Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 158 of 284
Found at i:52967592 original size:40 final size:40
Alignment explanation
Indices: 52967532--52967661 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
52967522 TTCGAATGAT
* * *
52967532 ATCCAGGTTAGGTCCCGAAGGCATTTGGGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAA
*
52967572 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-A
* * *
52967613 A-CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAA
52967652 ATCC-GGTTAA
1 ATCCGGGTTAA
52967662 ATTTTGAAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 7 0.09
40 69 0.88
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAA
Found at i:52973932 original size:21 final size:21
Alignment explanation
Indices: 52973906--52973949 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
52973896 ATAGCTTAGT
52973906 AAGCTCGTATGAAATAAACTC
1 AAGCTCGTATGAAATAAACTC
52973927 AAGCTCGTATGAAATAAACTC
1 AAGCTCGTATGAAATAAACTC
52973948 AA
1 AA
52973950 TCTTAACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (21 bp):
AAGCTCGTATGAAATAAACTC
Found at i:52974993 original size:21 final size:20
Alignment explanation
Indices: 52974965--52975003 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
52974955 CAAAACTTGT
52974965 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
52974985 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
52975004 CAAAAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:52975135 original size:21 final size:19
Alignment explanation
Indices: 52975100--52975138 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
52975090 CAGCGATCTC
52975100 AAAAACAAAAAAAATCATT
1 AAAAACAAAAAAAATCATT
52975119 AAAAACAGAACAAAAATCAT
1 AAAAACA-AA-AAAAATCAT
52975139 CCCTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAACAAAAAAAATCATT
Found at i:52977644 original size:42 final size:42
Alignment explanation
Indices: 52977566--52977684 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
52977556 ATGGCATTGA
* * * * * *
52977566 CATCGGTATGTGATTTCATGTAAGACCATATTTGGGATAT-G
1 CATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATCG
* * *
52977607 ACGTTGATATGAGATTTCGTGTAAGGCCATGTCTGGGACATCG
1 -CATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATCG
* **
52977650 CATCGATATGAGGTCCCGTGTAAGACCATGTCTGG
1 CATCGATATGAGATTTCGTGTAAGACCATGTCTGG
52977685 TTCATGGCAT
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
CATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATCG
Found at i:52977781 original size:90 final size:90
Alignment explanation
Indices: 52977615--52977781 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
52977605 TGACGTTGAT
* * * ** ** *
52977615 ATGAGATTTCGTGTAAGGCCATGTCTGGGACATCGCATCGATATGAGGTCCCGTGTAAGACCATG
1 ATGAGACTTCGTATAAGACCAAATCTGGGACATCGCATCGATATGAGAACCCATGTAAGACCATG
* **
52977680 TCTGGTTCATGGCATCGGCATCTAC
66 TCAGGGACATGGCATCGGCATCTAC
* *
52977705 ATGAGACTTCGTATAAGACCAAATCTGGGATATGGCATCGATATGTA-AACCCATGTAAGACCAT
1 ATGAGACTTCGTATAAGACCAAATCTGGGACATCGCATCGATATG-AGAACCCATGTAAGACCAT
52977769 GTCAGGGACATGG
65 GTCAGGGACATGG
52977782 TTTTGGAATT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (90 bp):
ATGAGACTTCGTATAAGACCAAATCTGGGACATCGCATCGATATGAGAACCCATGTAAGACCATG
TCAGGGACATGGCATCGGCATCTAC
Found at i:52985393 original size:14 final size:14
Alignment explanation
Indices: 52985374--52985407 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
52985364 GGGAGTTTTT
52985374 CCAAGAGGAATTTC
1 CCAAGAGGAATTTC
52985388 CCAAGAGGAATTTC
1 CCAAGAGGAATTTC
*
52985402 GCAAGA
1 CCAAGA
52985408 AGTATATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (14 bp):
CCAAGAGGAATTTC
Found at i:52988237 original size:14 final size:15
Alignment explanation
Indices: 52988218--52988248 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52988208 GTGTTTATTT
52988218 TGTGTG-AATTTGCA
1 TGTGTGAAATTTGCA
52988232 TGTGTGAAATTTGCA
1 TGTGTGAAATTTGCA
52988247 TG
1 TG
52988249 AATTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (15 bp):
TGTGTGAAATTTGCA
Found at i:52993746 original size:42 final size:42
Alignment explanation
Indices: 52993700--52993781 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
52993690 ATGGCGTTGG
* *
52993700 TATGAGATTTCATGTAAGACCATGTCTAGGACATGGCATCAA
1 TATGAGATCTCATGCAAGACCATGTCTAGGACATGGCATCAA
* * * *
52993742 TATGAGGTCTCATGCAAGACCATTTCTGGGACGTGGCATC
1 TATGAGATCTCATGCAAGACCATGTCTAGGACATGGCATC
52993782 GACACTGACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TATGAGATCTCATGCAAGACCATGTCTAGGACATGGCATCAA
Found at i:53000464 original size:93 final size:94
Alignment explanation
Indices: 53000348--53000587 Score: 265
Period size: 96 Copynumber: 2.5 Consensus size: 94
53000338 ATTCTTTTTT
* *
53000348 TTTTTTGCACTCAATTTGG-TACTTGAACTTTCAAAAATGCATCAAAAAGGCTATCAAACTTTTT
1 TTTTTTGCACTCAA-TTGGATACTTGAACTTTC-AAAATGCATAAAAAAGGCCATCAAACTTTTT
*
53000412 TAAAAAAAAGCCA-TTGA-CCCGTTGCTT-C-A
64 TAAAAAAAAG-CAGTTAAGCCC-TTGCTTCCTA
* * * ** *
53000441 TTTTTTGCACTCAATTGGATACTTGAACTTTCAAATTGCATAAAAAAGGCCCTTAATTTTTTTTC
1 TTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATGCATAAAAAAGGCCATCAAACTTTTTTA
* *
53000506 AAAATAAGCAGTTAAGCCCTTGCTTCCCCTT
66 AAAAAAAGCAGTTAAGCCCTTGCTT--CCTA
** *
53000537 TTTTTTGTGCTCAATTGGATACTTGAACTGTCAAAATGCATAAAAAAGGCC
1 TTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATGCATAAAAAAGGCC
53000588 CTTTGACTGT
Statistics
Matches: 125, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 45 0.36
93 30 0.24
95 1 0.01
96 47 0.38
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (94 bp):
TTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATGCATAAAAAAGGCCATCAAACTTTTTTA
AAAAAAAGCAGTTAAGCCCTTGCTTCCTA
Found at i:53000736 original size:19 final size:20
Alignment explanation
Indices: 53000703--53000747 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
53000693 ATGATAACAA
53000703 ATAAAAAGCAATAAATGTT-
1 ATAAAAAGCAATAAATGTTC
* * *
53000722 ATAAAAAGTATTAAATTTTC
1 ATAAAAAGCAATAAATGTTC
53000742 ATAAAA
1 ATAAAA
53000748 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAAAAAGCAATAAATGTTC
Found at i:53001007 original size:10 final size:10
Alignment explanation
Indices: 53000973--53001128 Score: 66
Period size: 10 Copynumber: 16.4 Consensus size: 10
53000963 TTTTGGCACA
53000973 ATAA-TTTTT
1 ATAATTTTTT
53000982 AT-ATTTCTTT
1 ATAATTT-TTT
*
53000992 A-CATTTTTT
1 ATAATTTTTT
53001001 ATAATTTTCTT
1 ATAATTTT-TT
* *
53001012 ACGAA-TTTAT
1 A-TAATTTTTT
53001022 A-AATTTTTT
1 ATAATTTTTT
53001031 -TAATTTTTT
1 ATAATTTTTT
* *
53001040 CT-ATATTTCT
1 ATAAT-TTTTT
*
53001050 AT-ATATTTT
1 ATAATTTTTT
*
53001059 ATAATATTTT
1 ATAATTTTTT
*
53001069 ATGA-TTTTT
1 ATAATTTTTT
**
53001078 ATAAAATTTT
1 ATAATTTTTT
*
53001088 ACAA-TTTTT
1 ATAATTTTTT
53001097 ATAATTTTTT
1 ATAATTTTTT
**
53001107 -CGA-TTTTT
1 ATAATTTTTT
*
53001115 ATAATTTTTA
1 ATAATTTTTT
53001125 ATAA
1 ATAA
53001129 AATTTAAACA
Statistics
Matches: 112, Mismatches: 20, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
8 8 0.07
9 43 0.38
10 53 0.47
11 6 0.05
12 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:53001008 original size:9 final size:9
Alignment explanation
Indices: 53000973--53001124 Score: 85
Period size: 9 Copynumber: 16.1 Consensus size: 9
53000963 TTTTGGCACA
53000973 ATAATTTTT
1 ATAATTTTT
*
53000982 ATATTTCTTT
1 ATAATT-TTT
* *
53000992 ACATTTTTT
1 ATAATTTTT
53001001 ATAATTTTCTT
1 ATAA-TTT-TT
* *
53001012 ACGAATTTAT
1 A-TAATTTTT
53001022 A-AATTTTT
1 ATAATTTTT
*
53001030 TTAATTTTTT
1 ATAA-TTTTT
* *
53001040 CTATATTTCT
1 ATA-ATTTTT
53001050 AT-ATATTTT
1 ATAAT-TTTT
53001059 ATAATATTTT
1 ATAAT-TTTT
*
53001069 ATGATTTTT
1 ATAATTTTT
*
53001078 ATAAAATTTT
1 AT-AATTTTT
*
53001088 ACAATTTTT
1 ATAATTTTT
53001097 ATAATTTTT
1 ATAATTTTT
*
53001106 -TCGATTTTT
1 AT-AATTTTT
53001115 ATAATTTTT
1 ATAATTTTT
53001124 A
1 A
53001125 ATAAAATTTA
Statistics
Matches: 111, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
8 9 0.08
9 50 0.45
10 43 0.39
11 7 0.06
12 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:53001077 original size:19 final size:19
Alignment explanation
Indices: 53001042--53001124 Score: 84
Period size: 19 Copynumber: 4.4 Consensus size: 19
53001032 AATTTTTTCT
53001042 ATATTTCTAT-ATATTTTATA
1 ATATTT-TATGAT-TTTTATA
53001062 ATATTTTATGATTTTTATA
1 ATATTTTATGATTTTTATA
* **
53001081 AAATTTTACAATTTTTATA
1 ATATTTTATGATTTTTATA
53001100 AT-TTTT-TCGATTTTTATA
1 ATATTTTAT-GATTTTTATA
53001118 AT-TTTTA
1 ATATTTTA
53001125 ATAAAATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 19 0.35
19 27 0.50
20 8 0.15
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
ATATTTTATGATTTTTATA
Found at i:53001270 original size:7 final size:7
Alignment explanation
Indices: 53001254--53001297 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
53001244 TTAACTTTAA
53001254 AAACCTT
1 AAACCTT
*
53001261 AAACCCT
1 AAACCTT
53001268 AAACCTT
1 AAACCTT
*
53001275 AAATCTT
1 AAACCTT
*
53001282 AAACCCT
1 AAACCTT
*
53001289 AAACTTT
1 AAACCTT
53001296 AA
1 AA
53001298 CAGTAAACTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
AAACCTT
Found at i:53001283 original size:21 final size:21
Alignment explanation
Indices: 53001258--53001297 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53001248 CTTTAAAAAC
53001258 CTTAAACCCTAAACCTTAAAT
1 CTTAAACCCTAAACCTTAAAT
*
53001279 CTTAAACCCTAAACTTTAA
1 CTTAAACCCTAAACCTTAA
53001298 CAGTAAACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (21 bp):
CTTAAACCCTAAACCTTAAAT
Found at i:53002665 original size:21 final size:21
Alignment explanation
Indices: 53002610--53002675 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
53002600 CAAACTTTTG
* *
53002610 AACCTT-AACCTTAA-CCTTG
1 AACCTTAAACCTAAATCCTTA
*
53002629 AACCCTAAACCCTAAATCCTTA
1 AACCTTAAA-CCTAAATCCTTA
*
53002651 AACCTTAAACCTAAATCATTA
1 AACCTTAAACCTAAATCCTTA
53002672 AACC
1 AACC
53002676 CCAAACCCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 5 0.13
20 2 0.05
21 20 0.51
22 12 0.31
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
AACCTTAAACCTAAATCCTTA
Found at i:53002681 original size:21 final size:21
