Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold351
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: 325634
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:15115 original size:16 final size:15
Alignment explanation
Indices: 15082--15115 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
15072 AAAATAACTC
*
15082 AAATTTAAAAAATTT
1 AAATTTAAAAAATAT
15097 AAATTTAAAAATATAT
1 AAATTTAAAAA-ATAT
15113 AAA
1 AAA
15116 ATAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTTAAAAAATAT
Found at i:15131 original size:16 final size:16
Alignment explanation
Indices: 15070--15165 Score: 62
Period size: 16 Copynumber: 6.4 Consensus size: 16
15060 TAGTCCAAAC
* *
15070 TTAAAATAACTCAAAT
1 TTAAAATAATTTAAAT
15086 TTAAAA-AATTTAAAT
1 TTAAAATAATTTAAAT
15101 TT-AAA-AA--T--AT
1 TTAAAATAATTTAAAT
*
15111 ATAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
* **
15127 TTAAAATAAATTTCACC
1 TTAAAAT-AATTTAAAT
*
15144 TCAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
*
15160 TCAAAA
1 TTAAAA
15166 ACAATTCAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 3 0.05
11 3 0.05
12 3 0.05
14 6 0.10
15 9 0.15
16 26 0.42
17 12 0.19
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAATAATTTAAAT
Found at i:17813 original size:18 final size:18
Alignment explanation
Indices: 17792--17826 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17782 TAATTAATTT
17792 ATATAATTATTT-TTAAAA
1 ATATAA-TATTTATTAAAA
17810 ATATAATATTTATTAAA
1 ATATAATATTTATTAAA
17827 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAATATTTATTAAAA
Found at i:18570 original size:21 final size:20
Alignment explanation
Indices: 18528--18572 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
18518 ATTTATAATA
*
18528 ATTTATAAATTTATTTTATT
1 ATTTAAAAATTTATTTTATT
18548 ATTTAAAAATATTATATTT-TT
1 ATTTAAAAAT-TTAT-TTTATT
18569 ATTT
1 ATTT
18573 TTATATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTAAAAATTTATTTTATT
Found at i:18654 original size:20 final size:19
Alignment explanation
Indices: 18631--18681 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
18621 TATTAATTTA
18631 AATTAAATTATATCTGCTTG
1 AATTAAATT-TATCTGCTTG
* * *
18651 AATTGAAATTTTTTTGTTTG
1 AATT-AAATTTATCTGCTTG
18671 AATTAAATTTA
1 AATTAAATTTA
18682 AATTCTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
20 15 0.58
21 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (19 bp):
AATTAAATTTATCTGCTTG
Found at i:23681 original size:19 final size:19
Alignment explanation
Indices: 23657--23751 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
23647 AGCGATACAG
23657 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
23676 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
23689 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
23708 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
23721 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
23740 TGTATCGATACA
1 TGTATCGATACA
23752 TTTACTGTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 24
0.69 0.03 0.27
Matches are distributed among these distances:
13 18 0.30
14 2 0.03
16 9 0.15
18 2 0.03
19 30 0.49
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:23693 original size:32 final size:32
Alignment explanation
Indices: 23644--23753 Score: 193
Period size: 32 Copynumber: 3.4 Consensus size: 32
23634 GCAGTAGCTT
* * *
23644 TGTAGCGATACAGTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
23676 TGTATCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
23708 TGTATCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
23740 TGTATCGATACATT
1 TGTATCGATACATT
23754 TACTGTTTGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 75 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:23694 original size:13 final size:13
Alignment explanation
