Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 61 of 295
Found at i:17793094 original size:19 final size:19
Alignment explanation
Indices: 17793070--17793108 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17793060 TTTTTTTATA
17793070 TTTTAAAATTTATGAGAAT
1 TTTTAAAATTTATGAGAAT
* *
17793089 TTTTAAATTTTATTAGAAT
1 TTTTAAAATTTATGAGAAT
17793108 T
1 T
17793109 AGGATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTATGAGAAT
Found at i:17794239 original size:20 final size:22
Alignment explanation
Indices: 17794209--17794249 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
17794199 AATAACTTTT
17794209 TAAACAGGGC-ACACGCCCGTA
1 TAAACAGGGCAACACGCCCGTA
17794230 TAAA-AGGGCAACACGCCCGT
1 TAAACAGGGCAACACGCCCGT
17794250 GTGGTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.32, G:0.24, T:0.10
Consensus pattern (22 bp):
TAAACAGGGCAACACGCCCGTA
Found at i:17794410 original size:28 final size:28
Alignment explanation
Indices: 17794373--17794496 Score: 203
Period size: 28 Copynumber: 4.4 Consensus size: 28
17794363 ACAGTCTGAC
17794373 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
*
17794401 ACACGTCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
** *
17794429 ACACGCCAATGTCCTTCACATGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
17794457 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
*
17794485 ACACGCCTGTGT
1 ACACGCCCGTGT
17794497 TCTAGCCCGT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.20
Consensus pattern (28 bp):
ACACGCCCGTGTCCTTCACACGGCCATG
Found at i:17795507 original size:47 final size:46
Alignment explanation
Indices: 17795453--17795719 Score: 224
Period size: 46 Copynumber: 5.7 Consensus size: 46
17795443 GTATAATACT
* * *
17795453 GATGCCATGTCTCAGACATAGTCTTACACTGGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCC-TCAAGCC
* ** ** *
17795500 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATTCGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-GC-T-CATCCTCAAGCC
* * * *
17795550 GATGCCATGTCCCAGACATGGTCTTACACTGACACAT-CTCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCTC-AAGCC
* *
17795596 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACAT-CTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCTC-AAGCC
* *
17795642 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CTCAA-GCC
17795688 GATGCCATGTCCCAGACATGGTCTTACACTGG
1 GATGCCATGTCCCAGACATGGTCTTACACTGG
17795720 ATCTCATAAT
Statistics
Matches: 181, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 13 0.07
45 17 0.09
46 54 0.30
47 42 0.23
48 13 0.07
49 2 0.01
50 36 0.20
51 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCTCAAGCC
Found at i:17795636 original size:46 final size:48
Alignment explanation
Indices: 17795451--17795763 Score: 221
Period size: 46 Copynumber: 6.7 Consensus size: 48
17795441 GGGTATAATA
* * * *
17795451 CTGATGCCATGTCTCAGACATAGTCTTACACTGGC-TCATCCATC-AAG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAC-TCGTAG
* *
17795498 -TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATTCGT-G
1 CT-GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTT-CATACTCGTAG
* *
17795548 -TCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACAT-CTCGTAG
1 CT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATACTCGTAG
*
17795594 CTGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACAT-CTCG-AGG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATACTCGTA-G
** * * *
17795640 CCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTC-AATG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATACTCGTA-G
* * * *
17795686 CCGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAAT-GTGG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATACTCGTAG
* *
17795734 TTGATG-CATGTCCTAGACAT-GTCTTACACT
1 CTGATGCCATGTCCCAGACATGGTCTTACACT
17795764 AGCACACAAA
Statistics
Matches: 221, Mismatches: 28, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
44 12 0.05
45 18 0.08
46 69 0.31
47 57 0.26
48 23 0.10
49 3 0.01
50 36 0.16
51 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATACTCGTAG
Found at i:17795741 original size:94 final size:97
Alignment explanation
Indices: 17795453--17795766 Score: 302
Period size: 94 Copynumber: 3.3 Consensus size: 97
17795443 GTATAATACT
* * *
17795453 GATGCCATGTCTCAGACATAGTCTTACACTGGCTCATC-CATCAA-GTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCTC-TCTC-TCAATGCCGATGCCATGTCCCAGA
* *
17795516 CATGGTCTTACACTAGCTCTTACATATTCGT-GTC
64 CATGGTCTTACACTGGCTC-TACATAATCGTGGTC
* * * *
17795550 GATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCGT--A-GCTGATG-CATGTCCTAG
1 GATGCCATGTCCCAGACATAGTCTTACACTAG-CTC-TCTC-TCAATGCCGATGCCATGTCCCAG
* * *
17795610 ACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCC
63 ACATGGTCTTACACTGGCTCTACATAATCGTGGTC
*
17795642 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTC-TCTCAATGCCGATGCCATGTCCCAGAC
* *
17795705 ATGGTCTTACACTGGATCT-CATAAT-GTGGTT
65 ATGGTCTTACACTGGCTCTACATAATCGTGGTC
*
17795736 GATG-CATGTCCTAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGC
17795767 ACACAAATAA
Statistics
Matches: 183, Mismatches: 22, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
89 3 0.02
90 14 0.08
91 19 0.10
92 16 0.09
93 13 0.07
94 61 0.33
95 15 0.08
96 7 0.04
97 33 0.18
98 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (97 bp):
GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCTCTCAATGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTACATAATCGTGGTC
Found at i:17795750 original size:140 final size:141
Alignment explanation
Indices: 17795505--17795763 Score: 375
Period size: 140 Copynumber: 1.8 Consensus size: 141
17795495 AAGTCGATGC
* * *
17795505 CATGTCCCAGACATGGTCTTACACTAGCTCTTACATATTCGTGTCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTTACATACTCATGCCGATGCCATGTCCCAGACATG
*
17795570 GTCTTACACTGACACATCTCGTAGCTGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCT
66 GTCTTACACTGACACATATCGTAGCTGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCT
17795635 CGAGGCCAATG
131 CGAGGCCAATG
*
17795646 CATGTCCCAGACAT-GTCTTACACTAGCTC-T-CGT-CTCAATGCCGATGCCATGTCCCAGACAT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTTACATACTC-ATGCCGATGCCATGTCCCAGACAT
* * *
17795707 GGTCTTACACTGGATCTCATAAT-GTGGTTGATGCATGTCCTAGACATGTCTTACACT
65 GGTCTTACACT-GA-CACAT-ATCGTAGCTGATGCATGTCCTAGACATGTCTTACACT
17795764 AGCACACAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
137 2 0.02
138 35 0.33
139 3 0.03
140 51 0.48
141 15 0.14
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (141 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTTACATACTCATGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACACATATCGTAGCTGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCT
CGAGGCCAATG
Found at i:17797422 original size:13 final size:13
Alignment explanation
Indices: 17797385--17797428 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17797375 AAGATTTAGT
17797385 ATTTATTAGTATA
1 ATTTATTAGTATA
*
17797398 ATATATT--TATA
1 ATTTATTAGTATA
*
17797409 ATTTATTAGCATA
1 ATTTATTAGTATA
17797422 ATTTATT
1 ATTTATT
17797429 TGACCTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:17798107 original size:25 final size:23
Alignment explanation
Indices: 17798079--17798124 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
17798069 ACGAGCACAA
17798079 AAGTACTAAGAAATCATGAGCACTG
1 AAGTACT-AGAAA-CATGAGCACTG
* *
17798104 AAGTGCTGGAAACATGAGCAC
1 AAGTACTAGAAACATGAGCAC
17798125 ATAAGTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 4 0.21
25 6 0.32
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (23 bp):
AAGTACTAGAAACATGAGCACTG
Found at i:17799081 original size:31 final size:31
Alignment explanation
Indices: 17799023--17799081 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
17799013 TTTAATTTAA
* *
17799023 CCCTTCAACTTTTGAATATTTATTATTTGAC
1 CCCTTCAACTTTTCAATATTTACTATTTGAC
*
17799054 CCCTTC-ACTTTTCACTAGTTTACTATTT
1 CCCTTCAACTTTTCAATA-TTTACTATTT
17799082 AGTCTATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (31 bp):
CCCTTCAACTTTTCAATATTTACTATTTGAC
Found at i:17801822 original size:32 final size:29
Alignment explanation
Indices: 17801764--17801824 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 29
17801754 TGACTCAAGT
*
17801764 TTTTGATAATTAAAAAAATTAGAAAATAA
1 TTTTGATAATTAAAAAAATTAAAAAATAA
17801793 TTTTGATAATTTAATACAAAATTAAAAAATAA
1 TTTTGATAA-TTAA-A-AAAATTAAAAAATAA
17801825 AATAAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.32
30 4 0.14
31 1 0.04
32 14 0.50
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTTGATAATTAAAAAAATTAAAAAATAA
Found at i:17803597 original size:14 final size:15
Alignment explanation
Indices: 17803575--17803606 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17803565 GAATTATGTT
17803575 AGTTGTATTATCATA
1 AGTTGTATTATCATA
17803590 AGTT-TATTATCATA
1 AGTTGTATTATCATA
17803604 AGT
1 AGT
17803607 ATAAATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
AGTTGTATTATCATA
Found at i:17804614 original size:7 final size:6
Alignment explanation
Indices: 17804584--17804615 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
17804574 TTTGCAACCC
17804584 AAGGGG AAGGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
17804616 GAAGAATGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:17827956 original size:12 final size:13
Alignment explanation
Indices: 17827930--17827954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17827920 AAATGACTAA
17827930 AAATATTTTTTTT
1 AAATATTTTTTTT
17827943 AAATATTTTTTT
1 AAATATTTTTTT
17827955 AATTTTTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AAATATTTTTTTT
Found at i:17833010 original size:14 final size:15
Alignment explanation
Indices: 17832991--17833020 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17832981 ATGCTAATAA
17832991 ATACTAA-AAATATT
1 ATACTAATAAATATT
17833005 ATACTAATAAATATT
1 ATACTAATAAATATT
17833020 A
1 A
17833021 AATCTTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATACTAATAAATATT
Found at i:17833834 original size:21 final size:21
Alignment explanation
Indices: 17833805--17833846 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17833795 TTGGGTTGAT
* *
17833805 GTCTTGAGACAAGACGAATAA
1 GTCTCGAGACAAGAAGAATAA
*
17833826 GTCTCGAGATAAGAAGAATAA
1 GTCTCGAGACAAGAAGAATAA
17833847 AAGTTGTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (21 bp):