Alignment explanation
Indices: 53002629--53002682 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
53002619 CTTAACCTTG
*
53002629 AACCCTAAACCCTAAATCCTTA
1 AACCCTAAA-CCTAAATCATTA
*
53002651 AACCTTAAACCTAAATCATTA
1 AACCCTAAACCTAAATCATTA
*
53002672 AACCCCAAACC
1 AACCCTAAACC
53002683 CAATCTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCTAAATCATTA
Found at i:53004394 original size:25 final size:25
Alignment explanation
Indices: 53004366--53004419 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
53004356 AAATATTTTT
** *
53004366 TAAAATTAAATATTTTAATTAATAA
1 TAAAATTAAATATAATAATAAATAA
53004391 TAAAATTAAATATAATAATAAATAA
1 TAAAATTAAATATAATAATAAATAA
53004416 TAAA
1 TAAA
53004420 TATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAATTAAATATAATAATAAATAA
Found at i:53004436 original size:22 final size:19
Alignment explanation
Indices: 53004385--53004428 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
53004375 ATATTTTAAT
*
53004385 TAATAATAAA-ATTAAATA
1 TAATAATAAATAATAAATA
53004403 TAATAATAAATAATAAATA
1 TAATAATAAATAATAAATA
53004422 TAATAAT
1 TAATAAT
53004429 TTTAAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATAATAAATAATAAATA
Found at i:53005688 original size:45 final size:45
Alignment explanation
Indices: 53005615--53005783 Score: 182
Period size: 45 Copynumber: 3.8 Consensus size: 45
53005605 AAAAGTCTGT
** *
53005615 AGAT-AAA-CTACTAGTATGGTGTGAATAAACCACTCATTAGTGC
1 AGATAAAAGCTACTAGTACAGTGTGGATAAACCACTCATTAGTGC
* * * *
53005658 AGATAAATGCTACTAGTACGGTATGGATAAACCACTCATTAGTAC
1 AGATAAAAGCTACTAGTACAGTGTGGATAAACCACTCATTAGTGC
* * *** *
53005703 AAATAAAAGCTAATAGTACAGTGTGGATAAACCACT-AACCGATGT
1 AGATAAAAGCTACTAGTACAGTGTGGATAAACCACTCATTAG-TGC
*
53005748 AGATAAAAGCTGCTAGTACAGTGTGGATAAACCACT
1 AGATAAAAGCTACTAGTACAGTGTGGATAAACCACT
53005784 AATCGATGTA
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
43 4 0.04
44 4 0.04
45 97 0.92
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (45 bp):
AGATAAAAGCTACTAGTACAGTGTGGATAAACCACTCATTAGTGC
Found at i:53005753 original size:21 final size:21
Alignment explanation
Indices: 53005728--53005799 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
53005718 GTACAGTGTG
53005728 GATAAACCACTAACCGATGTA
1 GATAAACCACTAACCGATGTA
** * *
53005749 GATAAAAGCTGCTAGTACAG-TGTG
1 GAT-AAA-CCACTA--ACCGATGTA
*
53005773 GATAAACCACTAATCGATGTA
1 GATAAACCACTAACCGATGTA
53005794 GATAAA
1 GATAAA
53005800 TTGCTTATAC
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 7 0.19
23 7 0.19
24 6 0.16
25 3 0.08
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (21 bp):
GATAAACCACTAACCGATGTA
Found at i:53005784 original size:45 final size:45
Alignment explanation
Indices: 53005705--53005799 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
53005695 ATTAGTACAA
53005705 ATAAAAGCTAATAGTACAGTGTGGATAAACCACTAACCGATGTAG
1 ATAAAAGCTAATAGTACAGTGTGGATAAACCACTAACCGATGTAG
** *
53005750 ATAAAAGCTGCTAGTACAGTGTGGATAAACCACTAATCGATGTAG
1 ATAAAAGCTAATAGTACAGTGTGGATAAACCACTAACCGATGTAG
53005795 ATAAA
1 ATAAA
53005800 TTGCTTATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (45 bp):
ATAAAAGCTAATAGTACAGTGTGGATAAACCACTAACCGATGTAG
Found at i:53005923 original size:34 final size:34
Alignment explanation
Indices: 53005850--53005924 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
53005840 TGCAATATGG
* * *
53005850 CATGCTTATAACAAATCAATATAGTAGCAATAAA
1 CATGCTTATAACAAATCAATAGAGTAACAACAAA
* * *
53005884 TATGCTTATAACAGATCAATACGA-TAACAACAGA
1 CATGCTTATAACAAATCAATA-GAGTAACAACAAA
53005918 CATGCTT
1 CATGCTT
53005925 TTAATAAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (34 bp):
CATGCTTATAACAAATCAATAGAGTAACAACAAA
Found at i:53012694 original size:42 final size:42
Alignment explanation
Indices: 53012586--53012696 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
53012576 TAAGATTCTG
* * * *
53012586 TATAAGACCATATCTGGGATATGGCCTCGGTATGTGATTTCG
1 TATAAGACCATATCGGGGATATGGCATCGATATGTGATTTCA
* * * * *
53012628 TATAAGACCATGTCGAGTACATGGCATCGATATGAT-ATTTTA
1 TATAAGACCATATCGGGGATATGGCATCGATATG-TGATTTCA
*
53012670 TGTAAGACCATATCGGGGATATGGCAT
1 TATAAGACCATATCGGGGATATGGCAT
53012697 TGAAACGATA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TATAAGACCATATCGGGGATATGGCATCGATATGTGATTTCA
Found at i:53015400 original size:49 final size:49
Alignment explanation
Indices: 53015315--53015432 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
53015305 TGTGTGTCAG
* *
53015315 TGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGCCAA
* * * *
53015364 TGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAAAGCCAA
* *
53015413 TGTAAGACCGGTTTGGGACA
1 TGTAAGACCTGTCTGGGACA
53015433 CGACATCTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.02
49 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGCCAA
Found at i:53030347 original size:24 final size:24
Alignment explanation
Indices: 53030296--53030389 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
53030286 GCTTTATCAT
*
53030296 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
53030321 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53030345 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53030368 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53030390 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.19
23 13 0.20
24 27 0.42
25 12 0.19
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53030464 original size:20 final size:20
Alignment explanation
Indices: 53030439--53030505 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
53030429 TTATGAATAC
53030439 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53030459 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
53030479 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53030499 ACCATGT
1 ATCATGT
53030506 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:53031678 original size:12 final size:12
Alignment explanation
Indices: 53031647--53031686 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
53031637 TGGGCTGGTT
53031647 TGGAAGAAGGAGA
1 TGGAAGAA-GAGA
* *
53031660 AGGAAGAAAAGA
1 TGGAAGAAGAGA
53031672 TGGAAGAAGAGA
1 TGGAAGAAGAGA
53031684 TGG
1 TGG
53031687 TAGATTCAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.42, T:0.07
Consensus pattern (12 bp):
TGGAAGAAGAGA
Found at i:53032535 original size:2 final size:2
Alignment explanation
Indices: 53032528--53032566 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
53032518 TTATTCATAA
* *
53032528 AT AT AT AT AT AC AT AT AT AT AT GT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53032567 AGCGGCTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:53036543 original size:47 final size:47
Alignment explanation
Indices: 53036457--53036631 Score: 233
Period size: 47 Copynumber: 3.6 Consensus size: 47
53036447 GTATATTTGA
53036457 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGACGTG
* *
53036508 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* * * * *
53036555 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* *
53036602 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
53036632 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 97 0.87
51 14 0.13
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
Found at i:53036806 original size:37 final size:37
Alignment explanation
Indices: 53036750--53036828 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53036740 CCGAGCTCTA
* *
53036750 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53036787 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53036824 AAGAC
1 AAGAC
53036829 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53043553 original size:27 final size:27
Alignment explanation
Indices: 53043523--53043581 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
53043513 TGTAATGTGA
* *
53043523 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
53043550 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
*
53043577 GATTG
1 AATTG
53043582 TATGAATTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:53054619 original size:26 final size:26
Alignment explanation
Indices: 53054575--53054624 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
53054565 TTTCTCTTAA
*
53054575 TTTTTAATTTTATTCAATTAATTAATT
1 TTTTTAATTTCATTCAATT-ATTAATT
*
53054602 TTTTTAA-TTCATTGAATTATTAA
1 TTTTTAATTTCATTCAATTATTAA
53054625 AAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTAATTTCATTCAATTATTAATT
Found at i:53061597 original size:27 final size:27
Alignment explanation
Indices: 53061515--53061600 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
53061505 GGTAAAATAG
*
53061515 TCATTTTACCCTAT-AGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
53061541 TCATTCTACCTTATGAGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
53061568 TCATTTTACCCTATGAGGATATTTCAA
1 TCATTTTACCCTATGAGGGTATTTCGA
53061595 TCATTT
1 TCATTT
53061601 GATCACATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 12 0.23
27 40 0.77
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:53061802 original size:27 final size:27
Alignment explanation
Indices: 53061595--53061801 Score: 317
Period size: 27 Copynumber: 7.7 Consensus size: 27
53061585 GATATTTCAA
*
53061595 TCATTTGATCACATAAGGGCAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCG
* *
53061622 TCATTTTATCATATAAGGG-AAAATCA
1 TCATTTTATCACATAAGGGCAAAATCG
* * *
53061648 TCATTTTATAACATAATGGCAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCG
*
53061675 TCATTTTATCACATAAGGGCAAAATTG
1 TCATTTTATCACATAAGGGCAAAATCG
*
53061702 TCATTTTATCACATAAGGGCAAAATCC
1 TCATTTTATCACATAAGGGCAAAATCG
*
53061729 TCATTTTATCACATAAGGGAAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCG
*
53061756 TCATTTTATCACATAAGGGTAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCG
53061783 TCATTTTATCACATAAGGG
1 TCATTTTATCACATAAGGG
53061802 TTCAGGTACG
Statistics
Matches: 164, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 22 0.13
27 142 0.87
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (27 bp):
TCATTTTATCACATAAGGGCAAAATCG
Found at i:53074810 original size:54 final size:55
Alignment explanation
