
25650608 GTTTAGTTTTAATACTTACATTA
1 GTTTAGTTTCAATACTTACATTA
*
25650631 GTTTAGTTTCAATACTTATATTA
1 GTTTAGTTTCAATACTTACATTA
25650654 GT
1 GT
25650656 ATAAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.52
Consensus pattern (23 bp):
GTTTAGTTTCAATACTTACATTA
Found at i:25651172 original size:11 final size:11
Alignment explanation
Indices: 25651152--25651195 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
25651142 ATAACTTATA
*
25651152 AATAAATTAAT
1 AATAATTTAAT
*
25651163 AACAATTTAAT
1 AATAATTTAAT
*
25651174 AATAAATTAAT
1 AATAATTTAAT
25651185 AATAATTTAAT
1 AATAATTTAAT
25651196 GTTAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:25651177 original size:22 final size:22
Alignment explanation
Indices: 25651152--25651227 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
25651142 ATAACTTATA
25651152 AATAAATTAATAACAATTTAAT
1 AATAAATTAATAACAATTTAAT
*
25651174 AATAAATTAATAATAATTTAAT
1 AATAAATTAATAACAATTTAAT
** * ** *
25651196 GTTAAATCAATTTCAGTTTAAT
1 AATAAATTAATAACAATTTAAT
25651218 AAT-AATTAAT
1 AATAAATTAAT
25651228 TAATAGTGGT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 6 0.14
22 37 0.86
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (22 bp):
AATAAATTAATAACAATTTAAT
Found at i:25651404 original size:22 final size:21
Alignment explanation
Indices: 25651335--25651418 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
25651325 GTAAATTAGT
* *
25651335 ATAACTTAATAGTAAATCATCA
1 ATAACTTAATAATAAATCAT-G
* * *
25651357 ATTACATAATAATTAATCAATG
1 ATAACTTAATAATAAATC-ATG
*
25651379 ATAACTTCATAATAAATCATG
1 ATAACTTAATAATAAATCATG
*
25651400 CATAATTTAAT-ATAAATCA
1 -ATAACTTAATAATAAATCA
25651419 ATAATAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 11 0.22
22 36 0.73
23 2 0.04
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATG
Found at i:25651530 original size:11 final size:10
Alignment explanation
Indices: 25651485--25651541 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
25651475 GTAAATAAAA
25651485 AATAAATAAAT
1 AATAAAT-AAT
*
25651496 AACAAATCAAT
1 AATAAAT-AAT
*
25651507 GATAACATAAT
1 AATAA-ATAAT
25651518 AATAAATACAT
1 AATAAATA-AT
25651529 AA-AAATAAT
1 AATAAATAAT
25651538 AATA
1 AATA
25651542 CATCATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 4 0.11
10 9 0.24
11 23 0.61
12 2 0.05
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.25
Consensus pattern (10 bp):
AATAAATAAT
Found at i:25651552 original size:17 final size:17
Alignment explanation
Indices: 25651513--25651554 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25651503 CAATGATAAC
25651513 ATAATAATAAATACATA
1 ATAATAATAAATACATA
*
25651530 AAAATAAT-AATACATCA
1 ATAATAATAAATACAT-A
*
25651547 TTAATAAT
1 ATAATAAT
25651555 TTAATAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAATAAATACATA
Found at i:25651704 original size:22 final size:22
Alignment explanation
Indices: 25651679--25651762 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
25651669 AATTTAATAG
*
25651679 AAATCATTCATAAATTAGAAGT
1 AAATCATTAATAAATTAGAAGT
* * * *
25651701 AAATTATTAATAATTTAGTATT
1 AAATCATTAATAAATTAGAAGT
* *
25651723 AAATCATTGATAACTTA-ATAGT
1 AAATCATTAATAAATTAGA-AGT