GTCTCGAGACAAGAAGAATAA
Found at i:17835500 original size:24 final size:24
Alignment explanation
Indices: 17835472--17835532 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
17835462 TAAATATATT
*
17835472 ATATGTTATTATTATATCATTTTA
1 ATATGTTATTATTATATAATTTTA
17835496 ATATGAATT-TT-TTATATAATTTTA
1 ATATG--TTATTATTATATAATTTTA
*
17835520 ATATATTATTATT
1 ATATGTTATTATT
17835533 TAAAATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 23 0.74
25 2 0.06
26 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
ATATGTTATTATTATATAATTTTA
Found at i:17836565 original size:30 final size:29
Alignment explanation
Indices: 17836497--17836579 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
17836487 AACTTCTTGC
* *
17836497 ATTTTTTGTAAATTAAAAATTTAGTTTTGT
1 ATTTTTT-TAATTTTAAAATTTAGTTTTGT
* *
17836527 ATTTTTTTATTTTTAATAATTTAGTTTCTTT
1 ATTTTTTTAATTTTAA-AATTTAGTTT-TGT
17836558 A-TTTTTTAATTTTAAAATTTAG
1 ATTTTTTTAATTTTAAAATTTAG
17836580 GTCTAACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.28
30 30 0.65
31 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATTTAGTTTTGT
Found at i:17836782 original size:29 final size:29
Alignment explanation
Indices: 17836715--17836770 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
17836705 CTTCAATTTT
* *
17836715 AAAATCTAAAATATAAAATTAAATTCTTG
1 AAAATATAAAATAAAAAATTAAATTCTTG
17836744 AAAATA-AAAATAAAAATATTAAATTCT
1 AAAATATAAAATAAAAA-ATTAAATTCT
17836771 AAATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAATATAAAATAAAAAATTAAATTCTTG
Found at i:17837696 original size:14 final size:13
Alignment explanation
Indices: 17837656--17837735 Score: 54
Period size: 13 Copynumber: 6.7 Consensus size: 13
17837646 TTATTGTATT
17837656 TATTTGATTTAAT-
1 TATTT-ATTTAATA
17837669 TATTT-TTTAA-A
1 TATTTATTTAATA
17837680 TATTATATTTAATA
1 TATT-TATTTAATA
17837694 TA-TTATTT--T-
1 TATTTATTTAATA
17837703 TA-TTATTTAA-A
1 TATTTATTTAATA
*
17837714 TATTATTTTTAATA
1 TATT-TATTTAATA
17837728 TA-TTATTT
1 TATTTATTT
17837736 TTATTATACT
Statistics
Matches: 55, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
9 8 0.15
10 1 0.02
11 11 0.20
12 11 0.20
13 18 0.33
14 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (13 bp):
TATTTATTTAATA
Found at i:17837712 original size:34 final size:34
Alignment explanation
Indices: 17837668--17837742 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
17837658 TTTGATTTAA
*
17837668 TTATTTTTTAAATATTATATTTAATATATTATTT
1 TTATTATTTAAATATTATATTTAATATATTATTT
*
17837702 TTATTATTTAAATATTATTTTTAATATATTATTT
1 TTATTATTTAAATATTATATTTAATATATTATTT
17837736 TTATTAT
1 TTATTAT
17837743 ACTCAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (34 bp):
TTATTATTTAAATATTATATTTAATATATTATTT
Found at i:17837716 original size:20 final size:21
Alignment explanation
Indices: 17837685--17837724 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
17837675 TTAAATATTA
17837685 TATTTAATATATTATTTTTAT
1 TATTTAATATATTATTTTTAT
17837706 TATTTAA-ATATTATTTTTA
1 TATTTAATATATTATTTTTA
17837725 ATATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTAATATATTATTTTTAT
Found at i:17837736 original size:14 final size:14
Alignment explanation
Indices: 17837667--17837743 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 14
17837657 ATTTGATTTA
17837667 ATTATTTTTTAA-AT
1 ATTA-TTTTTAATAT
*
17837681 ATTATATTTAATAT
1 ATTATTTTTAATAT
17837695 ATTATTTTTATTATTTAAAT
1 ATTATTTTTA--A--T--AT
17837715 ATTATTTTTAATAT
1 ATTATTTTTAATAT
*
17837729 ATTATTTTTATTAT
1 ATTATTTTTAATAT
17837743 A
1 A
17837744 CTCAATAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
13 6 0.11
14 31 0.58
16 2 0.04
18 2 0.04
20 12 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATTTTTAATAT
Found at i:17841193 original size:13 final size:13
Alignment explanation
Indices: 17841177--17841201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17841167 CAAAACAAGA
17841177 CAAAAAAATAAAC
1 CAAAAAAATAAAC
17841190 CAAAAAAATAAA
1 CAAAAAAATAAA
17841202 AAACCCAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAAAAATAAAC
Found at i:17843976 original size:131 final size:131
Alignment explanation
Indices: 17843742--17844133 Score: 633
Period size: 131 Copynumber: 3.0 Consensus size: 131
17843732 TAGTTATTCA
* * ** *
17843742 TTTAAAAATTCTT-AAAAGCGAAGGAAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTAT
1 TTTAAAAACTCTTCAAAA-CGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * *
17843806 CGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTGGAACTTCACTCATG
65 CGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATG
17843871 TC
130 TC
*
17843873 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTGTC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
17843938 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
17844003 C
131 C
*
17844004 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * *
17844069 GTGCTGGGTTGCGATCTCCTGTTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
17844134 TCTCTAAATT
Statistics
Matches: 244, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 240 0.98
132 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (131 bp):
TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
C
Found at i:17851330 original size:3 final size:3
Alignment explanation
Indices: 17851322--17851623 Score: 68
Period size: 3 Copynumber: 99.7 Consensus size: 3
17851312 TATTTATTTC
* * * *
17851322 TAT TAT TA- TAT ATAT AAAT TAT TAT TAT TAT T-T GTTT TAT TTT TAA
1 TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * *
17851368 CCT TAT TTT TA- TAT TAT ATAT TA- TAT AAT TAT T-T TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
17851412 TATT TAT T-T TAT TAT TATT TAT TAT ATAT TACT T-T TCACT AAA TAT
1 TA-T TAT TAT TAT TAT TA-T TAT TAT -TAT TA-T TAT T-A-T TAT TAT
* * *
17851458 TAT TAT T-T TA- CAT TAT TAT TAT TA- TAT T-T TTT GTAT AAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TA-T
* * *
17851502 TAT TAAT TA- TAT ATAT TAT ATAT TAT TTT TACA TAT ATACT T-T CA-
1 TAT T-AT TAT TAT -TAT TAT -TAT TAT TAT TA-T TAT -TA-T TAT TAT
* * *
17851547 TAT TA- TAT TAT AAT TAT T-T TA- TAT TA- TAT TAT TTT TA- TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
17851590 TAT ATAT T-T TTT TAT CTAT ATAT TAT TAT CAT TA
1 TAT -TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TA
17851624 AAGGTTTTAA
Statistics
Matches: 218, Mismatches: 39, Indels: 84
0.64 0.11 0.25
Matches are distributed among these distances:
2 36 0.17
3 127 0.58
4 52 0.24
5 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:17851526 original size:16 final size:16
Alignment explanation
Indices: 17851377--17851615 Score: 78
Period size: 16 Copynumber: 14.9 Consensus size: 16
17851367 ACCTTATTTT
17851377 TATATTATATATTATA
1 TATATTATATATTATA
17851393 TA-ATTAT-T-TTATTA
1 TATATTATATATTA-TA
* *
17851407 TATATTATTTATTTTA
1 TATATTATATATTATA
*
17851423 T-TATTATTTA-T-TA
1 TATATTATATATTATA
17851436 TATATTACT-T-TTCACTA
1 TATATTA-TATATT-A-TA
*
17851453 AATATTAT-TATT-T-
1 TATATTATATATTATA
*
17851466 TACATTAT-TATTATTA
1 TATATTATATATTA-TA
* * * *
17851482 TATTTTTTGTATAATA
1 TATATTATATATTATA
17851498 TAT-TTAT-TAATTATA
1 TATATTATAT-ATTATA
*
17851513 TATATTATATATTATT
1 TATATTATATATTATA
* *
17851529 TTTACATATATACTTTCATA
1 TATA-TTATATA--TT-ATA
*
17851549 TTATATTATA-ATTATTT
1 -TATATTATATATTA-TA
*
17851566 TATATTATATTATTTTTA
1 TATATTATA-TA-TTATA
*
17851584 TACTATTATATATT-TT
1 TA-TATTATATATTATA
*
17851600 TTTATCTATATATTAT
1 TATAT-TATATATTAT
17851616 TATCATTAAA
Statistics
Matches: 172, Mismatches: 21, Indels: 59
0.68 0.08 0.23
Matches are distributed among these distances:
13 16 0.09
14 15 0.09
15 35 0.20
16 50 0.29
17 29 0.17
18 6 0.03
19 12 0.07
20 6 0.03
21 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATTATATATTATA
Found at i:17851563 original size:84 final size:82
Alignment explanation
Indices: 17851384--17851597 Score: 194
Period size: 84 Copynumber: 2.6 Consensus size: 82
17851374 TTTTATATTA
* * *
17851384 TATATTATATAATTATTTTATTATATATTATTTATTTTATTATTATTTATTATATATTACTTTTC
1 TATATTATATTATTATTTTATTATATATTATTTATTTAATTATTATATATTATATATTACTTTTC
* *
17851449 ACTAAATATTATTATTT
66 ACTAAATATTATCATAT
* * *
17851466 TACATTATTATTATTATATTTTTTGTATAATATATTTA-TTAATTA-TATATATTATATATTA-T
1 TATATTA-TATTATTAT-TTTATTATAT-AT-TATTTATTTAATTATTATATATTATATATTACT
* *
17851528 TTTTACATATATACTT-TCATAT
62 TTTCAC-TAAATA-TTATCATAT
*
17851550 TATATTATA--ATTATTTTA-TATTATATTA-TT-TTTATACTATTATATATT
1 TATATTATATTATTATTTTATTA-TATATTATTTATTTA-ATTATTATATATT
17851598 TTTTTATCTA
Statistics
Matches: 108, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
77 5 0.05
78 5 0.05
79 11 0.10
80 6 0.06
81 5 0.05
82 6 0.06
83 16 0.15
84 38 0.35
85 10 0.09
86 6 0.06
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (82 bp):
TATATTATATTATTATTTTATTATATATTATTTATTTAATTATTATATATTATATATTACTTTTC
ACTAAATATTATCATAT
Found at i:17851584 original size:21 final size:21
Alignment explanation
Indices: 17851374--17851615 Score: 83
Period size: 20 Copynumber: 10.8 Consensus size: 21
17851364 TTAACCTTAT
*
17851374 TTTTATATTATATATTATATAA
1 TTTT-TATTATATATTATATTA
17851396 TTATTTTATTATATATTAT-TTA
1 -T-TTTTATTATATATTATATTA
17851418 -TTTTATTAT-TATT-TATTA
1 TTTTTATTATATATTATATTA
* * *
17851436 TATATTACTTTTCACTAAATATTATTA
1 T-TTTTA-TTAT-A-T-ATTA-TATTA
*
17851463 TTTTACATTATTATTATTATATT-
1 TTTT-TATTA-TA-TATTATATTA
*
17851486 TTTTGTATAATATATT-TATTA
1 TTTT-TATTATATATTATATTA
* *
17851507 ATTATA-TATAT-TATATATTA
1 TTTTTATTATATAT-TATATTA
*
17851527 TTTTTACATATATACTTTCATATTATA
1 TTTTTA-TTATATA--TT-ATA-T-TA
*
17851554 TTATAATTATTTTATATTATATTA
1 TT-T--TTATTATATATTATATTA
17851578 TTTTTA-TACTAT-TATATATT-
1 TTTTTATTA-TATAT-TATATTA
17851598 TTTTTATCTATATATTAT
1 TTTTTAT-TATATATTAT
17851616 TATCATTAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 66
0.66 0.08 0.26
Matches are distributed among these distances:
17 1 0.01
18 8 0.05
19 14 0.08
20 27 0.16
21 27 0.16
22 12 0.07
23 22 0.13
24 13 0.08
25 10 0.06
26 10 0.06
27 14 0.08
28 1 0.01
29 5 0.03
30 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATTATATATTATATTA
Found at i:17851592 original size:14 final size:15
Alignment explanation
Indices: 17851374--17851581 Score: 77
Period size: 15 Copynumber: 14.3 Consensus size: 15
17851364 TTAACCTTAT
17851374 TTTTATATTATA-TA
1 TTTTATATTATATTA
* *
17851388 TTATATAATTATTTTA
1 TTTTAT-ATTATATTA