Indices: 23676--23732 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
23666 ACAACACTTA
23676 TGTATCGATACAT
1 TGTATCGATACAT
23689 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
23707 ATGTATCGATACAT
1 -TGTATCGATACAT
23721 TGTATCGATACA
1 TGTATCGATACA
23733 AAACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29125 original size:20 final size:21
Alignment explanation
Indices: 29081--29126 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
29071 TATTTACTAT
*
29081 TAAAATATTTTTAATCATATA
1 TAAAATATTTTTAATCATAAA
29102 -AAAATA-TTTT-ATCATAAAA
1 TAAAATATTTTTAATCAT-AAA
29121 TAAAAT
1 TAAAAT
29127 CATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 5 0.23
19 6 0.27
20 11 0.50
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATATTTTTAATCATAAA
Found at i:29201 original size:14 final size:15
Alignment explanation
Indices: 29163--29208 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
29153 TAGTGTTCAA
29163 TTAAATATAAATA--
1 TTAAATATAAATATT
29176 TTAAATAATAAATATT
1 TTAAAT-ATAAATATT
*
29192 TTAAAT-TAAATTTT
1 TTAAATATAAATATT
29206 TTA
1 TTA
29209 CAAAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.21
14 17 0.59
16 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATATAAATATT
Found at i:31040 original size:2 final size:2
Alignment explanation
Indices: 31028--31075 Score: 69
Period size: 2 Copynumber: 23.0 Consensus size: 2
31018 AATAAGAATA
*
31028 AT AT GAT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31071 CAT AT
1 -AT AT
31076 GGGTGATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 38 0.90
3 4 0.10
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:39113 original size:22 final size:22
Alignment explanation
Indices: 39088--39134 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
39078 TGAATTTAAT
39088 GTTTTTTTGCTGTGTTTATATG
1 GTTTTTTTGCTGTGTTTATATG
39110 GTTTTTTTGCTGTGTTTATATG
1 GTTTTTTTGCTGTGTTTATATG
39132 GTT
1 GTT
39135 CTTGTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.09, C:0.04, G:0.23, T:0.64
Consensus pattern (22 bp):
GTTTTTTTGCTGTGTTTATATG
Found at i:39114 original size:20 final size:21
Alignment explanation
Indices: 39082--39134 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
39072 AATGTCTGAA
*
39082 TTTA-ATGTTTTTTTGCTGTG
1 TTTATATGGTTTTTTGCTGTG
39102 TTTATATGGTTTTTTTGCTGTG
1 TTTATATGG-TTTTTTGCTGTG
39124 TTTATATGGTT
1 TTTATATGGTT
39135 CTTGTTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 5 0.17
22 21 0.70
ACGTcount: A:0.11, C:0.04, G:0.21, T:0.64
Consensus pattern (21 bp):
TTTATATGGTTTTTTGCTGTG
Found at i:39414 original size:23 final size:23
Alignment explanation
Indices: 39388--39433 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
39378 TTAATATTAA
39388 ATGTATCAAAATAATCTATATGG
1 ATGTATCAAAATAATCTATATGG
* *
39411 ATGTATTAAAATGATCTATATGG
1 ATGTATCAAAATAATCTATATGG
39434 TGCGACTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (23 bp):
ATGTATCAAAATAATCTATATGG
Found at i:39639 original size:38 final size:38
Alignment explanation
Indices: 39588--39665 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
39578 CCATGCTGGG
39588 GAAGTCATTTGTAAGAAATAAATTCAGAGCCTTTTACC
1 GAAGTCATTTGTAAGAAATAAATTCAGAGCCTTTTACC
*
39626 GAAGTCATTTGTAAGAAATAAATTCAGAGCCTTTTGCC
1 GAAGTCATTTGTAAGAAATAAATTCAGAGCCTTTTACC
39664 GA
1 GA
39666 CTCGTTGGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (38 bp):
GAAGTCATTTGTAAGAAATAAATTCAGAGCCTTTTACC
Found at i:40570 original size:21 final size:21
Alignment explanation
Indices: 40524--40572 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
40514 TATACAAATA
* *
40524 TAAAATAAATTAAAATATGAT
1 TAAAATAAATTAAAAAATAAT
* *
40545 AAAAATAATTTAAAAAATAAT
1 TAAAATAAATTAAAAAATAAT
40566 TAAAATA
1 TAAAATA
40573 TGATATAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAATAAATTAAAAAATAAT
Found at i:41535 original size:22 final size:22
Alignment explanation
Indices: 41490--41533 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41480 AATAAATTTG
* *
41490 TATAATTTATAAATAAATTAAA
1 TATAATCTATAAATAAAGTAAA
41512 TATAATCTATAAATAAAAGTAA
1 TATAATCTATAAAT-AAAGTAA
41534 TAATACATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TATAATCTATAAATAAAGTAAA
Found at i:42163 original size:2 final size:2
Alignment explanation
Indices: 42156--42187 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42146 TCAATTTAAT
42156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42188 AATAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43993 original size:17 final size:17
Alignment explanation
Indices: 43958--44000 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
43948 AGAATTTTGA
*
43958 TTTAATTTTTTTCTTCT
1 TTTAATTTTTTTCTACT
43975 TTTAGATTTTTTT-TACT
1 TTTA-ATTTTTTTCTACT
43992 TTGTAATTT
1 TT-TAATTT
44001 AAATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTAATTTTTTTCTACT
Found at i:47610 original size:13 final size:13
Alignment explanation
Indices: 47594--47643 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
47584 TAGGGTAGCT
*
47594 TTGTATTGATACA
1 TTGTATCGATACA
*
47607 TTGTATCGATATA
1 TTGTATCGATACA
47620 TTGTATCGATACA
1 TTGTATCGATACA
47633 TTGTATCGATA
1 TTGTATCGATA
47644 TAAAACTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:47666 original size:32 final size:26
Alignment explanation
Indices: 47594--47645 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
47584 TAGGGTAGCT
*
47594 TTGTATTGATACATTGTATCGATATA
1 TTGTATCGATACATTGTATCGATATA
47620 TTGTATCGATACATTGTATCGATATA
1 TTGTATCGATACATTGTATCGATATA
47646 AAACTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (26 bp):
TTGTATCGATACATTGTATCGATATA
Found at i:48609 original size:61 final size:61
Alignment explanation
Indices: 48474--48611 Score: 170
Period size: 61 Copynumber: 2.3 Consensus size: 61
48464 GTCAGCGACG
* * * * **
48474 TTGGGTTTAAGGATGCGAAGAATGATAAAGGTGCCAATATGCTGATTCACGGCTAGTAATA
1 TTGGGTTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACAATA
* * *
48535 TCGGGTTTGAAGATGAGAAGAATGAT-AAGGATGCCAATATGCTGATTCAAGGCCAACGATA
1 TTGGGTTTAAAGATGAGAAGAATGATAAAGG-TGCCAATATGCTGATTCAAGGCCAACAATA
*
48596 TTGGGCTTAAAGATGA
1 TTGGGTTTAAAGATGA
48612 TAAATATGTC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 4 0.06
61 60 0.94
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (61 bp):
TTGGGTTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACAATA
Found at i:48634 original size:52 final size:52
Alignment explanation
Indices: 48569--48811 Score: 237
Period size: 52 Copynumber: 4.7 Consensus size: 52
48559 ATAAGGATGC
* * *
48569 CAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGATAAATATGT-
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAA-AGGTA
* * ** * *
48621 CAATGTGCTGATTCAAGGCCAGCGACATTAAACTTAAAGATGGTAAAA-GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAAGGT-A
* *
48673 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTGAGAA-A-GA-AGAAGGTA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-AAGATGATAAAAGGTA
* * *
48724 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAT-GAAGGTA
1 -CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAAGGTA
* **
48776 CTAATATGCTGGTTCAAGGCCAATGATATTGGACTT
1 C-AATATGCTGATTCAAGGCCAGCGATATTGGACTT
48812 GTGCCGATGT
Statistics
Matches: 158, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
50 4 0.03
51 7 0.04
52 143 0.91
53 2 0.01
54 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAAGGTA
Found at i:48701 original size:104 final size:103
Alignment explanation
Indices: 48566--48812 Score: 302
Period size: 104 Copynumber: 2.4 Consensus size: 103
48556 ATGATAAGGA
* *