* * *
25651745 AAATAACTAATAACTTAG
1 AAATCATTAATAAATTAG
25651763 TTGTCATTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
AAATCATTAATAAATTAGAAGT
Found at i:25651746 original size:44 final size:43
Alignment explanation
Indices: 25651657--25651763 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 43
25651647 AACTTAGTGA
* * *
25651657 TAAATTATCAACAATTTAATAGAAATCATTCATAAATTAGAAG
1 TAAATTATTAATAATTTAGTAGAAATCATTCATAAATTAGAAG
* * *
25651700 TAAATTATTAATAATTTAGTATTAAATCATTGATAACTTA-ATAG
1 TAAATTATTAATAATTTAGTA-GAAATCATTCATAAATTAGA-AG
* * *
25651744 TAAATAACTAATAACTTAGT
1 TAAATTATTAATAATTTAGT
25651764 TGTCATTTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
43 19 0.36
44 34 0.64
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (43 bp):
TAAATTATTAATAATTTAGTAGAAATCATTCATAAATTAGAAG
Found at i:25654639 original size:23 final size:23
Alignment explanation
Indices: 25654604--25654666 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
25654594 TAGATAGACC
*
25654604 ATAAAAA-AAATAAAAATGAT-AA
1 ATAAAAATGAATAAAAAT-ATAAA
*
25654626 ATACAAAAT-TATAAAAATATAAA
1 ATA-AAAATGAATAAAAATATAAA
25654649 ATAAAAATGAATAAAAAT
1 ATAAAAATGAATAAAAAT
25654667 TCTTACACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (23 bp):
ATAAAAATGAATAAAAATATAAA
Found at i:25655264 original size:41 final size:41
Alignment explanation
Indices: 25655015--25655305 Score: 277
Period size: 42 Copynumber: 7.0 Consensus size: 41
25655005 ACAAAGACTT
* * * *
25655015 CTCTAAATAGAGGCTCAAGGACTTTGAAAAAATAAATTGGTC
1 CTCTAAACAGAGGCACAACGACTTTG-AAAAATAAATTGCTC
* *
25655057 CTCTAAACAGAGACTCAACGACTTTTGAAAAATAAATTGCTC
1 CTCTAAACAGAGGCACAACGAC-TTTGAAAAATAAATTGCTC
* *
25655099 CTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATGGCTC
1 CTCTAAACAGAGGCACAACGACTTTG-AAAAATAAATTGCTC
* * * * ** *
25655141 CTCTAATCAGAGGCTCAATGACTTTGGAAAATAAATTAATT
1 CTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTC
* * * * *
25655182 CTCTAGGA-AGAAGCACCATGAC-TTCAAAAATAAA-TGCTC
1 CTCTA-AACAGAGGCACAACGACTTTGAAAAATAAATTGCTC
* * *
25655221 CTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTC
25655262 CTCTAAACAGAGG--CAACGAAACTTTGAGAAAATAAATTGCTC
1 CTCTAAACAGAGGCACAACG--ACTTTGA-AAAATAAATTGCTC
25655304 CT
1 CT
25655306 TGACAATCAT
Statistics
Matches: 208, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.00
39 21 0.10
40 20 0.10
41 55 0.26
42 107 0.51
43 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (41 bp):
CTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTC
Found at i:25656402 original size:63 final size:63
Alignment explanation
Indices: 25656267--25656402 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
25656257 GCCAGGTTTA
* * *
25656267 TCAGCACTAACCATCTTAAAATAAACTTCATGTTCTATCACTTAGTCATCGTTCTTAAGCTTC
1 TCAGCACTAGCCATCTTAAAATAAACTTCATGTTCTATCACTTAGTCATCATTCATAAGCTTC
** * * * *
25656330 TCAATACTAGCTAT-TTCAAAATAAATTTCAT-TATCTGTCACTTTGTCATCATTCATAAGCTTC
1 TCAGCACTAGCCATCTT-AAAATAAACTTCATGT-TCTATCACTTAGTCATCATTCATAAGCTTC
25656393 TCAGCACTAG
1 TCAGCACTAG
25656403 TTTCGTCTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
62 3 0.05
63 57 0.95
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (63 bp):