Indices: 53074710--53074903 Score: 196
Period size: 54 Copynumber: 3.6 Consensus size: 55
53074700 GTAAGGAGTG
* * * * * ** * *
53074710 TTTGCTAGTTAATTTGGCAAACTGGGATTTGCTAGTTAATTTGGCGAG-TTGGGT
1 TTTGCCAGTTAATTTGGCAAGCTGGGGTTCGCCAGTTGGTTGGGCGAGCTAGGGT
* * * *
53074764 TTTGCCAGTTAATTTTGCAAGTTGGGGTTCTCCAGTTGGTTGGGCGAGCTAAGG-
1 TTTGCCAGTTAATTTGGCAAGCTGGGGTTCGCCAGTTGGTTGGGCGAGCTAGGGT
* * *
53074818 TTCGCTAGTTAATTTGGCAAGCTGGGGTTCGCCAGTTGGTTTGGCGAGCTAGGGT
1 TTTGCCAGTTAATTTGGCAAGCTGGGGTTCGCCAGTTGGTTGGGCGAGCTAGGGT
* * *
53074873 TCT-CCAGTGAATTTGGTAAGCTGGGGTTCGC
1 TTTGCCAGTTAATTTGGCAAGCTGGGGTTCGC
53074904 TTATTGGTTT
Statistics
Matches: 113, Mismatches: 25, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
54 109 0.96
55 4 0.04
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (55 bp):
TTTGCCAGTTAATTTGGCAAGCTGGGGTTCGCCAGTTGGTTGGGCGAGCTAGGGT
Found at i:53074899 original size:27 final size:28
Alignment explanation
Indices: 53074716--53074903 Score: 129
Period size: 27 Copynumber: 7.0 Consensus size: 28
53074706 AGTGTTTGCT
* * * *
53074716 AGTT-AATTTGGCAAACTGGGATTTGCT
1 AGTTGAATTTGGCAAGCTGGGGTTCGCC
* * * *
53074743 AGTT-AATTTGGCGAGTTGGGTTTTGCC
1 AGTTGAATTTGGCAAGCTGGGGTTCGCC
* * *
53074770 AGTT-AATTTTGCAAGTTGGGGTTCTCC
1 AGTTGAATTTGGCAAGCTGGGGTTCGCC
* * * ** *
53074797 AGTTG-GTTGGGCGAGCTAAGGTTCGCT
1 AGTTGAATTTGGCAAGCTGGGGTTCGCC
53074824 AGTT-AATTTGGCAAGCTGGGGTTCGCC
1 AGTTGAATTTGGCAAGCTGGGGTTCGCC
* * * *
53074851 AGTTG-GTTTGGCGAGCTAGGGTTCTCC
1 AGTTGAATTTGGCAAGCTGGGGTTCGCC
*
53074878 AG-TGAATTTGGTAAGCTGGGGTTCGC
1 AGTTGAATTTGGCAAGCTGGGGTTCGC
53074904 TTATTGGTTT
Statistics
Matches: 123, Mismatches: 34, Indels: 8
0.75 0.21 0.05
Matches are distributed among these distances:
26 2 0.02
27 121 0.98
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.35
Consensus pattern (28 bp):
AGTTGAATTTGGCAAGCTGGGGTTCGCC
Found at i:53078825 original size:34 final size:34
Alignment explanation
Indices: 53078786--53078853 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
53078776 AGTGAAGATG
53078786 GATGTAAATAAAAACCTAGATCATGGCAGATCAA
1 GATGTAAATAAAAACCTAGATCATGGCAGATCAA
53078820 GATGTAAATAAAAACCTAGATCATGGCAGATCAA
1 GATGTAAATAAAAACCTAGATCATGGCAGATCAA
53078854 ACTTGAACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (34 bp):
GATGTAAATAAAAACCTAGATCATGGCAGATCAA
Found at i:53079849 original size:49 final size:49
Alignment explanation
Indices: 53079713--53079864 Score: 205
Period size: 49 Copynumber: 3.1 Consensus size: 49
53079703 TGCTACTCGA
*
53079713 ATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG
1 ATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
* * * * *
53079762 AAAACTGTGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
1 ATAA-T-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
* * *
53079813 ATTATTGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCAG
1 ATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
53079862 ATA
1 ATA
53079865 GCTTCGGCTA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 43 0.50
50 2 0.02
51 41 0.48
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
ATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
Found at i:53082871 original size:15 final size:15
Alignment explanation
Indices: 53082851--53082904 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
53082841 TATCGTATCT
53082851 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
53082866 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
53082880 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
53082896 -GGTTTTCTT
1 TGGGTTTCTT
53082905 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:53085439 original size:49 final size:49
Alignment explanation
Indices: 53085367--53085554 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
53085357 TGAGGTCACG
* *
53085367 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
** * * * *
53085416 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCA-AAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA-T-TGGTCGCA
* * *
53085467 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTAGTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
*
53085516 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
53085555 GCTTCGGCTA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 73 0.63
50 5 0.04
51 37 0.32
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:53085535 original size:100 final size:100
Alignment explanation
Indices: 53085362--53085549 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
53085352 TATTATGAGG
* * *
53085362 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAAGTGGTCGCATGTGTAGTACT
53085427 AAGTGCAGGCTACTATGCATACCCAAAAACTATGA
66 AAGTGCAGGCTACTATGCATACCCAAAAACTATGA
* *
53085462 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTAGTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAAGTGGTCGCATGTGTAGTACT
*
53085527 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCATACC
53085550 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAAGTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCAAAAACTATGA
Found at i:53088581 original size:8 final size:8
Alignment explanation
Indices: 53088557--53088592 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
53088547 TAAAAAGTAG
*
53088557 AAATAAAA
1 AAATAATA
53088565 AAATGAATA
1 AAAT-AATA
53088574 AAATAATA
1 AAATAATA
53088582 AAATAATA
1 AAATAATA
53088590 AAA
1 AAA
53088593 ATTCTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (8 bp):
AAATAATA
Found at i:53088594 original size:17 final size:17
Alignment explanation
Indices: 53088557--53088592 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
53088547 TAAAAAGTAG
53088557 AAATAAAAAAATGAATA
1 AAATAAAAAAATGAATA
*
53088574 AAATAATAAAAT-AATA
1 AAATAAAAAAATGAATA
53088590 AAA
1 AAA
53088593 ATTCTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAATAAAAAAATGAATA
Found at i:53094813 original size:41 final size:41
Alignment explanation
Indices: 53094750--53094831 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
53094740 TCTGAAAGTA
* * *
53094750 AGAAAAATTCTCTTTTGGTCAAATGATAATTAGACTGGCCT
1 AGAAAAATTCTCTTGTGATCAAATGATAATTAGACTAGCCT
*
53094791 AGAAAAATTCTCTTGTGATCAAATGATAATTGGACTAGCCT
1 AGAAAAATTCTCTTGTGATCAAATGATAATTAGACTAGCCT
53094832 TTGTGGTAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (41 bp):
AGAAAAATTCTCTTGTGATCAAATGATAATTAGACTAGCCT
Found at i:53099202 original size:53 final size:54
Alignment explanation
Indices: 53099117--53099323 Score: 220
Period size: 53 Copynumber: 3.9 Consensus size: 54
53099107 ATTAGGGTTT
* * * *
53099117 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTTATAAGGC
* * * * * * **
53099171 AAGGAAATCA-GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTTTATAAGGC
* * * * * *
53099225 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTTATAAGGC
*
53099278 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTT
53099324 AAAAAGGAAA
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
53 70 0.57
54 27 0.22
55 25 0.20
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTTATAAGGC
Found at i:53102953 original size:46 final size:45
Alignment explanation
Indices: 53102901--53103075 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
53102891 TGGTTGAGCA
53102901 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
53102947 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
53102992 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * *
53103040 GCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
53103076 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:53103057 original size:93 final size:93
Alignment explanation
Indices: 53102898--53103068 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
53102888 GGATGGTTGA
* **
53102898 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGGCCGAACTCGTTGAGT
53102963 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
53102991 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGGCCGAACTCGTTGAGT
*
53103056 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
53103069 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53111474 original size:22 final size:21
Alignment explanation
Indices: 53111446--53111496 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
53111436 ATCCCAAATA
**
53111446 GGCGTGTGTTTTGGGACACACG
1 GGCGTGTGTGGTGGG-CACACG
*
53111468 GGCGTGTCTGGTGGGCACACG
1 GGCGTGTGTGGTGGGCACACG
53111489 GGCGTGTG
1 GGCGTGTG
53111497 AGTTCCTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.10, C:0.20, G:0.47, T:0.24
Consensus pattern (21 bp):
GGCGTGTGTGGTGGGCACACG
Found at i:53112579 original size:37 final size:37
Alignment explanation
Indices: 53112538--53112610 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
53112528 GGTTTTATAT
53112538 GGAGTGATTGGTTGGATGAGCTTAATAGCTCTATTGA
1 GGAGTGATTGGTTGGATGAGCTTAATAGCTCTATTGA
53112575 GGAGTGATTGGTTGGATGAGCTTAATAGCTCTATTG
1 GGAGTGATTGGTTGGATGAGCTTAATAGCTCTATTG
53112611 TTTTGTGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.08, G:0.33, T:0.36
Consensus pattern (37 bp):
GGAGTGATTGGTTGGATGAGCTTAATAGCTCTATTGA
Found at i:53117012 original size:22 final size:22
Alignment explanation
Indices: 53116987--53117030 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
53116977 AATTTACAAC
53116987 CCAAGGA-GAAAGAGGAATTAAT
1 CCAAGGATGAAA-AGGAATTAAT
* *
53117009 CCAAGTATTAAAAGGAATTAAT
1 CCAAGGATGAAAAGGAATTAAT
53117031 TCTACATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (22 bp):
CCAAGGATGAAAAGGAATTAAT
Found at i:53117081 original size:81 final size:81
Alignment explanation
Indices: 53116941--53117184 Score: 429
Period size: 81 Copynumber: 3.0 Consensus size: 81
53116931 CGCATTCCTT
*
53116941 GGAAATAATTCTACATTACCAGTTATTATT-TCATCTAATTTACAACCCAAGGAGAAAGAGGAAT
1 GGAATTAATTCTACATTACCAGTTATTATTGT-ATCTAATTTACAACCCAAGGAGAAAGAGGAAT
53117005 TAATCCAAGTATTAAAA
65 TAATCCAAGTATTAAAA
53117022 GGAATTAATTCTACATTACCAGTTATTATTGTATCTAATTTACAACCCAAGGAGAAAGAGGAATT
1 GGAATTAATTCTACATTACCAGTTATTATTGTATCTAATTTACAACCCAAGGAGAAAGAGGAATT
* *
53117087 AATCCAAGGA-GAAAGA
66 AATCCAAGTATTAAA-A