48566 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-A-AAGATGATAAATATGT-CAATGTG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGAGAA-A-GA-AAA-AGGTACAATGTG
*
48628 CTGATTCAAGGCCAGCGACATTAAACTTAAAGATGGTAAAAG
62 CTGATTCAAGGCCAGCGACATTAAACTTAAAGATGATAAAAG
* * *
48670 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTGAGAAAGAAGAAGGTACCAATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGAGAAAGAAAAAGGTA-CAATGTGCTG
** * *
48735 ATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGG
65 ATTCAAGGCCAGCGACATTAAACTTAAAGATGATAAAAG
* * * *
48774 TACTAATATGCTGGTTCAAGGCCAATGATATTGGACTTG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTG
48813 TGCCGATGTG
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
102 3 0.02
103 2 0.02
104 114 0.93
105 2 0.02
106 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (103 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGAGAAAGAAAAAGGTACAATGTGCTGA
TTCAAGGCCAGCGACATTAAACTTAAAGATGATAAAAG
Found at i:48894 original size:88 final size:88
Alignment explanation
Indices: 48724--48974 Score: 317
Period size: 88 Copynumber: 2.8 Consensus size: 88
48714 GAAGAAGGTA
* * *
48724 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGT-ACTAATATGCTGG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTTAA-A-GATGAAGGTGAC-AATATGCTGA
*
48788 TTCAAGGCCAATGATATTG-GACTTGTG
62 TTCAAGGCCAATGATATTGAG-CTTATG
* * * * *
48815 CCGATGTGTTGATTTAAGGCCAACGACATTGGTTTTAAAGATGAAGGTGTCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAGGTGACAATATGCTGATTCA
* *
48880 AGGCCAGTGATATTGAGCTTATT
66 AGGCCAATGATATTGAGCTTATG
* * *
48903 TCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAGGTGACAATATGCTGATTCA
48968 AGGCCAA
66 AGGCCAA
48975 CGACATTAGT
Statistics
Matches: 139, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
88 104 0.75
89 3 0.02
90 4 0.03
91 28 0.20
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (88 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAGGTGACAATATGCTGATTCA
AGGCCAATGATATTGAGCTTATG
Found at i:48981 original size:49 final size:49
Alignment explanation
Indices: 48904--49087 Score: 188
Period size: 53 Copynumber: 3.6 Consensus size: 49
48894 GAGCTTATTT
*
48904 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
48953 CAATATGCTGATTCAAGGCCAACGACATTAGTTTTAAAAGATGACAAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAAGATG--AA-GGTGC
* * * * * * *
49006 CAATATGTTGATTTAAGGCTAGCGATATTGGACTTAAGATGATAAAGGTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GATGAAGGTGC
* * *
49057 CAATGTGCTAATTCAAGGCTAGCGACATTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG
49088 ACCCAAAAGG
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 31 0.28
50 7 0.06
51 30 0.27
52 6 0.05
53 33 0.30
54 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
Found at i:49075 original size:51 final size:51
Alignment explanation
Indices: 48904--49089 Score: 187
Period size: 51 Copynumber: 3.6 Consensus size: 51
48894 GAGCTTATTT
* * *
48904 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGATAAAGGTGC
* * ** * *
48953 CAATATGCTGATTCAAGGCCAACGACATTAGTTTTAAAAGATGACAAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT--AAGATGATAAAGGTGC
* * * * *
49006 CAATATGTTGATTTAAGGCTAGCGATATTGGACTTAAGATGATAAAGGTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGATAAAGGTGC
* * *
49057 CAATGTGCTAATTCAAGGCTAGCGACATTGGAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGAC
49090 CCAAAAGGAG
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 31 0.28
51 43 0.39
52 1 0.01
53 35 0.32
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (51 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGATAAAGGTGC
Found at i:49185 original size:34 final size:33
Alignment explanation
Indices: 49157--49685 Score: 325
Period size: 34 Copynumber: 16.5 Consensus size: 33
49147 GTGGGCTTAG
*