TCAGCACTAGCCATCTTAAAATAAACTTCATGTTCTATCACTTAGTCATCATTCATAAGCTTC
Found at i:25657099 original size:9 final size:9
Alignment explanation
Indices: 25657085--25657178 Score: 56
Period size: 8 Copynumber: 10.6 Consensus size: 9
25657075 AATTTGAATC
25657085 TTTTTTTCA
1 TTTTTTTCA
25657094 -TTTTTTCA
1 TTTTTTTCA
25657102 TTTTTTTC-
1 TTTTTTTCA
**
25657110 TTTCATT--
1 TTTTTTTCA
*
25657117 TTTTTCTCTA
1 TTTTTTTC-A
*
25657127 TTTTTCTC-
1 TTTTTTTCA
25657135 TATTTTTTCA
1 T-TTTTTTCA
*
25657145 TTTTTCATCA
1 TTTTT-TTCA
25657155 TTTTTTTTC-
1 -TTTTTTTCA
25657164 TTTTTTCTCA
1 TTTTTT-TCA
25657174 TTTTT
1 TTTTT
25657179 CATCCATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
7 4 0.06
8 20 0.30
9 19 0.28
10 19 0.28
11 5 0.07
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:25657107 original size:10 final size:10
Alignment explanation
Indices: 25657085--25657178 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 10
25657075 AATTTGAATC
25657085 TTTTTTTCA-
1 TTTTTTTCAT
25657094 -TTTTTTCATTT
1 TTTTTTTCA--T
25657105 TTTTCTTTCAT
1 TTTT-TTTCAT
25657116 TTTTTTCTC-T
1 TTTTTT-TCAT
*
25657126 ATTTTTCTC-T
1 -TTTTTTTCAT
*
25657136 ATTTTTTCAT
1 TTTTTTTCAT
**
25657146 TTTTCATCAT
1 TTTTTTTCAT
25657156 TTTTTTTC-T
1 TTTTTTTCAT
*
25657165 TTTTTCTCAT
1 TTTTTTTCAT
25657175 TTTT
1 TTTT
25657179 CATCCATTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
8 8 0.12
9 14 0.21
10 25 0.37
11 12 0.18
12 3 0.04
13 5 0.07
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:25657120 original size:12 final size:13
Alignment explanation
Indices: 25657097--25657123 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25657087 TTTTTCATTT
25657097 TTTCATTTTTTTC
1 TTTCATTTTTTTC
25657110 TTTCATTTTTTTC
1 TTTCATTTTTTTC
25657123 T
1 T
25657124 CTATTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCATTTTTTTC
Found at i:25657129 original size:12 final size:12
Alignment explanation
Indices: 25657101--25657142 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
25657091 TCATTTTTTC
*
25657101 ATTTTTTTCTTT
1 ATTTTTTTCTCT
25657113 CATTTTTTTCTCT
1 -ATTTTTTTCTCT
25657126 A--TTTTTCTCT
1 ATTTTTTTCTCT
25657136 ATTTTTT
1 ATTTTTT
25657143 CATTTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 10 0.38
12 5 0.19
13 11 0.42
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTCTCT
Found at i:25657148 original size:29 final size:29
Alignment explanation
Indices: 25657091--25657189 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 29
25657081 AATCTTTTTT
*
25657091 TCATTTTTTCATTTTTTTCTTTCATTTTTTTC-
1 TCATTTTTTC--TCTTTT-TTTCA-TTTTTTCA
25657123 TC-TATTTTTCTCTATTTTTTCA-TTTTTCA
1 TCAT-TTTTTCTCT-TTTTTTCATTTTTTCA
*
25657152 TCATTTTTTTTCTTTTTTCTCA-TTTTTCA
1 TCATTTTTTCTCTTTTTT-TCATTTTTTCA
25657181 TCCATTTTT
1 T-CATTTTT
25657190 GATATCTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
28 11 0.19
29 21 0.36
30 15 0.25
31 4 0.07
32 8 0.14
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (29 bp):
TCATTTTTTCTCTTTTTTTCATTTTTTCA
Found at i:25661418 original size:120 final size:122
Alignment explanation
Indices: 25661119--25661434 Score: 369
Period size: 123 Copynumber: 2.6 Consensus size: 122