53117103 GGAATTAATTCTACATTACCAGTTATTATTGTATCTAATTTACAACCCAAGGAGAAAGAGGAATT
1 GGAATTAATTCTACATTACCAGTTATTATTGTATCTAATTTACAACCCAAGGAGAAAGAGGAATT
53117168 AATCCAAGTATTAAAA
66 AATCCAAGTATTAAAA
53117184 G
1 G
53117185 AACATAAAAA
Statistics
Matches: 155, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
80 3 0.02
81 148 0.95
82 4 0.03
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (81 bp):
GGAATTAATTCTACATTACCAGTTATTATTGTATCTAATTTACAACCCAAGGAGAAAGAGGAATT
AATCCAAGTATTAAAA
Found at i:53117093 original size:22 final size:22
Alignment explanation
Indices: 53117068--53117111 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53117058 AATTTACAAC
53117068 CCAAGGAGAAAGAGGAATTAAT
1 CCAAGGAGAAAGAGGAATTAAT
53117090 CCAAGGAGAAAGAGGAATTAAT
1 CCAAGGAGAAAGAGGAATTAAT
53117112 TCTACATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.27, T:0.14
Consensus pattern (22 bp):
CCAAGGAGAAAGAGGAATTAAT
Found at i:53117347 original size:22 final size:22
Alignment explanation
Indices: 53117319--53117360 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
53117309 CCCCAACATG
53117319 AAGGAGAAAGAGGAATTAATCC
1 AAGGAGAAAGAGGAATTAATCC
53117341 AAGGAGAAAGAGGAATTAAT
1 AAGGAGAAAGAGGAATTAAT
53117361 TCTACATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.05, G:0.29, T:0.14
Consensus pattern (22 bp):
AAGGAGAAAGAGGAATTAATCC
Found at i:53117508 original size:249 final size:249
Alignment explanation
Indices: 53117070--53117572 Score: 997
Period size: 249 Copynumber: 2.0 Consensus size: 249
53117060 TTTACAACCC
53117070 AAGGAGAAAGAGGAATTAATCCAAGGAGAAAGAGGAATTAATTCTACATTACCAGTTATTATTGT
1 AAGGAGAAAGAGGAATTAATCCAAGGAGAAAGAGGAATTAATTCTACATTACCAGTTATTATTGT
53117135 ATCTAATTTACAACCCAAGGAGAAAGAGGAATTAATCCAAGTATTAAAAGAACATAAAAAGGCCA
66 ATCTAATTTACAACCCAAGGAGAAAGAGGAATTAATCCAAGTATTAAAAGAACATAAAAAGGCCA
53117200 TAGCTTGGAAAATTTCTGACATTAAAGGGATCAGCCCTTCTTTTTGCACCCACAAAATTTTAATG
131 TAGCTTGGAAAATTTCTGACATTAAAGGGATCAGCCCTTCTTTTTGCACCCACAAAATTTTAATG
53117265 GAAGATGAATATAAACCAGATGAGCAAGCTCAAAGACGACTGAACCCCAACATG
196 GAAGATGAATATAAACCAGATGAGCAAGCTCAAAGACGACTGAACCCCAACATG
53117319 AAGGAGAAAGAGGAATTAATCCAAGGAGAAAGAGGAATTAATTCTACATTACCAGTTATTATTGT
1 AAGGAGAAAGAGGAATTAATCCAAGGAGAAAGAGGAATTAATTCTACATTACCAGTTATTATTGT
53117384 ATCTAATTTACAACCCAAGGAGAAAGAGGAATTAATCCAAGTATTAAAAGAACATAAAAAGGCCA
66 ATCTAATTTACAACCCAAGGAGAAAGAGGAATTAATCCAAGTATTAAAAGAACATAAAAAGGCCA
53117449 TAGCTTGGAAAATTTCTGACATTAAAGGGATCAGCCCTTCTTTTTGCACCCACAAAATTTTAATG
131 TAGCTTGGAAAATTTCTGACATTAAAGGGATCAGCCCTTCTTTTTGCACCCACAAAATTTTAATG
*
53117514 GAAGATGAATATAAACCAGATGTGCAAGCTCAAAGACGACTGAACCCCAACATG
196 GAAGATGAATATAAACCAGATGAGCAAGCTCAAAGACGACTGAACCCCAACATG
53117568 AAGGA
1 AAGGA
53117573 AGTTGTTAAA
Statistics
Matches: 253, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 253 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.23
Consensus pattern (249 bp):
AAGGAGAAAGAGGAATTAATCCAAGGAGAAAGAGGAATTAATTCTACATTACCAGTTATTATTGT
ATCTAATTTACAACCCAAGGAGAAAGAGGAATTAATCCAAGTATTAAAAGAACATAAAAAGGCCA
TAGCTTGGAAAATTTCTGACATTAAAGGGATCAGCCCTTCTTTTTGCACCCACAAAATTTTAATG
GAAGATGAATATAAACCAGATGAGCAAGCTCAAAGACGACTGAACCCCAACATG
Found at i:53119956 original size:85 final size:85
Alignment explanation
Indices: 53119813--53120024 Score: 424
Period size: 85 Copynumber: 2.5 Consensus size: 85
53119803 GGCCGGCCAT
53119813 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53119878 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
53119898 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53119963 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
53119983 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
53120025 NNNNNNNNNN
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 127 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:53127736 original size:47 final size:47
Alignment explanation
Indices: 53127564--53127916 Score: 553
Period size: 47 Copynumber: 7.4 Consensus size: 47
53127554 ATTGATGTAC
* * * * *
53127564 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53127611 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53127660 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53127709 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53127756 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53127803 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
53127850 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
53127897 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
53127917 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 197 0.68
49 92 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:53139372 original size:30 final size:30
Alignment explanation
Indices: 53139338--53139419 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
53139328 ATTTCCAAAC
*
53139338 CTAGGGGTAAAAGGGTCATTTTGCAAAAGT
1 CTAGGGGTAAAATGGTCATTTTGCAAAAGT
*
53139368 CTAGGGGTAAAATGGTCATTTTGTAAAAGT
1 CTAGGGGTAAAATGGTCATTTTGCAAAAGT
* *
53139398 TTAGGGGCAAAATGGTCATTTT
1 CTAGGGGTAAAATGGTCATTTT
53139420 TCCCAATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (30 bp):
CTAGGGGTAAAATGGTCATTTTGCAAAAGT
Found at i:53139905 original size:46 final size:46
Alignment explanation
Indices: 53139758--53139973 Score: 196
Period size: 46 Copynumber: 4.7 Consensus size: 46
53139748 TTTGTGTGCT
*
53139758 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-ATAT-TACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGT---AGAGCC
* * *
53139804 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGATGTAGAGCC
* *
53139852 AGTGTAAGACATGTCTGGGACATGCATCAGACTCGAAATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATGTAGAGCC
* * *
53139898 AGTGTAAGACATGTCTGGAACATGCATCAGCTACGAGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGTAGAGCC
*
53139942 ATTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
53139974 TATCATGCCC
Statistics
Matches: 142, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.44
47 31 0.22
48 22 0.15
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTAGAGCC
Found at i:53151839 original size:20 final size:21
Alignment explanation
Indices: 53151800--53151839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53151790 GTCATAATGC
53151800 CCACACGGACGTGTTGCCCTT
1 CCACACGGACGTGTTGCCCTT
*
53151821 CCACACGGGCGTG-TGCCCT
1 CCACACGGACGTGTTGCCCT
53151840 GCTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGACGTGTTGCCCTT
Found at i:53153092 original size:30 final size:30
Alignment explanation
Indices: 53153039--53153096 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
53153029 CACGGCCATG
* *
53153039 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCATGTGGCATACCCGTGTGTC
53153069 ACACACGGGCATGTGG-ATAACCCGTGTG
1 ACACACGGGCATGTGGCAT-ACCCGTGTG
53153097 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (30 bp):
ACACACGGGCATGTGGCATACCCGTGTGTC
Found at i:53153687 original size:20 final size:21
Alignment explanation
Indices: 53153653--53153692 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
53153643 TGTTTCGTTT
53153653 TCTTTGTTTTCTTCCTTTCTA
1 TCTTTGTTTTCTTCCTTTCTA
*
53153674 TCTTT-TTTTTTTCCTTTCT
1 TCTTTGTTTTCTTCCTTTCT
53153693 TTTTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (21 bp):
TCTTTGTTTTCTTCCTTTCTA
Found at i:53156573 original size:12 final size:11
Alignment explanation
Indices: 53156556--53156645 Score: 51
Period size: 12 Copynumber: 7.6 Consensus size: 11
53156546 TTGACTCCTC
53156556 TTATTTTTA--
1 TTATTTTTATT
53156565 TTATTATTTATT
1 TTATT-TTTATT
53156577 CTTATTTTTATT
1 -TTATTTTTATT
*
53156589 TTATCATTTATT
1 TTAT-TTTTATT
53156601 TT-TCTTTTGATTT
1 TTAT-TTTT-A-TT
*
53156614 TTATTTTCATT
1 TTATTTTTATT
*
53156625 TCAATTTTATTATT
1 T-TA-TTT-TTATT
53156639 TTATTTT
1 TTATTTT
53156646 GAAAGACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
9 5 0.08
10 4 0.06
11 13 0.20
12 20 0.31
13 16 0.25
14 6 0.09
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:53156581 original size:16 final size:16
Alignment explanation
Indices: 53156556--53156589 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53156546 TTGACTCCTC
*
53156556 TTATTTTTATTATTAT
1 TTATTCTTATTATTAT
*
53156572 TTATTCTTATTTTTAT
1 TTATTCTTATTATTAT
53156588 TT
1 TT
53156590 TATCATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTCTTATTATTAT
Found at i:53156597 original size:24 final size:24
Alignment explanation
Indices: 53156554--53156614 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
53156544 CATTGACTCC
*
53156554 TCTTATTTTTA--TTATTATTTAT
1 TCTTATTTTTATTTTATCATTTAT
53156576 TCTTATTTTTATTTTATCATTTAT
1 TCTTATTTTTATTTTATCATTTAT
* * *
53156600 TTTTCTTTTGATTTT
1 TCTTATTTTTATTTT
53156615 TATTTTCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 11 0.33
24 22 0.67
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (24 bp):
TCTTATTTTTATTTTATCATTTAT
Found at i:53156615 original size:7 final size:6
Alignment explanation
Indices: 53156556--53156625 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
53156546 TTGACTCCTC
* * *
53156556 TTATTT TTATTA TTA--T TTATTC TTATTT TTA-TT TTATCAT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT
* * *
53156602 TTCTTT TGATTT TTATTT TCATTT
1 TTATTT TTATTT TTATTT TTATTT
53156626 CAATTTTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
4 3 0.06
5 5 0.10
6 36 0.73
7 5 0.10
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:53173218 original size:35 final size:35
Alignment explanation
Indices: 53173172--53173243 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
53173162 ATGAGATTCA
*
53173172 CAGCAGGAATGAGGAGTATAAACTCCTCGAACCAC
1 CAGCAGGAATGAGGAGTATAAACTCCTCAAACCAC
*
53173207 CAGCAGGAATGAGGAGTATATACTCCTCAAACCAC
1 CAGCAGGAATGAGGAGTATAAACTCCTCAAACCAC
53173242 CA
1 CA
53173244 TGACCGTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (35 bp):
CAGCAGGAATGAGGAGTATAAACTCCTCAAACCAC
Found at i:53173835 original size:13 final size:13
Alignment explanation
Indices: 53173813--53173845 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53173803 AAGGGTTTGT
53173813 TTAT-TAAACTAA
1 TTATCTAAACTAA
53173825 TTATCTAAACTAA
1 TTATCTAAACTAA