49157 AAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
*
49189 AAAAG-----GGTGCCAGGGAGTTGTGGACTTT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
49217 GAAAA-AAAAAGGTGCCACGGAGTTGTGGAC-TT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
* *
49249 AAAAGGAATAAA-GTACCATGGAGTTGTGGAC-TT
1 AAAA-GAA-AAAGGTGCCACGGAGTTGTGGACTTT
**
49282 AAAAG-----GGTGCCATAGAGTTGTGGACTTTT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTT
** * * * *
49311 GGAGGAAAAAGGGTGCCACAGCGTTGTGGGCTTT
1 AAAAGAAAAA-GGTGCCACGGAGTTGTGGACTTT
* **
49345 GAAAAGAAAAAGGTGCCATGGAGTTGTAAAC-TT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
*
49378 AAAAG-----GGTGCCACGGAGTTGTGGATTTT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
* *
49406 GAAAAGAAAAAGGTGCCACAGAGTTATGGAC-TT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
* *
49439 AAAAGGAAAAAGGGTGCCATGGAGTTGTGAACTTTT
1 AAAA-GAAAAA-GGTGCCACGGAGTTGTGGAC-TTT
* **
49475 GAAAGAAAAAGGTGCCACAAAGTTGTGGAC-TT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
* *
49507 -----AAAAAGGTACCACGTAGTTGTAGG-C-TT
1 AAAAGAAAAAGGTGCCACGGAGTTGT-GGACTTT
* * *
49534 AAAAGGAACAAGGTACCACGGAGTTGTGGGCTTT
1 AAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTT
* **
49568 GAAAAGAAAAAAGTGCCACTAAGTTGTGGAC-TT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
** * *
49601 AAAAGGAAAAAGAAGCCACGAAGTTGTGGACTTG
1 AAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTT
* * *
49635 GAAAGAAAAAGGGGGCCACAGAGTTGTAGG-CTTT
1 AAAAGAAAAA-GGTGCCACGGAGTTGT-GGACTTT
49669 -AAA-AAAAAGGATGCCAC
1 AAAAGAAAAAGG-TGCCAC
49686 CTACTTATGT
Statistics
Matches: 390, Mismatches: 61, Indels: 92
0.72 0.11 0.17
Matches are distributed among these distances:
27 72 0.18
28 6 0.02
29 13 0.03
31 6 0.02
32 35 0.09
33 107 0.27
34 110 0.28
35 36 0.09
36 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (33 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
Found at i:49472 original size:95 final size:93
Alignment explanation
Indices: 49157--49472 Score: 395
Period size: 95 Copynumber: 3.3 Consensus size: 93
49147 GTGGGCTTAG
* ** * *
49157 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAGGGAGTTGTGGACTTTGAAAA
1 AAAAGAAAAAGGTGCCATGGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGATTTTGAAAA
*
49222 -AAAAAGGTGCCACGGAGTTGTGGACTT
66 GAAAAAGGTGCCACAGAGTTGTGGACTT
* * **
49249 AAAAGGAATAAA-GTACCATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGACTTTTG-
1 AAAA-GAA-AAAGGTGCCATGGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGA-TTTTGA
* * * *
49312 GAGGAAAAAGGGTGCCACAGCGTTGTGGGCTTT
63 AAAGAAAAA-GGTGCCACAGAGTTGTGGAC-TT
*
49345 GAAAAGAAAAAGGTGCCATGGAGTTGTAAACTTAAAAGGGTGCCACGGAGTTGTGGATTTTGAAA
1 -AAAAGAAAAAGGTGCCATGGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGATTTTGAAA
*
49410 AGAAAAAGGTGCCACAGAGTTATGGACTT
65 AGAAAAAGGTGCCACAGAGTTGTGGACTT
49439 AAAAGGAAAAAGGGTGCCATGGAGTTGTGAACTT
1 AAAA-GAAAAA-GGTGCCATGGAGTTGTGAACTT
49473 TTGAAAGAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 19
0.82 0.09 0.08
Matches are distributed among these distances:
92 4 0.02
93 48 0.25
94 20 0.10
95 63 0.33
96 52 0.27
97 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (93 bp):
AAAAGAAAAAGGTGCCATGGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGATTTTGAAAA
GAAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:49519 original size:27 final size:27
Alignment explanation
Indices: 49480--49537 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
49470 CTTTTGAAAG
*
49480 AAAAAGGTGCCACAAAGTTGT-GGACTT
1 AAAAAGGTACCACAAAGTTGTAGG-CTT
**
49507 AAAAAGGTACCACGTAGTTGTAGGCTT
1 AAAAAGGTACCACAAAGTTGTAGGCTT
49534 AAAA
1 AAAA
49538 GGAACAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (27 bp):
AAAAAGGTACCACAAAGTTGTAGGCTT
Found at i:49552 original size:33 final size:32