*
17851404 TTATATATTAT-TTA
1 TTTTATATTATATTA
17851418 TTTTATTATTAT-TTA
1 TTTTA-TATTATATTA
* *
17851433 TTATATA-T-TACT-
1 TTTTATATTATATTA
* *
17851445 TTTCACTA-AATATTA
1 TTTTA-TATTATATTA
* *
17851460 --TTATTTTACATTA
1 TTTTATATTATATTA
* *
17851473 TTAT-TATTATATTT
1 TTTTATATTATATTA
*
17851487 TTTGTATAATATATT-
1 TTT-TATATTATATTA
*
17851502 TATTA-ATTATATATA
1 TTTTATATTATAT-TA
*
17851517 TTATATATTAT-TT-
1 TTTTATATTATATTA
**
17851530 TTACATA-TATACTTTCA
1 TTTTATATTATA--TT-A
*
17851547 TATTATATTATAATTA
1 TTTTATATTAT-ATTA
17851563 TTTTATATTATATTA
1 TTTTATATTATATTA
17851578 TTTT
1 TTTT
17851582 TATACTATTA
Statistics
Matches: 144, Mismatches: 28, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
12 8 0.06
13 23 0.16
14 30 0.21
15 41 0.28
16 32 0.22
17 6 0.04
18 3 0.02
19 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATATTATATTA
Found at i:17851604 original size:26 final size:26
Alignment explanation
Indices: 17851561--17851618 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
17851551 ATATTATAAT
* * *
17851561 TATTTTATATTATATTATTTTTATAC
1 TATTATATATTATATTATCTATATAC
* * *
17851587 TATTATATATTTTTTTATCTATATAT
1 TATTATATATTATATTATCTATATAC
17851613 TATTAT
1 TATTAT
17851619 CATTAAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTATATATTATATTATCTATATAC
Found at i:17851773 original size:21 final size:23
Alignment explanation
Indices: 17851748--17851806 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
17851738 ATCATTAATT
* *
17851748 ACTTATTTTATGT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
17851769 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
17851793 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
17851807 AATATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 10 0.30
22 11 0.33
23 10 0.30
24 2 0.06
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:17863898 original size:205 final size:205
Alignment explanation
Indices: 17863520--17864072 Score: 835
Period size: 205 Copynumber: 2.7 Consensus size: 205
17863510 AAGATCTGGT
* *
17863520 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
* *
17863585 TTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTAGCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGCTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
* * * * *
17863650 AACAAATCGAAGCCTGGATTCTCCACTTCGACGGAGGGCAGACACGTAGCAGATC-CACCCTTCA
131 AACAAATCGAAGCCTGGATTCTCCACTTCAACAGAGAGCAGACACATAACAGATCTCA-CCTTCA
* *
17863714 GAT-GTTTATAC
195 GATAATTT-CAC
* *
17863725 TGAAGTAGATCCATGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
17863790 TTTGGCTTTCACGTGCTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGCTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
* * *
17863855 AACAAATCGAAGTCTGGCA-TCTCCATTTCAACAGAGAGCAGACATATAACAGATCTCACCTTCA
131 AACAAATCGAAGCCTGG-ATTCTCCACTTCAACAGAGAGCAGACACATAACAGATCTCACCTTCA
17863919 GATAATTTCAC
195 GATAATTTCAC
* * * * *
17863930 TGAAACAAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTA
1 TG-AAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
17863995 ATTTGGCTTTCGCGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 ATTTGGCTTTCACGTGCTTAC-ATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
17864059 AGAACAAATCGAAG
129 AGAACAAATCGAAG
17864073 AAGCAGATTT
Statistics
Matches: 320, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
205 183 0.57
206 136 0.43
207 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (205 bp):
TGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
TTTGGCTTTCACGTGCTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGCCTGGATTCTCCACTTCAACAGAGAGCAGACACATAACAGATCTCACCTTCAG
ATAATTTCAC
Found at i:17864280 original size:4 final size:4
Alignment explanation
Indices: 17864271--17864303 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
17864261 AACCGGGCCT
17864271 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
17864304 GTTTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:17865927 original size:29 final size:27
Alignment explanation
Indices: 17865877--17865998 Score: 69
Period size: 29 Copynumber: 4.5 Consensus size: 27
17865867 TTATTTTACA
* * *
17865877 TTATTATTATATTTTTTGTATAATATAT
1 TTATTATTATATATATTATATAATAT-T
*
17865905 TTATTAATTATATATATTATATATTATT
1 TTATT-ATTATATATATTATATAATATT
* *
17865933 TTA-CA-TATATACT-TTCATATTATATT
1 TTATTATTATATA-TATT-ATATAATATT
*
17865959 ATAATTATT-T-TATATTATAT--TATT
1 -TTATTATTATATATATTATATAATATT
17865983 TTATACTATTATATAT
1 TTAT--TATTATATAT
17865999 TTTTTATCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
23 3 0.04
24 4 0.05
25 12 0.16
26 16 0.22
27 9 0.12
28 11 0.15
29 18 0.25
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (27 bp):
TTATTATTATATATATTATATAATATT
Found at i:17865943 original size:40 final size:38
Alignment explanation
Indices: 17865836--17866019 Score: 131
Period size: 35 Copynumber: 4.9 Consensus size: 38
17865826 ACCTTATTTT
*
17865836 TATATTATATATTACTTTTCACGA-A-ATATTATTATTTTA
1 TATATTATATATTA-TTTT-AC-ATATATATTATTATTATA
* **
17865875 CATTATTATTATATT-TTTTGTATAATATATTTATTAATTATA
1 TA-TATTA-TATATTATTTTACAT-ATATA-TTATT-ATTATA
*
17865917 TATATTATATATTATTTTACATATATACTT-TCA-TAT-
1 TATATTATATATTATTTTACATATATA-TTATTATTATA
*
17865953 TATATTATA-ATTATTTTATAT-TATATTATT-TTATA
1 TATATTATATATTATTTTACATATATATTATTATTATA
*
17865988 -CTATTATATATT-TTTTATC-TATATATTATTAT
1 TATATTATATATTATTTTA-CATATATATTATTAT
17866020 CATTAAAGGT
Statistics
Matches: 117, Mismatches: 13, Indels: 33
0.72 0.08 0.20
Matches are distributed among these distances:
33 2 0.02
34 21 0.18
35 23 0.20
36 10 0.09
37 4 0.03
38 1 0.01
39 7 0.06
40 21 0.18
41 22 0.19
42 6 0.05
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (38 bp):
TATATTATATATTATTTTACATATATATTATTATTATA
Found at i:17865959 original size:5 final size:5
Alignment explanation
Indices: 17865865--17865987 Score: 63
Period size: 5 Copynumber: 23.4 Consensus size: 5
17865855 CACGAAATAT
* * * * *
17865865 TATTA TTTTA CATTA TTATTA TATTT TTTGTA TAATA TATT- TATTA -ATTA
1 TATTA TATTA TATTA -TATTA TATTA TAT-TA TATTA TATTA TATTA TATTA
* *
17865915 TA-TA TATTATA TATTA TTTTA CATATA TACTTTCA TATTA TATTA TAATTA
1 TATTA TA-T-TA TATTA TATTA TAT-TA TA--TT-A TATTA TATTA T-ATTA
* *
17865966 TTTTA TATTA TATTA TTTTA TA
1 TATTA TATTA TATTA TATTA TA
17865988 CTATTATATA
Statistics
Matches: 88, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
4 12 0.14
5 50 0.57
6 17 0.19
7 5 0.06
8 4 0.05
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:17865982 original size:15 final size:15
Alignment explanation
Indices: 17865924--17866024 Score: 69
Period size: 16 Copynumber: 6.1 Consensus size: 15
17865914 ATATATATTA
*
17865924 TATATTATTTTACAT
1 TATATTATTTTATAT
*
17865939 ATATACTTTCATATTATAT
1 -TATA--TT-ATTTTATAT
17865958 TATAATTATTTTATAT
1 TAT-ATTATTTTATAT
*
17865974 TATATTATTTTATAC
1 TATATTATTTTATAT
*
17865989 TATTATATATTTTTTAT
1 TA-TAT-TATTTTATAT
17866006 CTATA-TATTATTATCAT
1 -TATATTATT-TTAT-AT
17866023 TA
1 TA
17866025 AAGGTTTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
15 17 0.25
16 23 0.33
17 14 0.20
18 7 0.10
19 8 0.12
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATTTTATAT
Found at i:17865994 original size:18 final size:17
Alignment explanation
Indices: 17865955--17866017 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
17865945 TTTCATATTA
17865955 TATTATAATTA-TTTTA-
1 TATTAT-ATTATTTTTAC
17865971 TATTATATTATTTTATAC
1 TATTATATTATTTT-TAC
17865989 TATTATA-TATTTTTTATC
1 TATTATATTA-TTTTTA-C
17866007 TA-TATATTATT
1 TATTATATTATT
17866018 ATCATTAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.10
16 9 0.22
17 12 0.29
18 16 0.39
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTATATTATTTTTAC
Found at i:17866185 original size:16 final size:15
Alignment explanation
Indices: 17866172--17866218 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
17866162 ATTCTAAACT
17866172 TATAT-TTATATAAA
1 TATATATTATATAAA
17866186 TATATATTATAT-AA
1 TATATATTATATAAA
*
17866200 T-TATTTTATTATAAA
1 TATATATTA-TATAAA
17866215 TATA
1 TATA
17866219 AATTTTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.21
14 11 0.39
15 9 0.32
16 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATTATATAAA
Found at i:17866284 original size:18 final size:19
Alignment explanation
Indices: 17866263--17866308 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
17866253 TTCTAAACCA
17866263 ATATATTTTTTATT-TTAT
1 ATATATTTTTTATTCTTAT
* * *
17866281 ATATAATTATTATTCTTTT
1 ATATATTTTTTATTCTTAT
17866300 ATA-ATTTTT
1 ATATATTTTT
17866309 GTTATTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATATTTTTTATTCTTAT
Found at i:17868147 original size:154 final size:154
Alignment explanation
Indices: 17867867--17868177 Score: 595
Period size: 154 Copynumber: 2.0 Consensus size: 154
17867857 CACTTAAAGA
* *
17867867 AAAACTGTGCCAAGTTTAAAAGTTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGTTTT
1 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
*
17867932 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGATTCTGGTTCTACAATCTATAT
66 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
17867997 ATCAAATTCCTTACATGGATTAAG
131 ATCAAATTCCTTACATGGATTAAG
17868021 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
1 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
17868086 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
66 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
17868151 ATCAAATTCCTTACATGGATTAAG
131 ATCAAATTCCTTACATGGATTAAG
17868175 AAA
1 AAA
17868178 CCTGAGGGAA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (154 bp):
AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
ATCAAATTCCTTACATGGATTAAG
Found at i:17872404 original size:13 final size:13
Alignment explanation
Indices: 17872388--17872412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17872378 CTCTTTGGAT
17872388 TTTTATTTTGTTC
1 TTTTATTTTGTTC
17872401 TTTTATTTTGTT
1 TTTTATTTTGTT
17872413 TTGCTTCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTATTTTGTTC
Found at i:17883742 original size:31 final size:31
Alignment explanation
Indices: 17883707--17883767 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17883697 AGAAGAGGTG
* *
17883707 GCACCTAATGGTCATGCCTTGGGCACAGGCA
1 GCACCCAATGGTCATGCCTTCGGCACAGGCA
* *
17883738 GCACCCACTGGTCATGCCTTCGGCAGAGGC
1 GCACCCAATGGTCATGCCTTCGGCACAGGC