*
53173838 TTAACTAA
1 TTATCTAA
53173846 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:53175456 original size:20 final size:20
Alignment explanation
Indices: 53175413--53175458 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
53175403 AAAGTAATCT
* * *
53175413 TCATTTTTCTCATTTTACTT
1 TCATTTTGCTCATTATACTA
*
53175433 TCATTTTGCTCATTATGCTA
1 TCATTTTGCTCATTATACTA
53175453 TCATTT
1 TCATTT
53175459 AATTTGCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.04, T:0.59
Consensus pattern (20 bp):
TCATTTTGCTCATTATACTA
Found at i:53175559 original size:23 final size:23
Alignment explanation
Indices: 53175533--53175579 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
53175523 CATTCTATTG
*
53175533 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
53175556 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
53175579 T
1 T
53175580 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:53177490 original size:30 final size:29
Alignment explanation
Indices: 53177454--53177511 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
53177444 ATATGGTATC
53177454 CTACAGCGA-AAACAAATCTGTGTAGGGANT
1 CTACAGC-ATAAACAAATCTGTGTAGGGA-T
* *
53177484 CTACAGCATAAATAGATCTGTGTAGGGA
1 CTACAGCATAAACAAATCTGTGTAGGGA
53177512 ACTAGATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.22
Consensus pattern (29 bp):
CTACAGCATAAACAAATCTGTGTAGGGAT
Found at i:53179413 original size:70 final size:71
Alignment explanation
Indices: 53179326--53179470 Score: 274
Period size: 70 Copynumber: 2.1 Consensus size: 71
53179316 AGTAATAGTC
*
53179326 ACTAAGGGGAAAGAATAGGGATCAATACAATGTCCCAAACTA-TTTTGTGTTTGTAACCCTTTTG
1 ACTAAGGGGAAAGAATAGAGATCAATACAATGTCCCAAACTATTTTTGTGTTTGTAACCCTTTTG
53179390 ATACTT
66 ATACTT
53179396 ACTAAGGGGAAAGAATAGAGATCAATACAATGTCCCAAACTATTTTTGTGTTTGTAACCCTTTTG
1 ACTAAGGGGAAAGAATAGAGATCAATACAATGTCCCAAACTATTTTTGTGTTTGTAACCCTTTTG
53179461 ATACTT
66 ATACTT
53179467 ACTA
1 ACTA
53179471 TTTTTGAATT
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 41 0.56
71 32 0.44
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (71 bp):
ACTAAGGGGAAAGAATAGAGATCAATACAATGTCCCAAACTATTTTTGTGTTTGTAACCCTTTTG
ATACTT
Found at i:53181072 original size:21 final size:21
Alignment explanation
Indices: 53181046--53181089 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
53181036 CGATTTATTC
*
53181046 TTCCTTTTTAATCTCTTGAAT
1 TTCCTTTATAATCTCTTGAAT
53181067 TTCCTTTATAATCTCTTGAAT
1 TTCCTTTATAATCTCTTGAAT
53181088 TT
1 TT
53181090 TATCTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.05, T:0.57
Consensus pattern (21 bp):
TTCCTTTATAATCTCTTGAAT
Found at i:53200960 original size:54 final size:53
Alignment explanation
Indices: 53200896--53201001 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
53200886 GTGACGAGCG
* * * *
53200896 TGTGTGAGGCCTTGTGTGACACACTA-CCTAGGCCATTTTGGGTCATGTGGGCCA
1 TGTGTCAGGCCGTGTGGGACACA-TAGCCAAGGCCATTTTGGG-CATGTGGGCCA
* * *
53200950 TGTGTCAGGCCGTGTGGGCCATATAGGCAAGGCCATTTTGGGCATGTGGGCC
1 TGTGTCAGGCCGTGTGGGACACATAGCCAAGGCCATTTTGGGCATGTGGGCC
53201002 CACACGGGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
53 12 0.27
54 32 0.73
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (53 bp):
TGTGTCAGGCCGTGTGGGACACATAGCCAAGGCCATTTTGGGCATGTGGGCCA
Found at i:53208949 original size:27 final size:27
Alignment explanation
Indices: 53208919--53209096 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53208909 ATATTGAGTC
* * * *
53208919 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53208946 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53208973 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53209001 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53209028 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53209055 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53209082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53209097 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53209058 original size:82 final size:81
Alignment explanation
Indices: 53208940--53209095 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53208930 TGCTATATAA
* *
53208940 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53209005 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53209022 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53209086 CACTTAGTGC
65 CACTTAGTGC
53209096 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53217012 original size:27 final size:27
Alignment explanation
Indices: 53216982--53217159 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53216972 ATATTGAGTC
* * * *
53216982 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53217009 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53217036 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53217064 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53217091 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53217118 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53217145 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53217160 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53217121 original size:82 final size:81
Alignment explanation
Indices: 53217003--53217158 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53216993 TGCTATATAA
* *
53217003 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53217068 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53217085 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53217149 CACTTAGTGC
65 CACTTAGTGC
53217159 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53220140 original size:11 final size:11
Alignment explanation
Indices: 53220124--53220152 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
53220114 ACACTGAAAA
53220124 GAAATGGGAAG
1 GAAATGGGAAG
53220135 GAAATGGGAAG
1 GAAATGGGAAG
53220146 GAAATGG
1 GAAATGG
53220153 AGTAAGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.10
Consensus pattern (11 bp):
GAAATGGGAAG
Found at i:53220574 original size:46 final size:47
Alignment explanation
Indices: 53220438--53220701 Score: 197
Period size: 47 Copynumber: 5.6 Consensus size: 47
53220428 AGTAAGATGT
* * * * *
53220438 CGATGCCATGTCTCAGACACGATCTTACACTGGCTCAT-ATCTC--AAGT
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTC-TCGTCTCGTAGGC
* * *
53220485 CGATGCCATGTCCGAGACATGGTCTTACACTGACTAC-CATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-CTCGTCTCGTAGGC
*
53220533 CGATGCATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCGTAGGC
* * * * * *
53220579 CGATGCATGTCCCAAACATGTCATACACTAGCTCTCGTCTC-AATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCGTAGGC
* * * *
53220625 CGATACCATGTCTCAGACATAGTCTTACACTGGCTCTCTTAAT-GT-GGC
1 CGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCGTAGGC
53220673 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
53220702 AGCCAACAAT
Statistics
Matches: 177, Mismatches: 26, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 72 0.41
47 73 0.41
48 29 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCGTAGGC
Found at i:53224756 original size:67 final size:68
Alignment explanation
Indices: 53224616--53224773 Score: 183
Period size: 67 Copynumber: 2.3 Consensus size: 68
53224606 GTTTCTTTGA
* * * * * *** * *
53224616 GTTAGCAGATTTAAAATCATAACTCCTAAGCAGCTTGATGACCTATGTTCAGAGTTGATATTATA
1 GTTAGCTGATTTAAGATCACAACTCCTAAGAAGCTCGATGACCTACAATCAAAGGTGATATTATA
53224681 AAG
66 AAG
* * *
53224684 TTTAGCTGATTTAAGATCGCAACTCCTAA-AAGCTCGATGACCTACAATCAAAGGTGATATTATT
1 GTTAGCTGATTTAAGATCACAACTCCTAAGAAGCTCGATGACCTACAATCAAAGGTGATATTATA
53224748 AAG
66 AAG
*
53224751 GTTAGCTTATTTAAGATCACAAC
1 GTTAGCTGATTTAAGATCACAAC
53224774 CTAAATTTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
67 50 0.68
68 24 0.32
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (68 bp):
GTTAGCTGATTTAAGATCACAACTCCTAAGAAGCTCGATGACCTACAATCAAAGGTGATATTATA
AAG
Found at i:53228712 original size:134 final size:135
Alignment explanation
Indices: 53228465--53228726 Score: 384
Period size: 134 Copynumber: 1.9 Consensus size: 135
53228455 CTTACACATC
* * * *
53228465 TTATTGATTATAATGAAAGCATCATCTTCTAATATGACATTTTGATGTCTCAAATCTACAGCAAT
1 TTATTCATTATAATGAAAGCATCATCTTCTAATATGACATTTTGATGACCCAAATATACAGCAAT
* *
53228530 CTTCAAAGCATGGAGACATGCAATGGTTTCAATCCGCATACGAGTAGAGAAC-AAAAAGAAGAAA
66 CTTCAAAGCATGGAGACATGCAATGCTTTCAATCCGCATACGACTAGAGAACAAAAAAGAAGAAA
53228594 AGTTT
131 AGTTT
* *
53228599 TTATTCATTATAATGAAAGCATCTTCTTCTAATATGACATTTTGATGACCCAAATATACTGCAAT
1 TTATTCATTATAATGAAAGCATCATCTTCTAATATGACATTTTGATGACCCAAATATACAGCAAT
* * * *
53228664 CTTCTAAGTATGGAGATATGCAATGCTTTCAATCAC-CATATGACTAGAGAACTAAAAAAGAAG
66 CTTCAAAGCATGGAGACATGCAATGCTTTCAATC-CGCATACGACTAGAGAAC-AAAAAAGAAG
53228727 TGTCATGTTG
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
134 103 0.91
135 1 0.01
136 9 0.08
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (135 bp):
TTATTCATTATAATGAAAGCATCATCTTCTAATATGACATTTTGATGACCCAAATATACAGCAAT
CTTCAAAGCATGGAGACATGCAATGCTTTCAATCCGCATACGACTAGAGAACAAAAAAGAAGAAA
AGTTT
Found at i:53239719 original size:14 final size:14
Alignment explanation
Indices: 53239700--53239726 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53239690 AAAGATATTC
53239700 TTTTTCTAAATAAA
1 TTTTTCTAAATAAA
53239714 TTTTTCTAAATAA
1 TTTTTCTAAATAA
53239727 GATTGAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTTCTAAATAAA
Found at i:53243710 original size:38 final size:38
Alignment explanation
Indices: 53243658--53243733 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
53243648 TTGAGGAAGG
*
53243658 GAAAGAGGTAAAAATTGGGACACTTATTGCTAAGGACA
1 GAAAGAGGTAAAAATTGGGACACTTATTGCCAAGGACA
*
53243696 GAAAGAGGTGAAAATTGGGACACTTATTGCCAAGGACA
1 GAAAGAGGTAAAAATTGGGACACTTATTGCCAAGGACA
53243734 CAAGGCAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.20
Consensus pattern (38 bp):
GAAAGAGGTAAAAATTGGGACACTTATTGCCAAGGACA
Found at i:53248257 original size:220 final size:220
Alignment explanation
Indices: 53247870--53249301 Score: 2364
Period size: 220 Copynumber: 6.5 Consensus size: 220
53247860 GTAACAGGCT
* *