25661109 TGTGCAGGAA
* *
25661119 ATACTTTCAACTTTTCTCAAAAAATATTTTTTTAAAACTTTAATTTTGAGGAAAATTGATACTTT
1 ATACTTTCAACTTTT-TCAAAAAATA-TTTTTTAAAAC-TT-ATTTTTAAGAAAATTGATACTTT
*
25661184 CAACTTTTTCTAAAAAAAAAAACCTCTTTTTTTAAAAAAAAAATTATTTTTAAGAAAAATTG
62 CAACTTTTCCTAAAAAAAAAAACCTCTTTTTTT-AAAAAAAAATTATTTTTAAGAAAAATTG
* *
25661246 ATACTTTCAACTTTTTTC--AAAATA-TTTTTAAAACTT-TAATCTAGAGAAAAATTGATACTTT
1 ATACTTTCAAC-TTTTTCAAAAAATATTTTTTAAAACTTAT-TTTTA-AG-AAAATTGATACTTT
*** * *
25661307 CAACTTTTCCTAAAAAAAACCTCC-CTTTTTTT-TAAAAAACTTATTTTT-A-AAAAATTG
62 CAACTTTTCCTAAAAAAAAAAACCTCTTTTTTTAAAAAAAAATTATTTTTAAGAAAAATTG
* *
25661364 ATACTTTCAACTTTTTCAAAAAATATTTTTTAGAAAGCTTATTTTTAAGAAAATTGACACTTTTA
1 ATACTTTCAACTTTTTCAAAAAATATTTTTTA-AAA-CTTATTTTTAAGAAAATTGATACTTTCA
25661429 ACTTTT
64 ACTTTT
25661435 TTTCAAAATA
Statistics
Matches: 165, Mismatches: 14, Indels: 27
0.80 0.07 0.13
Matches are distributed among these distances:
117 6 0.04
118 19 0.12
119 7 0.04
120 41 0.25
121 7 0.04
122 17 0.10
123 45 0.27
125 6 0.04
127 13 0.08
128 4 0.02
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (122 bp):
ATACTTTCAACTTTTTCAAAAAATATTTTTTAAAACTTATTTTTAAGAAAATTGATACTTTCAAC
TTTTCCTAAAAAAAAAAACCTCTTTTTTTAAAAAAAAATTATTTTTAAGAAAAATTG
Found at i:25663862 original size:23 final size:24
Alignment explanation
Indices: 25663801--25663864 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
25663791 TAGATAGATC
*
25663801 ATAAAAA-AAATAAAAATGATAAAT
1 ATAAAAATAAATAAAAAT-TTAAAT
*
25663825 ACAAAAAT-AA-AAAAATTTAAA-
1 ATAAAAATAAATAAAAATTTAAAT
25663846 ATAAAAATAAATAAAAATT
1 ATAAAAATAAATAAAAATT
25663865 CCTACACCCG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 7 0.21
22 6 0.18
23 13 0.38
24 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
ATAAAAATAAATAAAAATTTAAAT
Found at i:25666072 original size:63 final size:65
Alignment explanation
Indices: 25665991--25666113 Score: 144
Period size: 63 Copynumber: 1.9 Consensus size: 65
25665981 TAAAAAAGCT
* * * * *
25665991 AAACACTTAATTTGCTTTTGTAAATATATTAGAAAA-A-GTATCAAATAATGCATTTGTTCAAAA
1 AAACACTTAATTTACTTTTATAAAGATATTAAAAAATATGTATCAAATAAGGCATTTGTTCAAAA
* *
25666054 AAACATCTT-ATTTACTTTTATAAAGATTTTAAAAAATTATTTATCAAATAAGGCATTTGT
1 AAACA-CTTAATTTACTTTTATAAAGATATTAAAAAA-TATGTATCAAATAAGGCATTTGT
25666114 AAGAAAAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
63 27 0.55
64 3 0.06
65 1 0.02
66 18 0.37
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (65 bp):
AAACACTTAATTTACTTTTATAAAGATATTAAAAAATATGTATCAAATAAGGCATTTGTTCAAAA
Found at i:25666182 original size:39 final size:39
Alignment explanation
Indices: 25666095--25666417 Score: 244
Period size: 39 Copynumber: 8.2 Consensus size: 39
25666085 AAAAATTATT
* **
25666095 TATCAAATAAGGCATTTGTAAGAAAAAACGTTTTAATTGA
1 TATCAAATAAGGC-TTTGTAAGAACAAACGCCTTAATTGA
* *
25666135 TATTAAATAAGGCATTTATAAGAACAAA-GCCTTAATTGA
1 TATCAAATAAGGC-TTTGTAAGAACAAACGCCTTAATTGA
* * *
25666174 TATCAAATAAGGTGTTTGTAGGAACAAA-GCCTTATTTGA
1 TATCAAATAAGG-CTTTGTAAGAACAAACGCCTTAATTGA
* * * ** *
25666213 TATCAAATAAGATG-TTTGTAGGAATAAATGTATTAATTAA
1 TATCAAATAAG--GCTTTGTAAGAACAAACGCCTTAATTGA
* * * * * *