17883768 GGCGCCACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.18
Consensus pattern (31 bp):
GCACCCAATGGTCATGCCTTCGGCACAGGCA
Found at i:17883778 original size:30 final size:31
Alignment explanation
Indices: 17883715--17883781 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
17883705 TGGCACCTAA
*
17883715 TGGTCATGCCTTGGGCACAGGCAGCACCCAC
1 TGGTCATGCCTTCGGCACAGGCAGCACCCAC
* * *
17883746 TGGTCATGCCTTCGGCAGAGGCGGC-GCCAC
1 TGGTCATGCCTTCGGCACAGGCAGCACCCAC
17883776 TGGTCA
1 TGGTCA
17883782 CACCATCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (31 bp):
TGGTCATGCCTTCGGCACAGGCAGCACCCAC
Found at i:17885970 original size:20 final size:20
Alignment explanation
Indices: 17885947--17886000 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17885937 GATTTAGGAT
*
17885947 TTATTTTTATTTATCTTCAA
1 TTATTTTTATTTATATTCAA
* * *
17885967 TTATCTTTAATTATATTTAA
1 TTATTTTTATTTATATTCAA
*
17885987 TTATTTGTATTTAT
1 TTATTTTTATTTAT
17886001 TTCTAGGAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTATATTCAA
Found at i:17889745 original size:18 final size:18
Alignment explanation
Indices: 17889722--17889801 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
17889712 TTTATTTCTC
* *
17889722 TTTATTTTTATTTTTTAT
1 TTTATTTTAATTATTTAT
17889740 TTTATTTTAATTATTTATTAT
1 TTTATTTTAATTA--T-TTAT
* *
17889761 TTTATCTTAATGATTTA-
1 TTTATTTTAATTATTTAT
* *
17889778 -TTA-TGTAATTATTAAT
1 TTTATTTTAATTATTTAT
17889794 TTTATTTT
1 TTTATTTT
17889802 GGATATTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
15 8 0.17
16 3 0.06
17 3 0.06
18 16 0.34
19 1 0.02
20 1 0.02
21 15 0.32
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTATTTAT
Found at i:17889753 original size:21 final size:21
Alignment explanation
Indices: 17889729--17889781 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
17889719 CTCTTTATTT
* *
17889729 TTATTTTTTATTTTATTTTAA
1 TTATTTATTATTTTATCTTAA
17889750 TTATTTATTATTTTATCTTAA
1 TTATTTATTATTTTATCTTAA
*
17889771 TGATTTATTAT
1 TTATTTATTAT
17889782 GTAATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTTATTATTTTATCTTAA
Found at i:17890875 original size:96 final size:94
Alignment explanation
Indices: 17890694--17890884 Score: 269
Period size: 94 Copynumber: 2.0 Consensus size: 94
17890684 ATTAATTTTA
*
17890694 AGAATATGTTGAGCTGAGTAACCGGGGTGAGGTGGTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
1 AGAATATGTTGAGCTGAGTAACCGGGGT-AGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
* * *
17890759 TTCGATATGTTCTTAAGAAAAATAAA-AATT
65 TTCAATATATTCCTAAG-AAAATAAATAATT
* *
17890789 AGAAGTATGTTGGGCTGAGTAACTGGGGT-GGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
1 AGAA-TATGTTGAGCTGAGTAACCGGGGTAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
17890853 TTCAATATATTCCTAAGTGAAAATAAATAATT
65 TTCAATATATTCCTAA--GAAAATAAATAATT
17890885 TAAATTAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
94 47 0.55
95 12 0.14
96 27 0.31
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (94 bp):
AGAATATGTTGAGCTGAGTAACCGGGGTAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
TCAATATATTCCTAAGAAAATAAATAATT
Found at i:17891656 original size:30 final size:30
Alignment explanation
Indices: 17891621--17891680 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17891611 TATTTTATTA
*
17891621 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
17891651 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
17891681 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:17892246 original size:10 final size:10
Alignment explanation
Indices: 17892231--17892282 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
17892221 TAAATTTAGG
17892231 ATTTATTTTT
1 ATTTATTTTT
* *
17892241 ATTTATCTTC
1 ATTTATTTTT
* *
17892251 AATTATCTTT
1 ATTTATTTTT
*
17892261 ATTTATTTAT
1 ATTTATTTTT
17892271 ATTTATCTTTT
1 ATTTAT-TTTT
17892282 A
1 A
17892283 GAATTTAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
10 29 0.88
11 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:17892280 original size:20 final size:21
Alignment explanation
Indices: 17892231--17892280 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
17892221 TAAATTTAGG
*
17892231 ATTTATTTTTATTTATCTTCA
1 ATTTATCTTTATTTATCTTCA
17892252 A-TTATCTTTATTTAT-TT-A
1 ATTTATCTTTATTTATCTTCA
17892270 TATTTATCTTT
1 -ATTTATCTTT
17892281 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 21 0.81
21 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTATCTTTATTTATCTTCA
Found at i:17893018 original size:17 final size:18
Alignment explanation
Indices: 17892990--17893023 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17892980 TATTCTCCAT
17892990 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
17893008 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
17893024 CAATTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:17895333 original size:20 final size:20
Alignment explanation
Indices: 17895310--17895368 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
17895300 TAAACATGGT
17895310 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
17895330 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
17895350 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17895369 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:17895350 original size:11 final size:11
Alignment explanation
Indices: 17895314--17895368 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17895304 CATGGTATGT
17895314 ATGATATGCAC
1 ATGATATGCAC
* *
17895325 ATGACATG--T
1 ATGATATGCAC
17895334 ATGATATGCAC
1 ATGATATGCAC
*
17895345 ATGATATG--T
1 ATGATATGCAC
17895354 ATGATATGCAC
1 ATGATATGCAC
17895365 ATGA
1 ATGA
17895369 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17895447 original size:24 final size:24
Alignment explanation
Indices: 17895419--17895634 Score: 308
Period size: 24 Copynumber: 9.0 Consensus size: 24
17895409 GAGGAAGTGC
17895419 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17895443 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17895467 AAAAGGGCTTCTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17895491 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * *
17895515 AAAAGGGCTTCTGTCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17895539 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17895563 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
17895587 AAAAGGACTTTTGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17895611 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17895635 ATGATAAAGC
Statistics
Matches: 169, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
24 160 0.95
25 9 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17905983 original size:22 final size:21
Alignment explanation
Indices: 17905949--17905997 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
17905939 AGTAGCACCC
* *
17905949 TCCCCCTCATTTTCCTTCTTCCT
1 TCCCCTTCATTTT-CATCTT-CT
17905972 TCCCCTTC-TTTTCATCTTCT
1 TCCCCTTCATTTTCATCTTCT
17905992 TCCCCT
1 TCCCCT
17905998 ACCCCAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 4 0.17
23 7 0.29
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (21 bp):
TCCCCTTCATTTTCATCTTCT
Found at i:17907407 original size:27 final size:27
Alignment explanation
Indices: 17907376--17907444 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
17907366 TTAGTTTACC
* * *
17907376 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCCCGACTTATA
* * *
17907403 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCCCGACTTATA
17907430 AAATTACTAAAATAC
1 AAATTACTAAAATAC
17907445 TCCTGTAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATTACTAAAATACCCCCGACTTATA
Found at i:17907484 original size:27 final size:27
Alignment explanation
Indices: 17907456--17907668 Score: 241
Period size: 27 Copynumber: 7.9 Consensus size: 27
17907446 CCTGTAAGAT
* *
17907456 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
17907483 AGAATTATCGTTTTACTCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
17907510 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
17907537 AGAATTATCGTTTTACTCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* **
17907564 AGAATTACCATTTTACCCTTAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
17907591 AAAATTACCGTTTTACCCTC-AGTTTAC
1 AGAATTACCGTTTTACCCTCGA-TTTAC
*
17907618 AAAATTACCGTTTTACCCTC-AGTTTAC
1 AGAATTACCGTTTTACCCTCGA-TTTAC
* * * *
17907645 AAAATTATCATTTTACCCTTGATT
1 AGAATTACCGTTTTACCCTCGATT
17907669 GTGAAATTAC
Statistics
Matches: 163, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:17907516 original size:81 final size:81
Alignment explanation
Indices: 17907388--17907599 Score: 194
Period size: 81 Copynumber: 2.6 Consensus size: 81
17907378 ATTATTAAAA
* * * *** * * *
17907388 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACTAAAATACTCCT-G-T
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATAC-CCTCGAT
*
17907451 AAGATAGAATTATCGTTT
65 -AGACAGAATTATCGTTT
* * * * *** *
17907469 TACCCTCGATTTATAGAATTATCGTTTTACTCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
*
17907534 TACAGAATTATCGTTT
66 GACAGAATTATCGTTT
* **
17907550 TACTCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACC
17907600 GTTTTACCCT
Statistics
Matches: 103, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
80 3 0.03
81 99 0.96
82 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
GACAGAATTATCGTTT
Found at i:17907605 original size:81 final size:81
Alignment explanation
Indices: 17907456--17907664 Score: 278
Period size: 81 Copynumber: 2.6 Consensus size: 81
17907446 CCTGTAAGAT
* * ** *
17907456 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCGTTTTACTCTCGATTTACAGAATTACCAT
1 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAATTTACAAAATTACCAT
17907521 TTTACCCTC-GATTTAC
66 TTTACCCTCAG-TTTAC
* * *
17907537 AGAATTATCGTTTTACTCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCGT
1 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAATTTACAAAATTACCAT
17907602 TTTACCCTCAGTTTAC
66 TTTACCCTCAGTTTAC
* * * *
17907618 AAAATTACCGTTTTACCCTC-AGTTTACAAAATTATCATTTTACCCTT
1 AGAATTATCGTTTTACCCTCGA-TTTATAGAATTATCATTTTACCCTT
17907665 GATTGTGAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 110 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (81 bp):
AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAATTTACAAAATTACCAT
TTTACCCTCAGTTTAC