53247870 AAAG-CATAGCATATCTAACCTTTGGATGTTTTCAAATCAAAGCGGATCCAAGATGATTTGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
* *
53247934 CTTTGTGTTTACAAGGAACAAATCAAAGCCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
* *
53247999 CAGATTCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
131 CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
*
53248064 CTCCATATTCGACGAAGAGTAGATT
196 CTCCATATTCGACGAAGAGTAGATC
* * **
53248089 GAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAGATGACATGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
* * * *
53248154 CTTTATGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATGTTTACACTAAAG
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
*
53248219 CAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAACAAATTTGGCAT
131 CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
* *
53248284 CTCCATATTCGACGGAGAGCAGATC
196 CTCCATATTCGACGAAGAGTAGATC
* *
53248309 AAAGACATGGCAGATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
* *
53248374 CTTTGTGTTTACAAGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTGAAG
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
* * * *
53248439 CAGATTCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAGATTTGGCAT
131 CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
* *
53248504 CTCCATATTCGATGAAGAGTAGATT
196 CTCCATATTCGACGAAGAGTAGATC
* *
53248529 GAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAGATGATTTGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
* * *
53248594 CTTTGTGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATGTTTACACTAAAG
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
*
53248659 CAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAACAAATTTGGCAT
131 CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
* *
53248724 CTCCATATTCGACGGAGAGCAGATC
196 CTCCATATTCGACGAAGAGTAGATC
* *
53248749 AAAGACATGGCAGATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
*
53248814 CTTTGTGTTTACAAGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
* * *
53248879 CAGATTCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAAATTTGGCAT
131 CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
*
53248944 CTCCATATTCGACGAAGAGTAGATT
196 CTCCATATTCGACGAAGAGTAGATC
* *
53248969 GAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAGATGATTTGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
* * * *
53249034 CTTTATGTTTACAAGGAACAAATTGAAGGCATAGCAGATCTGACCTTTAGATGTTTACACTGAAG
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
* *
53249099 CAGATCCAAGATGATTTAGCATCTCTGTATTGCCAGAGAACAAATCGAAGAAACAAAATTGGCAT
131 CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
53249164 CTCCATATTCGATC-AGAGAGTAGATC
196 CTCCATATTCGA-CGA-AGAGTAGATC
*
53249190 AAAGACATGGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
1 AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
53249255 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTT
66 CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTT
53249302 NNNNNNNNNN
Statistics
Matches: 1118, Mismatches: 92, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
219 3 0.00
220 998 0.89
221 117 0.10
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (220 bp):
AAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCAT
CTTTGTGTTTACAAGGAACAAATCGAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAG
CAGATCCAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCAT
CTCCATATTCGACGAAGAGTAGATC
Found at i:53248703 original size:87 final size:89
Alignment explanation
Indices: 53248526--53248689 Score: 224
Period size: 89 Copynumber: 1.9 Consensus size: 89
53248516 TGAAGAGTAG
* * ** *
53248526 ATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAGATGATTTGG
1 ATTGAAGACATAGCAGATCTAACCTTTAGATGTTTACACATCAAAGCAGATCCAAGATGATTTAG
* *
53248591 CATCTTTGTGTTTACAAGGAACAA
66 CATCTCTGTATTTACAAGGAACAA
* * *
53248615 ATTGAAGGCATATCAGATCTGACCTTTAGATGTTTACAC-T-AAAGCAGATCCAAGATGATTTAG
1 ATTGAAGACATAGCAGATCTAACCTTTAGATGTTTACACATCAAAGCAGATCCAAGATGATTTAG
53248678 CATCTCTGTATT
66 CATCTCTGTATT
53248690 ATCAGAGAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 30 0.46
88 1 0.02
89 34 0.52
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (89 bp):
ATTGAAGACATAGCAGATCTAACCTTTAGATGTTTACACATCAAAGCAGATCCAAGATGATTTAG
CATCTCTGTATTTACAAGGAACAA
Found at i:53248703 original size:440 final size:440
Alignment explanation
Indices: 53247882--53249301 Score: 2660
Period size: 440 Copynumber: 3.2 Consensus size: 440
53247872 AGCATAGCAT
* *
53247882 ATCTAACCTTTGGATGTTTTCAAATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
1 ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
*
53247947 AGGAACAAATCAAAGCCATAGCAGATCTGACCTTCAGATGTTTACACTAAAGCAGATTCAAGATG
66 AGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAGCAGATTCAAGATG
*
53248012 ATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGAC
131 ATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAAATTTGGCATCTCCATATTCGAC
53248077 GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
196 GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
**
53248142 ATGACATGGCATCTTTATGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATG
261 ATGATTTGGCATCTTTATGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATG
53248207 TTTACACTAAAGCAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAA
326 TTTACACTAAAGCAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAA
53248272 CAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATGGCAG
391 CAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATGGCAG
53248322 ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
1 ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
*
53248387 AGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATTCAAGATG
66 AGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAGCAGATTCAAGATG
* *
53248452 ATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGAT
131 ATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAAATTTGGCATCTCCATATTCGAC
53248517 GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
196 GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
*
53248582 ATGATTTGGCATCTTTGTGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATG
261 ATGATTTGGCATCTTTATGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATG
53248647 TTTACACTAAAGCAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAA
326 TTTACACTAAAGCAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAA
53248712 CAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATGGCAG
391 CAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATGGCAG
53248762 ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
1 ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
53248827 AGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAGCAGATTCAAGATG
66 AGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAGCAGATTCAAGATG
53248892 ATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAAATTTGGCATCTCCATATTCGAC
131 ATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAAATTTGGCATCTCCATATTCGAC
53248957 GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
196 GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
*
53249022 ATGATTTGGCATCTTTATGTTTACAAGGAACAAATTGAAGGCATAGCAGATCTGACCTTTAGATG
261 ATGATTTGGCATCTTTATGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATG
* **
53249087 TTTACACTGAAGCAGATCCAAGATGATTTAGCATCTCTGTATTGCCAGAGAACAAATCGAAGAAA
326 TTTACACTAAAGCAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAA
* * *
53249152 CAAAATTGGCATCTCCATATTCGATCAGAGAGTAGATCAAAGACATGGCAG
391 CAAATTTGGCATCTCCATATTCGA-CGGAGAGCAGATCAAAGACATGGCAG
*
53249203 ATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
1 ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
*
53249268 AGGAACAAATCGAAGGCATAGCAGATCTGACCTT
66 AGGAACAAATCAAAGGCATAGCAGATCTGACCTT
53249302 NNNNNNNNNN
Statistics
Matches: 956, Mismatches: 23, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
440 835 0.87
441 121 0.13
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (440 bp):
ATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTTTGTGTTTACA
AGGAACAAATCAAAGGCATAGCAGATCTGACCTTCAGATGTTTACACTAAAGCAGATTCAAGATG
ATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACAAATTTGGCATCTCCATATTCGAC
GAAGAGTAGATTGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTGGATCCAAG
ATGATTTGGCATCTTTATGTTTACAAGGAACAAATTGAAGGCATATCAGATCTGACCTTTAGATG
TTTACACTAAAGCAGATCCAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGAAA
CAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATGGCAG
Found at i:53248923 original size:87 final size:89
Alignment explanation
Indices: 53248746--53248909 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 89
53248736 CGGAGAGCAG
* * * *
53248746 ATCAAAGACATGGCAGATCTAACCTTTGAATGTTTTCACATCAAAGCGGATCCAAGATGATTTGG
1 ATCAAAGACATAGCAGATCTAACCTTAGAATGTTTACACATCAAAGCAGATCCAAGATGATTTGG
* *
53248811 CATCTTTGTGTTTACAAGGAACAA
66 CATCTCTGTATTTACAAGGAACAA
* * *
53248835 ATCAAAGGCATAGCAGATCTGACCTTCAG-ATGTTTACAC-T-AAAGCAGATTCAAGATGATTTG
1 ATCAAAGACATAGCAGATCTAACCTT-AGAATGTTTACACATCAAAGCAGATCCAAGATGATTTG
53248897 GCATCTCTGTATT
65 GCATCTCTGTATT
53248910 GTCAGAGAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 31 0.48
88 1 0.02
89 32 0.49
90 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (89 bp):
ATCAAAGACATAGCAGATCTAACCTTAGAATGTTTACACATCAAAGCAGATCCAAGATGATTTGG
CATCTCTGTATTTACAAGGAACAA
Found at i:53252042 original size:43 final size:43
Alignment explanation
Indices: 53251991--53252072 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
53251981 TATATATGGT
* * *
53251991 ATCCGAGCTCGTTGAGAT-GTCTGAGTTTATTATGGATGCAAGC
1 ATCCGAGCTCGTTGAG-TGGTCCGAGTTCATAATGGATGCAAGC
53252034 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
53252073 GATACATGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCAAGC
Found at i:53255485 original size:29 final size:29
Alignment explanation
Indices: 53255422--53255489 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
53255412 TAATCAACCG
*
53255422 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