25666253 TACCAATTAAGTCACTTGTAAGAATAAATAC-CCATAATTGA
1 TATCAAATAAGGC-TTTGTAAGAA-CAA-ACGCCTTAATTGA
*
25666294 TATCAAATAAAGTGC-TTGTAAGAACAAACGTCTTAATTGA
1 TATCAAAT-AAG-GCTTTGTAAGAACAAACGCCTTAATTGA
** * *
25666334 TATCAAATAAAACGTTGTAGGAACAAA-GCCTTAATTGA
1 TATCAAATAAGGCTTTGTAAGAACAAACGCCTTAATTGA
* * * *
25666372 TATCAAATAAGACTCTCGTAGGAACAAACCCCTTAATTGA
1 TATCAAATAAGGCT-TTGTAAGAACAAACGCCTTAATTGA
25666412 TATCAA
1 TATCAA
25666418 TCAATTAAGT
Statistics
Matches: 229, Mismatches: 40, Indels: 28
0.77 0.13 0.09
Matches are distributed among these distances:
38 23 0.10
39 94 0.41
40 83 0.36
41 24 0.10
42 4 0.02
43 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (39 bp):
TATCAAATAAGGCTTTGTAAGAACAAACGCCTTAATTGA
Found at i:25666408 original size:159 final size:158
Alignment explanation
Indices: 25666128--25666418 Score: 372
Period size: 159 Copynumber: 1.8 Consensus size: 158
25666118 AAAAACGTTT
* ***
25666128 TAATTGATATTAAATAAGGCATTTATAAGAACAAAGCCTTAATTGATATCAAATAAGGTGTTTGT
1 TAATTGATATCAAATAAGGCA-TTATAAGAACAAAGCCTTAATTGATATCAAATAAAACGTTTGT
* * * * ***
25666193 AGGAACAAAGCCTTATTTGATATCAAATAAGATGTTTGTAGGAATAAATGTATTAATTAATACCA
65 AGGAACAAAGCCTTAATTGATATCAAATAAGATGCTCGTAGGAACAAACCCATTAATTAATACCA
25666258 ATTAAGTCACTTGTAAGAATAAATACCCA
130 ATTAAGTCACTTGTAAGAATAAATACCCA
* *
25666287 TAATTGATATCAAATAAAGTGC-TTGTAAGAACAAACGTCTTAATTGATATCAAATAAAACG-TT
1 TAATTGATATCAAAT-AAG-GCATTATAAGAACAAA-GCCTTAATTGATATCAAATAAAACGTTT
* *
25666350 GTAGGAACAAAGCCTTAATTGATATCAAATAAGACT-CTCGTAGGAACAAACCCCTTAATTGATA
63 GTAGGAACAAAGCCTTAATTGATATCAAATAAGA-TGCTCGTAGGAACAAACCCATTAATTAATA
*
25666414 TCAAT
127 CCAAT
25666419 CAATTAAGTT
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
159 85 0.76
160 25 0.22
161 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (158 bp):
TAATTGATATCAAATAAGGCATTATAAGAACAAAGCCTTAATTGATATCAAATAAAACGTTTGTA
GGAACAAAGCCTTAATTGATATCAAATAAGATGCTCGTAGGAACAAACCCATTAATTAATACCAA
TTAAGTCACTTGTAAGAATAAATACCCA
Found at i:25668784 original size:38 final size:38
Alignment explanation
Indices: 25668735--25668809 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 38
25668725 AAATTTGATC
25668735 TAATTTAATATTATATAAAAAAT-TATTTT-TTAATTTTT
1 TAATTTAATATT-TA-AAAAAATATATTTTATTAATTTTT
*
25668773 TAATTTTATATTTAAAAAAATAATATTTTATTAATTT
1 TAATTTAATATTTAAAAAAAT-ATATTTTATTAATTT
25668810 CAAATTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 7 0.21
37 2 0.06
38 17 0.52
39 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (38 bp):
TAATTTAATATTTAAAAAAATATATTTTATTAATTTTT
Found at i:25668825 original size:31 final size:32
Alignment explanation
Indices: 25668790--25668853 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
25668780 ATATTTAAAA
* *
25668790 AAATAATATTTTAT-TAATTTCA-AATTAAATT
1 AAAT-ATAATTTATATAATATCATAATTAAATT
*
25668821 AAATATAATTTATATAATATCATATTTAAATT
1 AAATATAATTTATATAATATCATAATTAAATT
25668853 A
1 A
25668854 GATTCGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 8 0.29
31 11 0.39
32 9 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATATAATTTATATAATATCATAATTAAATT
Found at i:25672236 original size:50 final size:50
Alignment explanation