Found at i:17907730 original size:27 final size:27
Alignment explanation
Indices: 17907700--17907825 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
17907690 TGTAGGATAG
17907700 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
17907727 AATTACTAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
17907754 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
17907781 AATTA-CATAAATA-CCCTCAATTTGTAA
1 AATTACCA-AAATACCCCT-AGTTTGTAA
17907808 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
17907826 GATTTACAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.05
27 72 0.88
28 6 0.07
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:17907741 original size:54 final size:54
Alignment explanation
Indices: 17907667--17907822 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 54
17907657 TTACCCTTGA
* * *
17907667 TTGTGAAATTACTTAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACTAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
17907721 TTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
17907775 TTGTGAAATTAC-ATAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACTA-AAATACCCCT-AGTAGGTAAAATTACCAAAATACC
17907823 CCTGATTTAC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTGTGAAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:17907793 original size:81 final size:81
Alignment explanation
Indices: 17907700--17907850 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
17907690 TGTAGGATAG
* * * ** *
17907700 AATTACCAAAATACCC-CTAGTTTGTAAAATTACTAAAATA-CCCTTAGTTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
17907763 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
17907781 AATTA-CATAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAA
1 AATTACCA-AAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAA
17907845 ATACCA
65 ATACCA
17907851 TTGACTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
80 2 0.03
81 53 0.87
82 6 0.10
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:17907830 original size:27 final size:27
Alignment explanation
Indices: 17907700--17907849 Score: 139
Period size: 27 Copynumber: 5.6 Consensus size: 27
17907690 TGTAGGATAG
17907700 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* *
17907727 AATTACTAAAATA-CCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
17907754 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
*
17907781 AATTA-CATAAATA-CCCTCAATTTGTAA
1 AATTACCA-AAATACCCCT-GATTTGTAA
**
17907808 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
17907835 AATTA-CAGAAATACC
1 AATTACCA-AAATACC
17907850 ATTGACTTTC
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
26 10 0.10
27 82 0.81
28 9 0.09
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:17907838 original size:54 final size:54
Alignment explanation
Indices: 17907700--17907849 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
17907690 TGTAGGATAG
* *
17907700 AATTACCAAAATACCCCT-AGTTTGTAAAATTAC-TAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACAT-AAATACCCTCAATTTGTAA
* * * *
17907754 AATTACCGAAATACCACTGGTTTGTGAAATTACATAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACATAAATACCCTCAATTTGTAA
** *
17907808 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACC
1 AATTACCAAAATACCCCTGATTTGTAAAATTACATAAATACC
17907850 ATTGACTTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 80 0.99
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACATAAATACCCTCAATTTGTAA
Found at i:17907868 original size:29 final size:27
Alignment explanation
Indices: 17907806--17907905 Score: 105
Period size: 27 Copynumber: 3.6 Consensus size: 27
17907796 CTCAATTTGT
** *
17907806 AAAATTACCA-AAATACCCCTGATTTAC
1 AAAATTA-CAGAAATACCATTGTTTTAC
17907833 AAAATTACAGAAATACCATTGACTTTCTA-
1 AAAATTACAGAAATACCATTG--TTT-TAC
*
17907862 AAAATTATAGAAATACCATTGTTTTAC
1 AAAATTACAGAAATACCATTGTTTTAC
*
17907889 AAAATTACTGAAATACC
1 AAAATTACAGAAATACC
17907906 CTTGGTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.06
27 34 0.55
29 22 0.35
30 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACAGAAATACCATTGTTTTAC
Found at i:17908868 original size:25 final size:25
Alignment explanation
Indices: 17908830--17908899 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17908820 AGGAAGTGCT
* *
17908830 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
17908855 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
17908880 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
17908900 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:17908912 original size:24 final size:24
Alignment explanation
Indices: 17908829--17908924 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
17908819 GAGGAAGTGC
*
17908829 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
17908854 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
17908878 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
17908902 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
17908925 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:17908923 original size:50 final size:50
Alignment explanation
Indices: 17908830--17908924 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
17908820 AGGAAGTGCT
**
17908830 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
17908880 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
17908925 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:17909108 original size:42 final size:42
Alignment explanation
Indices: 17909046--17909137 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
17909036 TAGTCTCCCC
* *
17909046 AAATGGGTTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
*
17909088 AAATGGGCTTGCATAAATTCATTGACTTTACATGTGATATTG
1 AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
17909130 AAATGGGC
1 AAATGGGC
17909138 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
Found at i:17913302 original size:30 final size:30
Alignment explanation
Indices: 17913267--17913323 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
17913257 TAGGCACTTC
*
17913267 CACACGGGTAAACCACACGCTCGTGTGAGG
1 CACACGGGCAAACCACACGCTCGTGTGAGG
*
17913297 CACACGGGCAATCCACACGCTCGTGTG
1 CACACGGGCAAACCACACGCTCGTGTG
17913324 TTATGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCTCGTGTGAGG
Found at i:17915899 original size:16 final size:17
Alignment explanation
Indices: 17915880--17915922 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
17915870 TATTTTAATG
17915880 TATTGTTATTTCTAG-T
1 TATTGTTATTTCTAGAT
*
17915896 TATTATTATTTCTAGTAT
1 TATTGTTATTTCTAG-AT
17915914 TATTGTTAT
1 TATTGTTAT
17915923 AATATTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
18 9 0.39
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (17 bp):
TATTGTTATTTCTAGAT
Found at i:17916144 original size:35 final size:36
Alignment explanation
Indices: 17916104--17916185 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
17916094 TTATATTTAT
17916104 TATTATATTATTT-ACT-T-TCACTATATTTTTTTAAA
1 TATTATATTATTTCA-TATATCA-TATATTTTTTTAAA
* * *
17916139 TATTATATT-TTTCATATATTATGTATTTTTTTATA
1 TATTATATTATTTCATATATCATATATTTTTTTAAA
17916174 TATTATATTATT
1 TATTATATTATT
17916186 CGTATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 4 0.10
35 32 0.80
36 4 0.10
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (36 bp):
TATTATATTATTTCATATATCATATATTTTTTTAAA
Found at i:17916157 original size:16 final size:16
Alignment explanation
Indices: 17916138--17916198 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
17916128 ATTTTTTTAA
17916138 ATATTATATTTTTCAT
1 ATATTATATTTTTCAT
*
17916154 ATATTATGTATTTTTTTAT
1 ATATTA--TA-TTTTTCAT
* *
17916173 ATATTATATTATTCGT
1 ATATTATATTTTTCAT
*
17916189 ATATTTTATT
1 ATATTATATT
17916199 GTATTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 20 0.54
17 2 0.05
18 2 0.05
19 13 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
ATATTATATTTTTCAT
Found at i:17916174 original size:19 final size:18
Alignment explanation
Indices: 17916127--17916179 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 18
17916117 ACTTTCACTA
*
17916127 TATTTTTTTAAATATTA-
1 TATTTTTTTATATATTAT
*
17916144 TA-TTTTTCATATATTAT
1 TATTTTTTTATATATTAT
17916161 GTATTTTTTTATATATTAT
1 -TATTTTTTTATATATTAT
17916180 ATTATTCGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.40
17 2 0.07
18 2 0.07
19 14 0.47
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATTTTTTTATATATTAT
Found at i:17916192 original size:35 final size:33
Alignment explanation
Indices: 17916127--17916217 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 33
17916117 ACTTTCACTA
* *
17916127 TATTTTTTTAAATATTATATTTTTCATATATTAT
1 TATTTTTTTATATATTATATTATTCATATATT-T
*
17916161 GTATTTTTTTATATATTATATTATTCGTATATTT
1 -TATTTTTTTATATATTATATTATTCATATATTT
17916195 TATTGTATTTTATATATATATAT
1 TATT-T-TTTTATATAT-TATAT
17916218 ATTAAATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 4 0.08
34 2 0.04
35 39 0.78
36 5 0.10
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (33 bp):
TATTTTTTTATATATTATATTATTCATATATTT
Found at i:17916293 original size:24 final size:23
Alignment explanation
Indices: 17916264--17916326 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 23
17916254 CATACTATTC
* *
17916264 ATATATTTTATTGTTATTTCATAT
1 ATATATTTTATTATTAGTT-ATAT
17916288 ATATATATGTATATTATTAGTTATAT
1 ATATAT-T-T-TATTATTAGTTATAT
17916314 ATATATTTT-TTAT
1 ATATATTTTATTAT
17916327 ACTATTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 7 0.21
25 2 0.06
26 11 0.32
27 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
ATATATTTTATTATTAGTTATAT
Found at i:17926024 original size:20 final size:20
Alignment explanation
Indices: 17925984--17926027 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17925974 CTTTGTGCAA
17925984 TTTAATTTTCTTTTATGTTC
1 TTTAATTTTCTTTTATGTTC
17926004 TTTAACTTTTCATTTT-T-TTC
1 TTTAA-TTTTC-TTTTATGTTC
17926024 TTTA
1 TTTA
17926028 TTTCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.55
21 6 0.27
22 4 0.18
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTAATTTTCTTTTATGTTC
Found at i:17926378 original size:40 final size:41
Alignment explanation
Indices: 17926334--17926661 Score: 347
Period size: 41 Copynumber: 8.1 Consensus size: 41
17926324 ATTTGCAATA
* * *
17926334 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTT-TGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* ** *