53255451 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
53255480 CGCACACTTA
1 CGCACACTTA
53255490 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:53255601 original size:174 final size:174
Alignment explanation
Indices: 53255311--53255638 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
53255301 AACTCAAGGT
* * *
53255311 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
53255376 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGT
53255441 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
53255485 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
53255550 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGT
*
53255615 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
53255639 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:53255630 original size:29 final size:30
Alignment explanation
Indices: 53255591--53255669 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
53255581 CTCAATAATC
53255591 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
53255621 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
53255650 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53255670 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:53265474 original size:17 final size:18
Alignment explanation
Indices: 53265452--53265513 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 18
53265442 AAGTTAAAGG
53265452 AATGAAAATAAATAAA-T
1 AATGAAAATAAATAAACT
* *
53265469 AATGAAAAGAAA-AAATT
1 AATGAAAATAAATAAACT
*
53265486 AA-GAAAA-AAATAAACA
1 AATGAAAATAAATAAACT
53265502 AATG-AAATAAAT
1 AATGAAAATAAAT
53265514 CGATAAACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 3 0.08
16 16 0.42
17 19 0.50
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (18 bp):
AATGAAAATAAATAAACT
Found at i:53281261 original size:26 final size:24
Alignment explanation
Indices: 53281232--53281284 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
53281222 ATTTTAATAA
53281232 TATAATA-ATATAATAAAATGATATTT
1 TATAATATATA-AAT-AAATG-TATTT
*
53281258 TATAATATTTAAATAAATGTATTT
1 TATAATATATAAATAAATGTATTT
53281282 TAT
1 TAT
53281285 TTTACCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 5 0.20
26 10 0.40
27 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TATAATATATAAATAAATGTATTT
Found at i:53281693 original size:48 final size:48
Alignment explanation
Indices: 53281622--53281813 Score: 384
Period size: 48 Copynumber: 4.0 Consensus size: 48
53281612 ATATCAAAGA
53281622 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
1 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
53281670 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
1 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
53281718 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
1 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
53281766 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
1 TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
53281814 CCTGAATTGT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
TAGAAAATGTACCAGTGATTACACTAGGTGTTGAAGCTTCCTCTCGAG
Found at i:53283118 original size:10 final size:10
Alignment explanation
Indices: 53283103--53283151 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
53283093 ATTAACATTT
53283103 TTAATTTTAA
1 TTAATTTTAA
53283113 TTAATTTTATA
1 TTAATTTTA-A
* *
53283124 TCAAATTTTGA
1 T-TAATTTTAA
53283135 TTAATTTTAA
1 TTAATTTTAA
53283145 TT-ATTTT
1 TTAATTTT
53283152 CGACAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 5 0.15
10 18 0.55
11 4 0.12
12 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:53284358 original size:85 final size:85
Alignment explanation
Indices: 53284215--53284563 Score: 680
Period size: 85 Copynumber: 4.1 Consensus size: 85
53284205 GGCCGGCCAC
53284215 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
53284280 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
53284300 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
53284365 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
53284385 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
53284450 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
53284470 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
53284535 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
53284555 GGGCATGGG
1 GAGCATGGG
53284564 CAATAAAATA
Statistics
Matches: 262, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 262 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGATAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:53285840 original size:22 final size:22
Alignment explanation
Indices: 53285813--53285934 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
53285803 TATGTGTATG
53285813 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
53285835 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
53285860 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
53285882 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
53285907 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
53285929 TGTGAT
1 TGTGAT
53285935 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:53285885 original size:47 final size:47
Alignment explanation
Indices: 53285816--53285962 Score: 215
Period size: 47 Copynumber: 3.1 Consensus size: 47
53285806 GTGTATGTGT
53285816 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATGA
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGCATATATGA
* *
53285863 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGA
* * * * *
53285910 GATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGA
53285957 GATAAG
1 GATAAG
53285963 TCCCGAAGGG
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.01
47 93 0.99
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.25
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGA
Found at i:53296667 original size:25 final size:27
Alignment explanation
Indices: 53296630--53296682 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
53296620 TCAAACATGC
53296630 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
53296656 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
53296682 A
1 A
53296683 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:53297613 original size:72 final size:72
Alignment explanation
Indices: 53297529--53297672 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
53297519 GTGATTTTCC
53297529 AAAGTCACATTACTGCTGCTGTCCCAAGCAGATTTATTACCAAATCACTCTTTCATACACCTATC
1 AAAGTCACATTACTGCTGCTGTCCCAAGCAGATTTATTACCAAATCACTCTTTCATACACCTATC
53297594 TTGCATG
66 TTGCATG
53297601 AAAGTCACATTACTGCTGCTGTCCCAAGCAGATTTATTACCAAATCACTCTTTCATACACCTATC
1 AAAGTCACATTACTGCTGCTGTCCCAAGCAGATTTATTACCAAATCACTCTTTCATACACCTATC
53297666 TTGCATG
66 TTGCATG
53297673 CATGTTATTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (72 bp):
AAAGTCACATTACTGCTGCTGTCCCAAGCAGATTTATTACCAAATCACTCTTTCATACACCTATC
TTGCATG
Found at i:53298217 original size:32 final size:32
Alignment explanation
Indices: 53298180--53298244 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
53298170 AATGCTTACC
53298180 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
53298212 ATGCCCATCATCCATTATCTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
53298244 A
1 A
53298245 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:53300512 original size:16 final size:16
Alignment explanation
Indices: 53300481--53300514 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53300471 ACACTGGTGC
*
53300481 TTCAGTCAATACCTTT
1 TTCAGTCAAAACCTTT
*
53300497 TTCAGTCAAAAGCTTT
1 TTCAGTCAAAACCTTT
53300513 TT
1 TT
53300515 GCTGACTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (16 bp):
TTCAGTCAAAACCTTT
Found at i:53306286 original size:32 final size:32
Alignment explanation
Indices: 53306246--53306310 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
53306236 AATGCTAATC
*
53306246 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTAGTAAAATGCTA
53306278 ATGCCCATCATCCATTAACTAGTAAAATGCTA
1 ATGCCCATCATCCATTAACTAGTAAAATGCTA
53306310 A
1 A
53306311 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTAGTAAAATGCTA
Found at i:53309220 original size:22 final size:21
Alignment explanation
Indices: 53309190--53309236 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
53309180 TACAAATTAA
53309190 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
53309212 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
53309233 ATCT
1 ATCT
53309237 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:53309242 original size:19 final size:19
Alignment explanation
Indices: 53309207--53309285 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
53309197 AGATTACAAG
53309207 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
53309228 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
53309245 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
53309264 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
53309283 ATC
1 ATC
53309286 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:53309262 original size:36 final size:38
Alignment explanation
Indices: 53309207--53309279 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
53309197 AGATTACAAG
53309207 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
53309245 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
53309280 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:53309294 original size:36 final size:35
Alignment explanation
Indices: 53309208--53309295 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
53309198 GATTACAAGA
53309208 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
53309244 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
53309280 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
53309296 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:53312978 original size:27 final size:26
Alignment explanation
Indices: 53312948--53313276 Score: 205
Period size: 27 Copynumber: 12.2 Consensus size: 26
53312938 AAGGCAAATC
*
53312948 AGTCATTTTACCTTATAAGGGTATTAT
1 AGTCATTTTACCCTATAAGGGTATT-T
* * *
53312975 AGTCATTTTATCCTACAAGGGTATTAC
1 AGTCATTTTACCCTATAAGGGTATT-T
*