Indices: 25672144--25672238 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
25672134 TAATTAGACC
* * * *
25672144 AAAAAATGCTAATAATTATTGACTAAAATACCCTTAAAAATTTTTAATTT
1 AAAAAATGCTAAAAATGATTGAATAAAATACCATTAAAAATTTTTAATTT
* **
25672194 AAAAAATGTTAAAAATGATTGAATAAAATACCATTAGTAATTTTT
1 AAAAAATGCTAAAAATGATTGAATAAAATACCATTAAAAATTTTT
25672239 TATAAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (50 bp):
AAAAAATGCTAAAAATGATTGAATAAAATACCATTAAAAATTTTTAATTT
Found at i:25673687 original size:52 final size:51
Alignment explanation
Indices: 25673609--25673711 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 51
25673599 TTTTCAATTG
*
25673609 ATTTAACTAATAATTACATTCAATTGATGAAAGTATCAATGGAAGATTATTC
1 ATTTAACTAATAATTACATTCAATTGAAGAAAGTA-CAATGGAAGATTATTC
*
25673661 ATTTAACTTATAATTACATTCAATTGAAGAAAGTACAATGGAAGATTATTC
1 ATTTAACTAATAATTACATTCAATTGAAGAAAGTACAATGGAAGATTATTC
25673712 TAAGCAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 16 0.33
52 33 0.67
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (51 bp):
ATTTAACTAATAATTACATTCAATTGAAGAAAGTACAATGGAAGATTATTC
Found at i:25676450 original size:23 final size:23
Alignment explanation
Indices: 25676423--25676470 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
25676413 ATGACGGTCT
* *
25676423 GTTTAGTTTCAATACTTATATTA
1 GTTTAGTTTCAATACTAACATTA
25676446 GTTTAGTTTCAATACTAACATTA
1 GTTTAGTTTCAATACTAACATTA
25676469 GT
1 GT
25676471 ATAAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (23 bp):
GTTTAGTTTCAATACTAACATTA
Found at i:25676758 original size:42 final size:42
Alignment explanation
Indices: 25676675--25676776 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 42
25676665 AGTAAATAAT
* * * *
25676675 TAATAACTTAGTAATTAATCATTGAAAACTTAAATGTAATTAG
1 TAATAACTTAGT-AGTAATCATCGAAAACTTAAATGAAATTAA
*
25676718 T-ATAACTTAGTAGTAATCATCGATAACTTAGTAAT-AAATTAA
1 TAATAACTTAGTAGTAATCATCGAAAACTTA--AATGAAATTAA
25676760 TAATAACTT-GATAGTAA
1 TAATAACTTAG-TAGTAA
25676777 ATGAATGATA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 16 0.32
42 17 0.34
43 17 0.34
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (42 bp):
TAATAACTTAGTAGTAATCATCGAAAACTTAAATGAAATTAA
Found at i:25676768 original size:22 final size:22
Alignment explanation
Indices: 25676646--25676768 Score: 62
Period size: 22 Copynumber: 5.7 Consensus size: 22
25676636 TGATATATAC
* * *
25676646 AAATCAATAATAACATAGTAGT
1 AAATTAATAATAACTTAGTAAT
25676668 AAA-TAATTAATAACTTAGTAAT
1 AAATTAA-TAATAACTTAGTAAT
* * *
25676690 TAATCATTGAA-AACTTA--AAT
1 AAATTAAT-AATAACTTAGTAAT
* * *
25676710 GTAATTAGT-ATAACTTAGTAGT
1 -AAATTAATAATAACTTAGTAAT
* *
25676732 -AA-TCATCGATAACTTAGTAAT
1 AAATTAAT-AATAACTTAGTAAT
25676753 AAATTAATAATAACTT
1 AAATTAATAATAACTT
25676769 GATAGTAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
19 3 0.04
20 11 0.14
21 20 0.26
22 36 0.47
23 6 0.08
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (22 bp):
AAATTAATAATAACTTAGTAAT
Found at i:25676777 original size:22 final size:22
Alignment explanation
Indices: 25676740--25676796 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
25676730 GTAATCATCG
* * *
25676740 ATAACTTAGTAATAAATTAATA