17926374 AAACGCCACCAAAAACTGAGCAATAGTTGCGTTTCTGATCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
17926415 AAACGCCACTAAAAACTGAGCTATAGCGGCATTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* *
17926456 AAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * * * *
17926497 AAACACCACTAAAAACTTATCTATATCGGCGTTT-TGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
17926537 AAATGCCACTAAAAACTGGGTAATAGCGCCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * ** *
17926578 AAACGCCACT-AAAACTAAACTATAGCGATGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
** *
17926618 AAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
17926659 AAA
1 AAA
17926662 TGCTACAAAA
Statistics
Matches: 231, Mismatches: 54, Indels: 5
0.80 0.19 0.02
Matches are distributed among these distances:
40 90 0.39
41 141 0.61
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
Found at i:17926572 original size:81 final size:81
Alignment explanation
Indices: 17926356--17926661 Score: 380
Period size: 81 Copynumber: 3.8 Consensus size: 81
17926346 AAACTGAGCA
* ** *
17926356 ATAGCGGCGTTTTGTTCCAAACGCCACCAAAAACTGAGCAATAGTTGCGTTTCTGATCCAAACGC
1 ATAGCGGCGTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGC
* *
17926421 CACTAAAAACTGAGCT
66 CACTAAAAACTAAACT
* * * *
17926437 ATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCCAAACA
1 ATAGCGGC-GTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACG
* *
17926502 CCACTAAAAACTTATCT
65 CCACTAAAAACTAAACT
* * * * *
17926519 ATATCGGCGTTTTGTTCCAAATGCCACTAAAAACTGGGTAATAGCGCCGTTTCTGGTCCAAACGC
1 ATAGCGGCGTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGC
17926584 CACT-AAAACTAAACT
66 CACTAAAAACTAAACT
** * ** *
17926599 ATAGCGATGTTTTTGGTCCAAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCCAAA
1 ATAGCGGCG-TTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAA
17926662 TGCTACAAAA
Statistics
Matches: 191, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 15 0.08
81 106 0.55
82 70 0.37
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (81 bp):
ATAGCGGCGTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGC
CACTAAAAACTAAACT
Found at i:17926694 original size:81 final size:80
Alignment explanation
Indices: 17926356--17926701 Score: 363
Period size: 81 Copynumber: 4.3 Consensus size: 80
17926346 AAACTGAGCA
* ** *
17926356 ATAGCGGCGTTTTGTTCCAAACGCCACCAAAAACTGAGCAATAGTTGCGTTTCTGATCCAAACGC
1 ATAGCGGCGTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGC
**
17926421 CACTAAAAACTGAGCT
66 CACTAAAAACT-ATAT
* * * *
17926437 ATAGCGGCATTTTTGTTCCAAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCCAAACA
1 ATAGCGGC-GTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACG
*
17926502 CCACTAAAAACTTATCT
65 CCACTAAAAAC-TATAT
* * * * *
17926519 ATATCGGCGTTTTGTTCCAAATGCCACTAAAAACTGGGTAATAGCGCCGTTTCTGGTCCAAACGC
1 ATAGCGGCGTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGC
*
17926584 CACT-AAAACTAAACT
66 CACTAAAAACTATA-T
** * ** * *
17926599 ATAGCGATGTTTTTGGTCCAAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCCAAATG
1 ATAGCGGCG-TTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACG
* *
17926664 CTAC-AAAAAGTTGATAT
65 CCACTAAAAA-CT-ATAT
* *
17926681 ATAGCGACGTTTTGGTCCAAA
1 ATAGCGGCGTTTTGTTCCAAA
17926702 TACCGTAAAA
Statistics
Matches: 222, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.01
80 12 0.05
81 126 0.57
82 79 0.36
83 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (80 bp):
ATAGCGGCGTTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGC
CACTAAAAACTATAT
Found at i:17927007 original size:21 final size:21
Alignment explanation
Indices: 17926983--17927064 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
17926973 TGGCTTTATC
17926983 TAAACCCTAAACCTTAAATCT
1 TAAACCCTAAACCTTAAATCT
* * * *
17927004 TAAACCCTAAATTCTAAAAACA
1 TAAACCCTAAA-CCTTAAATCT
* *
17927026 TAGACCCTAAACATT-AATCT
1 TAAACCCTAAACCTTAAATCT
*
17927046 ATAAACCCTAAACCCTAAA
1 -TAAACCCTAAACCTTAAA
17927065 CCCCTAAAAA
Statistics
Matches: 45, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
20 3 0.07
21 24 0.53
22 18 0.40
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAATCT
Found at i:17927203 original size:7 final size:7
Alignment explanation
Indices: 17927178--17927240 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
17927168 AATTATTTTG
17927178 GGTTT-A
1 GGTTTAA
17927184 GGTTTAA
1 GGTTTAA
**
17927191 TATTTAA
1 GGTTTAA
17927198 GGTTTAA
1 GGTTTAA
* *
17927205 GGTCTAT
1 GGTTTAA
*
17927212 GGTTTAG
1 GGTTTAA
*
17927219 GGTTGTAT
1 GGTT-TAA
17927227 GGTTTAA
1 GGTTTAA
17927234 GGTTTAA
1 GGTTTAA
17927241 TAGTTATTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
6 5 0.11
7 34 0.76
8 6 0.13
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.46
Consensus pattern (7 bp):
GGTTTAA
Found at i:17927229 original size:15 final size:15
Alignment explanation
Indices: 17927198--17927237 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
17927188 TAATATTTAA
*
17927198 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTGTAT
*
17927212 GGTTTAGGGTTGTAT
1 GGTTTAAGGTTGTAT
17927227 GGTTTAAGGTT
1 GGTTTAAGGTT
17927238 TAATAGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (15 bp):
GGTTTAAGGTTGTAT
Found at i:17927654 original size:7 final size:7
Alignment explanation
Indices: 17927616--17927716 Score: 66
Period size: 7 Copynumber: 14.7 Consensus size: 7
17927606 TTAGGATTTC
17927616 AGGTTTA
1 AGGTTTA
*
17927623 GGGTTTA
1 AGGTTTA
*
17927630 GGGTTTA
1 AGGTTTA
**
17927637 AATTTTA
1 AGGTTTA
*
17927644 AGGTTTG
1 AGGTTTA
*
17927651 AGG-TTG
1 AGGTTTA
*
17927657 ATGTTTA
1 AGGTTTA
*
17927664 AGCTTT-
1 AGGTTTA
17927670 AGGTTTA
1 AGGTTTA
17927677 AGGTTT-
1 AGGTTTA
*
17927683 AGTCTTTA
1 AG-GTTTA
17927691 AGG-TTA
1 AGGTTTA
*
17927697 GGGTTTA
1 AGGTTTA
17927704 AGGTTATA
1 AGGTT-TA
17927712 AGGTT
1 AGGTT
17927717 AGAGTATTAT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
6 17 0.24
7 46 0.64
8 9 0.12
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.45
Consensus pattern (7 bp):
AGGTTTA
Found at i:17927690 original size:27 final size:26
Alignment explanation
Indices: 17927616--17927708 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
17927606 TTAGGATTTC
* * *
17927616 AGGTTTAGGGTTTAGGGTTTAAATTTT
1 AGGTTTAAGGTTTAGTGTTT-AAGTTT
* *
17927643 AAGGTTTGAGGTTGA-TGTTTAAGCTTT
1 -AGGTTTAAGGTTTAGTGTTTAAG-TTT
* *
17927670 AGGTTTAAGGTTTAGTCTTTAAGGTT
1 AGGTTTAAGGTTTAGTGTTTAAGTTT
17927696 AGGGTTTAAGGTT
1 A-GGTTTAAGGTT
17927709 ATAAGGTTAG
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 17 0.32
27 25 0.47
28 11 0.21
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (26 bp):
AGGTTTAAGGTTTAGTGTTTAAGTTT
Found at i:17927697 original size:13 final size:13
Alignment explanation
Indices: 17927668--17927709 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17927658 TGTTTAAGCT
17927668 TTAGG-TTTAAGG
1 TTAGGCTTTAAGG
*
17927680 TTTAGTCTTTAAGG
1 -TTAGGCTTTAAGG
*
17927694 TTAGGGTTTAAGG
1 TTAGGCTTTAAGG
17927707 TTA
1 TTA
17927710 TAAGGTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (13 bp):
TTAGGCTTTAAGG
Found at i:17927882 original size:7 final size:7
Alignment explanation
Indices: 17927870--17927931 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
17927860 CATGGAAGTG
17927870 GGTTTAA
1 GGTTTAA
17927877 GGTTT-A
1 GGTTTAA
17927883 GGATTT-A
1 GG-TTTAA
*
17927890 GGATTTAG
1 GG-TTTAA
17927898 GGTTTAA
1 GGTTTAA
*
17927905 GGTTTAG
1 GGTTTAA
17927912 GGTATT-A
1 GGT-TTAA
17927919 GGTTTAA
1 GGTTTAA
17927926 GGTTTA
1 GGTTTA
17927932 GGGGTAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 5 0.11
7 38 0.81
8 4 0.09
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (7 bp):
GGTTTAA
Found at i:17927896 original size:14 final size:13
Alignment explanation
Indices: 17927869--17927933 Score: 76
Period size: 14 Copynumber: 4.7 Consensus size: 13
17927859 GCATGGAAGT
17927869 GGGTTTAAGGTTTA
1 GGGTTT-AGGTTTA
*
17927883 GGATTTAGGATTTA
1 GGGTTTAGG-TTTA
17927897 GGGTTTAAGGTTTA
1 GGGTTT-AGGTTTA
17927911 GGGTATTAGGTTTA
1 GGGT-TTAGGTTTA
*
17927925 AGGTTTAGG
1 GGGTTTAGG
17927934 GGTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
13 8 0.18
14 32 0.71
15 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (13 bp):
GGGTTTAGGTTTA
Found at i:17927934 original size:21 final size:20
Alignment explanation
Indices: 17927869--17927934 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 20
17927859 GCATGGAAGT
17927869 GGGTTTAAGGTTT-AGGATTTA
1 GGGTTT-AGGTTTAAGG-TTTA
*
17927890 GGATTTAGGGTTTAAGGTTTA
1 GGGTTTA-GGTTTAAGGTTTA
17927911 GGGTATTAGGTTTAAGGTTTA
1 GGGT-TTAGGTTTAAGGTTTA
17927932 GGG
1 GGG
17927935 GTAAATTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 33 0.82
22 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (20 bp):
GGGTTTAGGTTTAAGGTTTA
Found at i:17931448 original size:3 final size:3
Alignment explanation
Indices: 17931434--17931479 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
17931424 TTATCTCAAT
17931434 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17931480 GTAAATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17932749 original size:24 final size:24
Alignment explanation
Indices: 17932722--17932779 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
17932712 AATACTATGT
*
17932722 ATATAATATTTGTAACTAAAATTA
1 ATATTATATTTGTAACTAAAATTA
*
17932746 ATATTATATTTGTATCTAAAATTA
1 ATATTATATTTGTAACTAAAATTA
17932770 ATATTATATT
1 ATATTATATT
17932780 ATAAAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (24 bp):
ATATTATATTTGTAACTAAAATTA
Found at i:17933847 original size:19 final size:19
Alignment explanation
Indices: 17933806--17933847 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
17933796 TTTGTTTCTA
*
17933806 TTTTTATAAATATTTGAAG
1 TTTTTATAAATATTTGAAC
*
17933825 TTTTTATATATTATTTG-AC
1 TTTTTATA-AATATTTGAAC
17933844 TTTT
1 TTTT
17933848 CAAAATTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTATAAATATTTGAAC
Found at i:17934321 original size:9 final size:9
Alignment explanation
Indices: 17934307--17934395 Score: 66
Period size: 9 Copynumber: 10.4 Consensus size: 9
17934297 ATATCATATA
17934307 ATAACTTAC
1 ATAACTTAC
*
17934316 ATAACTCAC
1 ATAACTTAC
*
17934325 ACAACTTAC
1 ATAACTTAC
17934334 ATAACTTA-
1 ATAACTTAC
*
17934342 ATAACTTAT
1 ATAACTTAC
17934351 AT-A-TATATC
1 ATAACT-TA-C
17934360 AT-A--TA-
1 ATAACTTAC