53313002 AATCATTTTACCCTAT-AGGGATATTTT
1 AGTCATTTTACCCTATAAGGG-TA-TTT
* * * **
53313029 GGTCATTTTACGCTCTGGGGGTATTT
1 AGTCATTTTACCCTATAAGGGTATTT
**
53313055 CAGTTGTTTTACCCTATAAGGGTATTT
1 -AGTCATTTTACCCTATAAGGGTATTT
* **
53313082 CGGTCATTTTACCCTATGGGGGTATTTT
1 -AGTCATTTTACCCTATAAGGGTA-TTT
* *
53313110 GGTCGTTTTACCCTAT-AGGGTATTT
1 AGTCATTTTACCCTATAAGGGTATTT
* ** *
53313135 CGATTGTTTTACCCTAT-GGAGGTATTT
1 AG-TCATTTTACCCTATAAG-GGTATTT
* **
53313162 CGGTCATTTTACCCTATGGGGGTATTT
1 -AGTCATTTTACCCTATAAGGGTATTT
**
53313189 CAGTCATTTTACCCTATGGGGGTATTT
1 -AGTCATTTTACCCTATAAGGGTATTT
* * * **
53313216 CGGTCGTTTTACCTTATGGGGGTATTT
1 -AGTCATTTTACCCTATAAGGGTATTT
* * *
53313243 CGGCCATTTTAACCTATAAGGGTATTT
1 -AGTCATTTTACCCTATAAGGGTATTT
53313270 CAGTCAT
1 -AGTCAT
53313277 CATTTCGGCC
Statistics
Matches: 248, Mismatches: 45, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.02
26 26 0.10
27 207 0.83
28 11 0.04
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (26 bp):
AGTCATTTTACCCTATAAGGGTATTT
Found at i:53313051 original size:54 final size:53
Alignment explanation
Indices: 53312946--53313276 Score: 322
Period size: 54 Copynumber: 6.2 Consensus size: 53
53312936 GAAAGGCAAA
* * * ***
53312946 TCAGTCATTTTACCTTATAAGGGTATTAT-AGTCATTTTATCCTACAAGGGTATT
1 TCAGTCATTTTACCCTAT-AGGGTATT-TCGGTCATTTTACCCTATGGGGGTATT
* * * * *
53313000 ACAATCATTTTACCCTATAGGGATATTTTGGTCATTTTACGCTCTGGGGGTATT
1 TCAGTCATTTTACCCTATAGGG-TATTTCGGTCATTTTACCCTATGGGGGTATT
**
53313054 TCAGTTGTTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTAT-AGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
** * * ** *
53313108 TTGGTCGTTTTACCCTATAGGGTATTTCGATTGTTTTACCCTATGGAGGTATT
1 TCAGTCATTTTACCCTATAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
* * *
53313161 TCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTAT-AGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
* * * * * * **
53313215 TCGGTCGTTTTACCTTATGGGGGTATTTCGGCCATTTTAACCTATAAGGGTATT
1 TCAGTCATTTTACCCTAT-AGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
53313269 TCAGTCAT
1 TCAGTCAT
53313277 CATTTCGGCC
Statistics
Matches: 232, Mismatches: 41, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
53 52 0.22
54 176 0.76
55 4 0.02
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (53 bp):
TCAGTCATTTTACCCTATAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
Found at i:53313190 original size:134 final size:135
Alignment explanation
Indices: 53312978--53313270 Score: 383
Period size: 134 Copynumber: 2.2 Consensus size: 135
53312968 GTATTATAGT
* * * * ** * *
53312978 CATTTTATCCTACAAGGGTATTACAATCATTTTACCCTATAGGGATATTTTGGTCATTTTACGCT
1 CATTTTAACCTATAAGGGTATTTCGATTGTTTTACCCTATAGGGATATTTCGGTCATTTTACCCT
* **
53313043 CTGGGGGTATTTCAGTTGTTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
66 ATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
* *
53313108 TTGGT
131 TCGGC
* * *
53313113 CGTTTTACCCTAT-AGGGTATTTCGATTGTTTTACCCTAT-GGAGGTATTTCGGTCATTTTACCC
1 CATTTTAACCTATAAGGGTATTTCGATTGTTTTACCCTATAGG-GATATTTCGGTCATTTTACCC
** * *
53313176 TATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCGTTTTACCTTATGGGGGTAT
65 TATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTAT
53313241 TTCGGC
130 TTCGGC
53313247 CATTTTAACCTATAAGGGTATTTC
1 CATTTTAACCTATAAGGGTATTTC
53313271 AGTCATCATT
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
133 2 0.01
134 113 0.84
135 20 0.15
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (135 bp):
CATTTTAACCTATAAGGGTATTTCGATTGTTTTACCCTATAGGGATATTTCGGTCATTTTACCCT
ATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
TCGGC
Found at i:53313270 original size:81 final size:81
Alignment explanation
Indices: 53313004--53313276 Score: 343
Period size: 81 Copynumber: 3.4 Consensus size: 81
53312994 GGTATTACAA
** * * *
53313004 TCATTTTACCCTAT-AGGGATATTTTGGTCATTTTACGCTCTGGGGGTATTTCAGTTGTTTTACC
1 TCATTTTACCCTATGAGGG-TATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTTGTTTTACC
**
53313068 CTATAAGGGTATTTCGG
65 CTATGGGGGTATTTCGG
* ** * * *
53313085 TCATTTTACCCTATGGGGGTATTTTGGTCGTTTTACCCTAT-AGGGTATTTCGATTGTTTTACCC
1 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTTGTTTTACCC
*
53313149 TATGGAGGTATTTCGG
66 TATGGGGGTATTTCGG
* * *
53313165 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCGTTTTACCT
1 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTTGTTTTACCC
53313230 TATGGGGGTATTTCGG
66 TATGGGGGTATTTCGG
* * *
53313246 CCATTTTAACCTATAAGGGTATTTCAGTCAT
1 TCATTTTACCCTATGAGGGTATTTCAGTCAT
53313277 CATTTCGGCC
Statistics
Matches: 168, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 71 0.42
81 94 0.56
82 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTTGTTTTACCC
TATGGGGGTATTTCGG
Found at i:53316670 original size:27 final size:27
Alignment explanation
Indices: 53316640--53316757 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
53316630 AGGGTAAATC
* * *
53316640 AGTCATTTTACCTTACAGGGGTGTAAT
1 AGTCATTTTACCCTACAGGGGTATTAT
53316667 AGTCATTTTACCCTACAGGGGTATTAT
1 AGTCATTTTACCCTACAGGGGTATTAT
* * * * *
53316694 AATTATTTTACCCTATAGGGGCATTAC
1 AGTCATTTTACCCTACAGGGGTATTAT
* * *
53316721 AGTCATTTTACCTTATA-GGGTATTTT
1 AGTCATTTTACCCTACAGGGGTATTAT
*
53316747 GGTCATTTTAC
1 AGTCATTTTAC
53316758 ACTCTGGGGG
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 16 0.21
27 60 0.79
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (27 bp):
AGTCATTTTACCCTACAGGGGTATTAT
Found at i:53316777 original size:27 final size:27
Alignment explanation
Indices: 53316698--53316941 Score: 222
Period size: 27 Copynumber: 9.1 Consensus size: 27
53316688 TATTATAATT
* * * *
53316698 ATTTTACCCTATAGGGGCATTACAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
53316725 ATTTTACCTTAT-AGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
53316751 ATTTTACACTCTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * **
53316778 ATTTTACCTTATGAGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *** *
53316805 GTTTTACCCTTTAAAGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
53316832 GTTTTACCCTATTGGGGGT-TTTCGGTT
1 ATTTTACCCTA-TGGGGGTATTTCGGTC
*
53316859 ATTTTACCCTATAGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
53316886 GTTTTACCCTATGGGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
53316913 ATTTTAGCCTATGAGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
53316940 AT
1 AT
53316942 CATTTCGACC
Statistics
Matches: 174, Mismatches: 40, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 24 0.14
27 146 0.84
28 4 0.02
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:53316855 original size:81 final size:81
Alignment explanation
Indices: 53316698--53316941 Score: 251
Period size: 81 Copynumber: 3.0 Consensus size: 81
53316688 TATTATAATT
* * * * * * * * * *
53316698 ATTTTACCCTATAGGGGCATTACAGTCATTTTACCTTAT-AGGGTATTTTGGTCATTTTACACTC
1 ATTTTACCCTATAGGGGTATTTCAATCGTTTTACCCTATAAAGGTATTTCGGTTATTTTACCCTA
53316762 TGGGGGTATTTCGGTC
66 TGGGGGTATTTCGGTC
* * *
53316778 ATTTTACCTTAT-GAGGGTATTTCAATCGTTTTACCCTTTAAAGGTATTTCGGTTGTTTTACCCT
1 ATTTTACCCTATAG-GGGTATTTCAATCGTTTTACCCTATAAAGGTATTTCGGTTATTTTACCCT
*
53316842 ATTGGGGGT-TTTCGGTT
65 A-TGGGGGTATTTCGGTC
** *** *
53316859 ATTTTACCCTATAGGGGTATTTCGGTCGTTTTACCCTATGGGGGTATTTCGGTTATTTTAGCCTA
1 ATTTTACCCTATAGGGGTATTTCAATCGTTTTACCCTATAAAGGTATTTCGGTTATTTTACCCTA
* *
53316924 TGAGGGTATTTTGGTC
66 TGGGGGTATTTCGGTC
53316940 AT
1 AT
53316942 CATTTCGACC
Statistics
Matches: 133, Mismatches: 26, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
79 1 0.01
80 36 0.27
81 88 0.66
82 8 0.06
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTATAGGGGTATTTCAATCGTTTTACCCTATAAAGGTATTTCGGTTATTTTACCCTA
TGGGGGTATTTCGGTC
Found at i:53320629 original size:30 final size:30
Alignment explanation
Indices: 53320593--53320656 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
53320583 ATCAATAAAC
*
53320593 CATCGTTGCCGAACGATCAGGGTGGTAGGT
1 CATCGTTGCCGAACGATCAAGGTGGTAGGT
* **
53320623 CATCGTTGCTGGGCGATCAAGGTGGTAGGT
1 CATCGTTGCCGAACGATCAAGGTGGTAGGT
53320653 CATC
1 CATC
53320657 ACTGTCCGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (30 bp):
CATCGTTGCCGAACGATCAAGGTGGTAGGT
Found at i:53322852 original size:27 final size:26
Alignment explanation
Indices: 53322792--53322931 Score: 163
Period size: 27 Copynumber: 5.2 Consensus size: 26
53322782 CATGGCTGCA
* *
53322792 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
53322818 AGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
53322846 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
53322873 AGATCAGATATTTGTGGCAAAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
53322900 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
53322927 AGAAC
1 AGAAC
53322932 GCTTCCTCCA
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
26 3 0.03
27 84 0.81
28 17 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:53324585 original size:26 final size:26
Alignment explanation
Indices: 53324549--53324629 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
53324539 CATGAAATTC
53324549 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
53324575 TTATCATGAAACATTTACCTAACCC-
1 TTATCATGAAACATTTACCTAACCCA
* *
53324600 --ATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
53324624 TTATCA
1 TTATCA
53324630 ATTTGTATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
23 21 0.42
26 29 0.58
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:53328652 original size:26 final size:27
Alignment explanation
Indices: 53328623--53328763 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
53328613 AGCATGGCTG
* *
53328623 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
53328649 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
53328677 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
53328704 CC-GATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
53328730 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
53328757 CCAGAAC
1 CCAGAAC
53328764 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 29 0.28
27 59 0.56
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Done.