1 ATAACTTAATAGTAAATGAATA
* *
25676762 ATAACTTGATAGTAAATGAATG
1 ATAACTTAATAGTAAATGAATA
*
25676784 ATAATTTAATAGT
1 ATAACTTAATAGT
25676797 CAATAATTGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATGAATA
Found at i:25677134 original size:22 final size:22
Alignment explanation
Indices: 25677078--25677135 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
25677068 AATAACTAAC
*
25677078 TAGTAAATCAATGATAAATTAG
1 TAGTAAATCATTGATAAATTAG
* * *
25677100 TAATAAATAATTGATAATTTAG
1 TAGTAAATCATTGATAAATTAG
*
25677122 TAGTTAATCATTGA
1 TAGTAAATCATTGA
25677136 AAACTTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTGATAAATTAG
Found at i:25677388 original size:19 final size:19
Alignment explanation
Indices: 25677350--25677389 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25677340 AAAGTAAATC
* *
25677350 ATTGATAATTTAATATTAA
1 ATTGATAATTTAACAGTAA
*
25677369 ATTGATAATTTAGCAGTAA
1 ATTGATAATTTAACAGTAA
25677388 AT
1 AT
25677390 CACTAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (19 bp):
ATTGATAATTTAACAGTAA
Found at i:25677434 original size:22 final size:22
Alignment explanation
Indices: 25677385--25677435 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
25677375 AATTTAGCAG
*
25677385 TAAATCACTAATAATGTAATTA
1 TAAATTACTAATAATGTAATTA
*
25677407 TAAATTACTAATAACT-TAGTTA
1 TAAATTACTAATAA-TGTAATTA
25677429 TAAATTA
1 TAAATTA
25677436 GTGATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATTACTAATAATGTAATTA
Found at i:25677442 original size:22 final size:22
Alignment explanation
Indices: 25677393--25677459 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
25677383 AGTAAATCAC
* * *
25677393 TAATAATGTAATTATAAATTAC
1 TAATAATCTTATTATAAATTAG
25677415 TAATAA-CTTAGTTATAAATTAG
1 TAATAATCTTA-TTATAAATTAG
* * *
25677437 TGATAATTTTATTGTAAATTAG
1 TAATAATCTTATTATAAATTAG
25677459 T
1 T
25677460 TATCATTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 2 0.05
22 32 0.86
23 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (22 bp):
TAATAATCTTATTATAAATTAG
Found at i:25677487 original size:22 final size:22
Alignment explanation
Indices: 25677461--25677650 Score: 91
Period size: 22 Copynumber: 8.7 Consensus size: 22
25677451 TAAATTAGTT
**
25677461 ATCATTGATAATTTTTTAGTAA
1 ATCATTGATAATTTAATAGTAA
* * *
25677483 ATCATCGATAAATTAGTAGTAA
1 ATCATTGATAATTTAATAGTAA
25677505 ATCAGTT-ATAATTTAATAGTAA
1 ATCA-TTGATAATTTAATAGTAA
* * * *
25677527 ATTATTAATAACTTAGT-GATAA
1 ATCATTGATAATTTAATAG-TAA
* *** *
25677549 ATTACCAACAATTTAATAG-AA
1 ATCATTGATAATTTAATAGTAA
* * *
25677570 ATCATTCATAAATTAGA-ACTAA
1 ATCATTGATAATTTA-ATAGTAA
* * * *
25677592 ATTATTAATAATTTAGTAATAA
1 ATCATTGATAATTTAATAGTAA
* * * *
25677614 ATAATTAATAACTTAATAGTAC
1 ATCATTGATAATTTAATAGTAA
*
25677636 ATAATTGATAATTTA
1 ATCATTGATAATTTA
25677651 GTTGTTATTT
Statistics
Matches: 127, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
21 15 0.12
22 110 0.87
23 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
ATCATTGATAATTTAATAGTAA
Found at i:25677562 original size:117 final size:114
Alignment explanation
Indices: 25677347--25677562 Score: 263
Period size: 117 Copynumber: 1.9 Consensus size: 114
25677337 AAAAAAGTAA