*
17934365 ATAATTTAC
1 ATAACTTAC
*
17934374 ATAACTCAC
1 ATAACTTAC
17934383 ATAACTTAC
1 ATAACTTAC
17934392 ATAA
1 ATAA
17934396 TACATAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
5 2 0.03
6 1 0.02
7 3 0.05
8 13 0.20
9 46 0.71
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:17936283 original size:27 final size:27
Alignment explanation
Indices: 17936253--17936495 Score: 284
Period size: 27 Copynumber: 9.1 Consensus size: 27
17936243 ATAATAAAAG
*
17936253 AAATTACTAAAATATCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
17936280 AAATTACTAAAATACCCTCGATTTGTG
1 AAATTACTAAAATACCCTCGATTTGTA
** * *
17936307 AAATTACCGAAACACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
17936334 AAATTACTGAAATACCC-CAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
17936360 AAATTACTGAAATACTCC-CGAATTGTA
1 AAATTACTAAAATAC-CCTCGATTTGTA
*
17936387 AAATTA-TCAAAATACCCTC-AATTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
17936413 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
17936440 AAATTA-TCAAAATATCCCT-GATTTGTA
1 AAATTACT-AAAATA-CCCTCGATTTGTA
*
17936467 AAATTA-TCAAAACACCCTCGATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
17936494 AA
1 AA
17936496 CGATTTGTAA
Statistics
Matches: 192, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
26 54 0.28
27 134 0.70
28 4 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:17936336 original size:54 final size:54
Alignment explanation
Indices: 17936268--17936564 Score: 282
Period size: 53 Copynumber: 5.3 Consensus size: 54
17936258 ACTAAAATAT
* *
17936268 CCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTGAAATTACCGAAACAC
1 CCTCGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACAC
* * * *
17936322 CCTCGATTTATAAAATTACTGAAATACCC-CAATTTGTAAAATTACTGAAATAC
1 CCTCGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACAC
* ** *
17936375 TCC-CGAATTGTAAAATTA-TCAAAATACCCTCAA-TTGTAAAATTACTAAAATAC
1 -CCTCGATTTGTAAAATTACT-AAAATACCCTCAATTTGTAAAATTACCGAAACAC
* * *
17936428 CCTCGATTTGTAAAATTA-TCAAAATATCCCT-GATTTGTAAAATTATCAAAACACC
1 CCTCGATTTGTAAAATTACT-AAAATA-CCCTCAATTTGTAAAATTACCGAAACA-C
*
17936483 CTCGATTTGTAAACGATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAACAC
1 C-C------T---CGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACAC
*
17936547 CCCCGATTTGTAAAATTA
1 CCTCGATTTGTAAAATTA
17936565 TCGAAATACC
Statistics
Matches: 204, Mismatches: 20, Indels: 38
0.78 0.08 0.15
Matches are distributed among these distances:
52 3 0.01
53 83 0.41
54 67 0.33
55 2 0.01
56 1 0.00
62 1 0.00
63 1 0.00
64 6 0.03
65 39 0.19
66 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
CCTCGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACAC
Found at i:17936389 original size:53 final size:54
Alignment explanation
Indices: 17936253--17936576 Score: 293
Period size: 54 Copynumber: 5.8 Consensus size: 54
17936243 ATAATAAAAG
* * *
17936253 AAATTACTAAAATATCCTCGATTTGTAAAATTA-CTAAAATACCCTCGATTTGTG
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATC-AAAATACCCTCAATTTGTA
** * * *
17936307 AAATTACCGAAACACCCTCGATTTATAAAATTA-CTGAAATACCC-CAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATC-AAAATACCCTCAATTTGTA
* *
17936360 AAATTACTGAAATACTCC-CGAATTGTAAAATTATCAAAATACCCTCAA-TTGTA
1 AAATTACTAAAATAC-CCTCGATTTGTAAAATTATCAAAATACCCTCAATTTGTA
*
17936413 AAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATATCCCT-GATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATA-CCCTCAATTTGTA
* *
17936467 AAATTA-TCAAAACACCCTCGATTTGTAAACGATTTGTAAAATTACTGAAATACCCTCAATTTGT
1 AAATTACT-AAAATACCCTCGATTTGTAAA--A--T-T---A-T-C-AAAATACCCTCAATTTGT
17936531 A
54 A
** * * *
17936532 AAATTACCGAAACACCCCCGATTTGTAAAATTATCGAAATACCCT
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCT
17936577 TGTAGTGTAG
Statistics
Matches: 228, Mismatches: 22, Indels: 40
0.79 0.08 0.14
Matches are distributed among these distances:
52 2 0.01
53 84 0.37
54 89 0.39
55 1 0.00
56 2 0.01
57 1 0.00
58 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 1 0.00
63 2 0.01
64 5 0.02
65 37 0.16
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCAATTTGTA
Found at i:17936510 original size:38 final size:38
Alignment explanation
Indices: 17936459--17936533 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17936449 AAATATCCCT
*
17936459 GATTTGTAAAATTA-TCAAAACACCCTCGATTTGTAAAC
1 GATTTGTAAAATTACT-AAAACACCCTCAATTTGTAAAC
* *
17936497 GATTTGTAAAATTACTGAAATACCCTCAATTTGTAAA
1 GATTTGTAAAATTACTAAAACACCCTCAATTTGTAAA
17936534 ATTACCGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (38 bp):
GATTTGTAAAATTACTAAAACACCCTCAATTTGTAAAC
Found at i:17936528 original size:27 final size:27
Alignment explanation
Indices: 17936498--17936576 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
17936488 TTTGTAAACG
17936498 ATTTGTAAAATTACTGAAATACCCTCA
1 ATTTGTAAAATTACTGAAATACCCTCA
* * * *
17936525 ATTTGTAAAATTACCGAAACACCCCCG
1 ATTTGTAAAATTACTGAAATACCCTCA
17936552 ATTTGTAAAATTA-TCGAAATACCCT
1 ATTTGTAAAATTACT-GAAATACCCT
17936577 TGTAGTGTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTTGTAAAATTACTGAAATACCCTCA
Found at i:17936535 original size:65 final size:65
Alignment explanation
Indices: 17936431--17936560 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 65
17936421 AAAATACCCT
* * *
17936431 CGATTTGTAAAATTATCAAAATATCCCTGATTTGTAAAATTATCAAAACACCCTCGATTTGTAAA
1 CGATTTGTAAAATTATCAAAATATCCCTAATTTGTAAAATTACCAAAACACCCCCGATTTGTAAA
* *
17936496 CGATTTGTAAAATTA-CTGAAATA-CCCTCAATTTGTAAAATTACCGAAACACCCCCGATTTGTA
1 CGATTTGTAAAATTATC-AAAATATCCCT-AATTTGTAAAATTACCAAAACACCCCCGATTTGTA
17936559 AA
64 AA
17936561 ATTATCGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
64 5 0.09
65 53 0.91
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (65 bp):
CGATTTGTAAAATTATCAAAATATCCCTAATTTGTAAAATTACCAAAACACCCCCGATTTGTAAA
Found at i:17936565 original size:92 final size:92
Alignment explanation
Indices: 17936408--17936576 Score: 257
Period size: 92 Copynumber: 1.8 Consensus size: 92
17936398 ATACCCTCAA
* * * * *
17936408 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATATCCCTGATTTGTAAAATTA
1 TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTA
17936473 TCAAAACACCCTCGATTTGTAAACGAT
66 TCAAAACACCCTCGATTTGTAAACGAT
* *
17936500 TTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTA
1 TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTA
* *
17936565 TCGAAATACCCT
66 TCAAAACACCCT
17936577 TGTAGTGTAG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 68 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (92 bp):
TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTA
TCAAAACACCCTCGATTTGTAAACGAT
Found at i:17936585 original size:27 final size:26
Alignment explanation
Indices: 17936555--17936643 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
17936545 ACCCCCGATT
17936555 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTA-CGAAATACCCTTGTAG
* **
17936582 TGTAGAATTAACGAAATAAGCTTGTAG
1 TGTAAAATT-ACGAAATACCCTTGTAG
* * *
17936609 TGTAAAATGACTGACATACCCTTATAG
1 TGTAAAATTAC-GAAATACCCTTGTAG
*
17936636 GGTAAAAT
1 TGTAAAAT
17936644 GACAATTTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.04
27 47 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (26 bp):
TGTAAAATTACGAAATACCCTTGTAG
Found at i:17942175 original size:13 final size:14
Alignment explanation
Indices: 17942157--17942185 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17942147 ATTTAAATAT
17942157 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
17942170 TTATAATGGTTTAA
1 TTATAATGGTTTAA
17942184 TT
1 TT
17942186 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:17943005 original size:43 final size:42
Alignment explanation
Indices: 17942943--17943255 Score: 269
Period size: 43 Copynumber: 7.3 Consensus size: 42
17942933 TCTGCTAAAA
*
17942943 TTAGTGGCGTTTTTTAGAAAAGCGCCAG-TAAAGGTCACT-TTCT
1 TTAGCGGCG-TTTTTAGAAAAGCGCC-GCTAAAGGTCA-TGTTCT
* *
17942986 TTAGCGGCTTTTTTGAGAAAAGCGCCGGTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTT-AGAAAAGCGCCGCTAAAGGTCATGTTCT
* * *
17943029 TTAGCGGCGTTTGTATGAAAAGTGCCGCTAAAGGTCACGTTCT
1 TTAGCGGCGTTTTTA-GAAAAGCGCCGCTAAAGGTCATGTTCT
*
17943072 TTAGCGGCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTT-AGAAAAGCGCCGCTAAAGGTCATGTTCT
* * ***
17943115 TTAGCGGCGTTTGTATGAAAA-CTGCCGCTAAAGGTTACCCTCT
1 TTAGCGGCGTTTTTA-GAAAAGC-GCCGCTAAAGGTCATGTTCT
* * * * * * *
17943158 TTAACAGTGTTTTTGAGAAAAGCACCACTAAA-TTCACGTTCT
1 TTAGCGGCGTTTTT-AGAAAAGCGCCGCTAAAGGTCATGTTCT
* * * *
17943200 TTAACGACGCTTTCTCA-AAAA-CGCCGCTAAATGTCATGTTCT
1 TTAGCGGCG-TTT-TTAGAAAAGCGCCGCTAAAGGTCATGTTCT
*
17943242 TTAGCGGCATTTTT
1 TTAGCGGCGTTTTT
17943256 TTTACATAAA
Statistics
Matches: 221, Mismatches: 37, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.00
41 11 0.05
42 39 0.18
43 166 0.75
44 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTTAGAAAAGCGCCGCTAAAGGTCATGTTCT
Found at i:17943093 original size:86 final size:86
Alignment explanation
Indices: 17942971--17943255 Score: 331
Period size: 86 Copynumber: 3.3 Consensus size: 86
17942961 AAAGCGCCAG
* * *
17942971 TAAAGGTCACTTTCTTTAGCGGCTTTTTTGAGAAAAGCGCCGGTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
*
17943036 CGTTTGTATGAAAAGTGCCGC
66 CGTTTGTATGAAAAATGCCGC
*
17943057 TAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
*
17943122 CGTTTGTATGAAAACTGCCGC
66 CGTTTGTATGAAAAATGCCGC
* ** * * * * * * * * *
17943143 TAAAGGTTACCCTCTTTAACAGTGTTTTTGAGAAAAGCACCACTAAA-TTCACGTTCTTTAACGA
1 TAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * * *
17943207 CGCTT-TCTCAAAAACGCCGC
66 CGTTTGTATGAAAAATGCCGC
* * *
17943227 TAAATGTCATGTTCTTTAGCGGCATTTTT
1 TAAAGGTCACGTTCTTTAGCGGCGTTTTT
17943256 TTTACATAAA
Statistics
Matches: 167, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
84 31 0.19
85 17 0.10
86 119 0.71
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (86 bp):
TAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
CGTTTGTATGAAAAATGCCGC
Found at i:17943613 original size:88 final size:88
Alignment explanation
Indices: 17943463--17943626 Score: 247
Period size: 88 Copynumber: 1.9 Consensus size: 88
17943453 TTTTTCAAGA
* *
17943463 TTTTAAAAATCCTAGATAAACCCCAATTTCCCTTTTGGCTCTTGAGAATGCTAACTTGAAGTTGG
1 TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
17943528 GTTTTCATGTGGTTAAGGTGGAT
66 GTTTTCATGTGGTTAAGGTGGAT
* * * * * * *
17943551 TTTTAAAAACCCTAGATAAACCCCAGTTTTCCTTTTGGCTATTGAGAGTGTTGATTTTAAGTTGG
1 TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
17943616 GTTTTCATGTG
66 GTTTTCATGTG
17943627 CTTAGGTTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (88 bp):
TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
GTTTTCATGTGGTTAAGGTGGAT
Found at i:17946505 original size:3 final size:3
Alignment explanation
Indices: 17946497--17946524 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17946487 TCAAAATCTG
17946497 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17946525 ACCTACTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17947598 original size:42 final size:42
Alignment explanation
Indices: 17947547--17947749 Score: 336
Period size: 42 Copynumber: 4.8 Consensus size: 42
17947537 GTTTACAAAC
*
17947547 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
17947589 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
17947631 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
17947673 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-A
* *
17947715 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
17947750 TTTTTTTTCT
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
42 153 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:17947805 original size:84 final size:84
Alignment explanation
Indices: 17947548--17947838 Score: 282
Period size: 84 Copynumber: 3.5 Consensus size: 84
17947538 TTTACAAACA
* * * * * *
17947548 AAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTGGAAAAAACGCCGCTAAAGAACATGTT
* **
17947613 CTTTAGCGGCGCTT-AGAAA
66 CTTTAGCGGCGATTAAG-GG
* * *
17947632 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTGGAAAAAACGCCGCTAAAGAACATGTT
*
17947697 CTTTAGCGGCGCTTAAGGG
66 CTTTAGCGGCGATTAAGGG
* ***** *
17947716 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATGT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTGGAAAAAACGCCGCTAAAGAACATGT
* ****
17947781 TCTTTAGTGGC-ATT-TTTT
65 TCTTTAGCGGCGATTAAGGG
* *
17947799 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTT
1 A-AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTT
17947839 ATACAAAAAC
Statistics
Matches: 180, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.01
84 145 0.81
85 34 0.19
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (84 bp):
AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTGGAAAAAACGCCGCTAAAGAACATGTT
CTTTAGCGGCGATTAAGGG
Found at i:17947805 original size:126 final size:126
Alignment explanation
Indices: 17947547--17947836 Score: 341
Period size: 126 Copynumber: 2.3 Consensus size: 126
17947537 GTTTACAAAC
* *
17947547 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
* *
17947612 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
66 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAGGA
** *
17947673 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGGGAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGACCATG
* ****** * * ****
17947737 TTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
65 TTCTTTAGCGGCG-CTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAGGA
* * *
17947799 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
17947837 TTATACAAAA
Statistics
Matches: 139, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
125 1 0.01
126 107 0.77
127 31 0.22
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAGGA
Found at i:17948229 original size:21 final size:21
Alignment explanation
Indices: 17948161--17948231 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
17948151 TTTTGCTCTG
* *
17948161 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
17948182 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
17948203 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
17948224 CTCTGCTT
1 CTCTGCTT
17948232 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:17953723 original size:9 final size:9
Alignment explanation
Indices: 17953709--17953944 Score: 117
Period size: 9 Copynumber: 27.9 Consensus size: 9
17953699 AAGATATACA
17953709 TTATGTAAG
1 TTATGTAAG
17953718 TTATGTAAG
1 TTATGTAAG
17953727 TTATGTAAG
1 TTATGTAAG
*
17953736 TTGTGTAAG
1 TTATGTAAG
**
17953745 TTGCGTAAG
1 TTATGTAAG
* *
17953754 ATGTGT-A-
1 TTATGTAAG
* *
17953761 TTATGAAAC
1 TTATGTAAG
17953770 TTATGTAAG
1 TTATGTAAG
17953779 TTATGTAAG
1 TTATGTAAG
*
17953788 TTGTGTAAG
1 TTATGTAAG
**
17953797 TTGCGTAAG
1 TTATGTAAG
* *
17953806 ATGTGT-A-
1 TTATGTAAG
* *
17953813 TTATGAAAC
1 TTATGTAAG
17953822 TTATGTAAG
1 TTATGTAAG
*
17953831 TTATGT--C
1 TTATGTAAG
*
17953838 TTATGTTAG
1 TTATGTAAG
*
17953847 TTATGTAAT
1 TTATGTAAG
*
17953856 TTTTGT-A-
1 TTATGTAAG
*
17953863 TTATTTACA-
1 TTATGTA-AG
*
17953872 -CATGTAAG
1 TTATGTAAG
*
17953880 TTATGT--C
1 TTATGTAAG
17953887 TTATGTAAG
1 TTATGTAAG
* **
17953896 ATGCGTAAG
1 TTATGTAAG
*
17953905 TTGTGT-A-
1 TTATGTAAG
*
17953912 TTATGAAAG
1 TTATGTAAG
17953921 TTATGTAAG
1 TTATGTAAG
17953930 TTATGT--G
1 TTATGTAAG
17953937 TTATGTAA
1 TTATGTAA
17953945 ATGAATATAT
Statistics
Matches: 173, Mismatches: 38, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
7 34 0.20
8 11 0.06
9 128 0.74
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17953777 original size:52 final size:50
Alignment explanation
Indices: 17953708--17953944 Score: 253
Period size: 52 Copynumber: 4.7 Consensus size: 50
17953698 CAAGATATAC
* * * *
17953708 ATTATGTAAGTTATGTAAGTTATGTAAGTTGTGTAAGTTGCGTAAGATGTGT
1 ATTATGAAACTTATGTAAGTTATGT--CTTATGTAAGTTGCGTAAGATGTGT
* *
17953760 ATTATGAAACTTATGTAAGTTATGTAAGTTGTGTAAGTTGCGTAAGATGTGT
1 ATTATGAAACTTATGTAAGTTATGT--CTTATGTAAGTTGCGTAAGATGTGT
* ** ** *
17953812 ATTATGAAACTTATGTAAGTTATGTCTTATGTTAGTTATGTAATTTTTGT
1 ATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGT
* * * *
17953862 ATTATTTACAC--ATGTAAGTTATGTCTTATGTAAGATGCGTAAGTTGTGT
1 ATTA-TGAAACTTATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGT
* *
17953911 ATTATGAAAGTTATGTAAGTTATGTGTTATGTAA
1 ATTATGAAACTTATGTAAGTTATGTCTTATGTAA
17953945 ATGAATATAT
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.02
49 36 0.22
50 42 0.26
51 4 0.03
52 75 0.47
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (50 bp):
ATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGT
Found at i:17953840 original size:16 final size:16
Alignment explanation
Indices: 17953821--17953852 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17953811 TATTATGAAA
17953821 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
*
17953837 CTTATGTTAGTTATGT
1 CTTATGTAAGTTATGT
17953853 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.53
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:17953841 original size:25 final size:25
Alignment explanation
Indices: 17953708--17953941 Score: 139
Period size: 25 Copynumber: 9.2 Consensus size: 25
17953698 CAAGATATAC
*
17953708 ATTATGTAAGTTATGTAAGTTATGT
1 ATTATGAAAGTTATGTAAGTTATGT
* * ** * *
17953733 AAGTTGTGTAAGTTGCGTAAGATGTGT
1 -A-TTATGAAAGTTATGTAAGTTATGT
*
17953760 ATTATGAAACTTATGTAAGTTATGT
1 ATTATGAAAGTTATGTAAGTTATGT
* * ** * *
17953785 AAGTTGTGTAAGTTGCGTAAGATGTGT
1 -A-TTATGAAAGTTATGTAAGTTATGT
*
17953812 ATTATGAAACTTATGTAAGTTATGT
1 ATTATGAAAGTTATGTAAGTTATGT
* ** * *
17953837 CTTATGTTAGTTATGTAATTTTTGT
1 ATTATGAAAGTTATGTAAGTTATGT
* * *
17953862 ATTATTTACA--CATGTAAGTTATGT
1 ATTA-TGAAAGTTATGTAAGTTATGT
* * * ** *
17953886 CTTATGTAAGATGCGTAAGTTGTGT
1 ATTATGAAAGTTATGTAAGTTATGT
17953911 ATTATGAAAGTTATGTAAGTTATGT
1 ATTATGAAAGTTATGTAAGTTATGT
*
17953936 GTTATG
1 ATTATG
17953942 TAAATGAATA
Statistics
Matches: 148, Mismatches: 54, Indels: 13
0.69 0.25 0.06
Matches are distributed among these distances:
23 2 0.01
24 14 0.09
25 90 0.61
26 6 0.04
27 36 0.24
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (25 bp):
ATTATGAAAGTTATGTAAGTTATGT
Found at i:17954318 original size:29 final size:31
Alignment explanation
Indices: 17954276--17954353 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
17954266 TTATTAATAA
*
17954276 AATTTAATAAAATTTAAATAATTG-T-TAAAT
1 AATTT-ATTAAATTTAAATAATTGTTATAAAT
*
17954306 TATTTATTAAATTTAAATAATTGTTATAAAT
1 AATTTATTAAATTTAAATAATTGTTATAAAT
17954337 AATTTATTAAATTTAAA
1 AATTTATTAAATTTAAA
17954354 ATTTAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.40
30 5 0.12
31 21 0.49
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (31 bp):
AATTTATTAAATTTAAATAATTGTTATAAAT
Found at i:17955052 original size:14 final size:14
Alignment explanation
Indices: 17955033--17955062 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17955023 CACGAACAGC
17955033 AAGATGATTAACTA
1 AAGATGATTAACTA
17955047 AAGATGATTAACTA
1 AAGATGATTAACTA
17955061 AA
1 AA
17955063 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:17955291 original size:36 final size:36
Alignment explanation
Indices: 17955250--17955364 Score: 116
Period size: 36 Copynumber: 3.2 Consensus size: 36
17955240 AAAAACAAAT
17955250 TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
1 TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
* * *
17955286 TATTTCAGAACAT-AACAACA-TA-ATCAAA-ACAAA--T
1 TATTTCAG-AC-TCAA-AA-ATTATTTCAAATCCAAAGCA
*
17955320 TATTTCAGACTCAGAAATTATTTCAAATCCAAAGCA
1 TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
17955356 TATTTCAGA
1 TATTTCAGA
17955365 ACATAACAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
31 1 0.02
32 5 0.08
33 8 0.13
34 12 0.19
36 21 0.34
37 9 0.15
38 5 0.08
39 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (36 bp):
TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
Found at i:17955347 original size:70 final size:71
Alignment explanation
Indices: 17955198--17955397 Score: 359
Period size: 70 Copynumber: 2.8 Consensus size: 71
17955188 CCAGATCCAG
*
17955198 ATTTCAGAA-CCAAAGCATAATTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
1 ATTTCA-AATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
17955262 AAAAATT
65 AAAAATT
17955269 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATC-AAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
*
17955333 GAAATT
66 AAAATT
17955339 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
17955398 AATCCACTCA
Statistics
Matches: 125, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
70 71 0.57
71 54 0.43
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (71 bp):
ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
AAAATT
Done.