* *
25677347 ATCATTGATAATTTAATATTAAATTGATAATTTAGCAGTAAATCACTAATAATGTAATTATAAAT
1 ATCATTGATAATTTAATAGTAAATTGATAAATTAGCAGTAAATCACTAATAATGTAATTATAAAT
* *** *
25677412 TACTAATAACTTAGTTATAAATTAGTGATAATTTTATTGTAAATTAGTT
66 TACTAATAACTTAGTGATAAATTACCAACAATTTTATTGTAAATTAGTT
** * * * *
25677461 ATCATTGATAATTTTTTAGTAAATCATCGATAAATTAGTAGTAAATCAGTTATAATTTAA-TAGT
1 ATCATTGATAATTTAATAGTAAAT--T-GATAAATTAGCAGTAAATCACTAATAATGTAATTA-T
*
25677525 AAATTATTAATAACTTAGTGATAAATTACCAACAATTT
62 AAATTACTAATAACTTAGTGATAAATTACCAACAATTT
25677563 AATAGAAATC
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
114 21 0.25
116 3 0.04
117 60 0.71
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (114 bp):
ATCATTGATAATTTAATAGTAAATTGATAAATTAGCAGTAAATCACTAATAATGTAATTATAAAT
TACTAATAACTTAGTGATAAATTACCAACAATTTTATTGTAAATTAGTT
Found at i:25679280 original size:18 final size:17
Alignment explanation
Indices: 25679251--25679285 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25679241 CATGTAAATG
25679251 AAAATGAATAAACATAT
1 AAAATGAATAAACATAT
*
25679268 AAAATGTAATAAATATAT
1 AAAATG-AATAAACATAT
25679286 GGGCCGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATGAATAAACATAT
Found at i:25680485 original size:11 final size:11
Alignment explanation
Indices: 25680471--25680532 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
25680461 AATGTTTACA
*
25680471 AATAATTTAAT
1 AATAAATTAAT
* *
25680482 AATAAATCAAA
1 AATAAATTAAT
**
25680493 AATAGCTTAAT
1 AATAAATTAAT
*
25680504 AATAAAATAAT
1 AATAAATTAAT
*
25680515 AATAATTTAAT
1 AATAAATTAAT
*
25680526 ACTAAAT
1 AATAAAT
25680533 CAAATTCAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:25680502 original size:22 final size:22
Alignment explanation
Indices: 25680470--25680536 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
25680460 GAATGTTTAC
*
25680470 AAATAATTTAATAATAAATCAA
1 AAATAACTTAATAATAAATCAA
*
25680492 AAATAGCTTAATAATAAAAT-AA
1 AAATAACTTAATAAT-AAATCAA
* * *
25680514 TAATAATTTAATACTAAATCAA
1 AAATAACTTAATAATAAATCAA
25680536 A
1 A
25680537 TTCAATTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 4 0.11
22 28 0.78
23 4 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (22 bp):
AAATAACTTAATAATAAATCAA
Found at i:25680697 original size:14 final size:14
Alignment explanation
Indices: 25680661--25680699 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
25680651 TAATAACACT
25680661 TAATTAATTA-TTAA
1 TAATTAA-TAGTTAA
*
25680675 TACTTAATAGTTAA
1 TAATTAATAGTTAA
25680689 TAATTAATAGT
1 TAATTAATAGT
25680700 AGTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (14 bp):
TAATTAATAGTTAA
Found at i:25680857 original size:26 final size:24
Alignment explanation
Indices: 25680800--25680861 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 24
25680790 TAATCAAAAT
25680800 TAAGTAGTAAATTATTGATAATATA
1 TAAG-AGTAAATTATTGATAATATA
*
25680825 T-A-TGTAAATTATTGATAACTTATA
1 TAAGAGTAAATTATTGATAA--TATA
25680849 TAAGAGTAAATTA
1 TAAGAGTAAATTA
25680862 CTAATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 15 0.48
24 6 0.19
25 2 0.06
26 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (24 bp):
TAAGAGTAAATTATTGATAATATA
Done.