Alignment explanation
Indices: 49507--49646 Score: 108
Period size: 33 Copynumber: 4.2 Consensus size: 32
49497 TTGTGGACTT
49507 AAAAAGGTACCACGTAGTTGTAGGCTTAAAAGG
1 AAAAAGGTACCACGTAGTTGT-GGCTTAAAAGG
* *
49540 AACAAGGTACCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAGGTACCACGTAGTTGT-GGC-TT-AAAAGG
* *
49574 AAAAAAGTGCCAC-TAAGTTGTGGACTTAAAAGG
1 AAAAAGGTACCACGT-AGTTGTGG-CTTAAAAGG
* * *
49607 AAAAA-GAAGCCACGAAGTTGTGGACTTGGAAA-G
1 AAAAAGGTA-CCACGTAGTTGTGG-CTT-AAAAGG
49640 AAAAAGG
1 AAAAAGG
49647 GGGCCACAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 17
0.76 0.10 0.15
Matches are distributed among these distances:
32 5 0.06
33 54 0.62
34 24 0.28
35 4 0.05
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.19
Consensus pattern (32 bp):
AAAAAGGTACCACGTAGTTGTGGCTTAAAAGG
Found at i:49577 original size:129 final size:126
Alignment explanation
Indices: 49189--49633 Score: 336
Period size: 129 Copynumber: 3.5 Consensus size: 126
49179 TTGTGGGCTT
* * *
49189 AAAAGGGTGCCAGGGAGTTGTGGACTTTGAAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCA-TGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGAAGTTGTGGACTT---A-
* * * * * ***
49254 GAATAAAGTACCATGGAGTTGTGGACTT-AAAAG-----GGTGCCATAGAGTTGTGGACTTTTGG
61 -AA-AAGGTACCACGGAGTTGTGGACTTGAAAAGAAAAAGGTACCACAGAGTTATGGAC-TTAAA
49313 AGGA
123 AGGA
* * * * * **
49317 AAAAGGGTGCCACAGCGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGGAGTTGTAAACTTAAAA
1 AAAAGGGTGCCA-TGAGTTGTGGACTTTG-AAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * * *
49382 GGGTGCCACGGAGTTGTGGATTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
64 AGGTACCACGGAGTTGTGGA-CTTGAAAAGAAAAAGGTACCACAGAGTTATGGACTTAAAAGGA
* *
49446 AAAAGGGTGCCATGGAGTTGTGAACTTTTGAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAA
1 AAAAGGGTGCCAT-GAGTTGTGGAC-TTTGAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * * * *
49511 AGGTACCACGTAGTTGTAGG-CTT-AAAAGGAACAAGGTACCACGGAGTTGTGGGCTTTGAAAA-
64 AGGTACCACGGAGTTGT-GGACTTGAAAA-GAAAAAGGTACCACAGAGTTATGGAC-TT-AAAAG
49573 GA
125 GA
* * * **
49575 AAAA-AGTGCCACTAAGTTGTGGAC-TTAAAAGGAAAAAGAAGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCA-TGAGTTGTGGACTTTGAAA-GAAAAAGGTGCCACGAAGTTGTGGACTT
49634 GGAAAGAAAA
Statistics
Matches: 258, Mismatches: 43, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
123 17 0.07
124 4 0.02
125 5 0.02
126 6 0.02
127 29 0.11
128 63 0.24
129 106 0.41
130 28 0.11
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.22
Consensus pattern (126 bp):
AAAAGGGTGCCATGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAG
GTACCACGGAGTTGTGGACTTGAAAAGAAAAAGGTACCACAGAGTTATGGACTTAAAAGGA
Found at i:49653 original size:67 final size:67
Alignment explanation
Indices: 49522--49672 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 67
49512 GGTACCACGT
* * * * *
49522 AGTTGTAGGCTTAAAAGGAACAAGGTACCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCAC
1 AGTTGTAGGCTTAAAAGGAACAAAGAACCACGAAGTTGTGGACTTTGAAAAGAAAAAAGGGCCAC
49587 TA-
66 -AG
* *
49589 AGTTGT-GGACTTAAAAGGAA-AAAGAAGCCACGAAGTTGTGGAC-TTGGAAAGAAAAAGGGGGC
1 AGTTGTAGG-CTTAAAAGGAACAAAGAA-CCACGAAGTTGTGGACTTTGAAAAGAAAAA-AGGGC
49651 CACAG
63 CACAG
49656 AGTTGTAGGCTTTAAAA
1 AGTTGTAGGC-TTAAAA
49673 AAAAGGATGC
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
66 19 0.27
67 44 0.62
68 8 0.11
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (67 bp):
AGTTGTAGGCTTAAAAGGAACAAAGAACCACGAAGTTGTGGACTTTGAAAAGAAAAAAGGGCCAC
AG
Found at i:63804 original size:13 final size:13
Alignment explanation
Indices: 63786--63811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63776 TAGGGTAGCT
63786 TTATATCAATACA
1 TTATATCAATACA
63799 TTATATCAATACA
1 TTATATCAATACA
63812 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATATCAATACA
Found at i:66257 original size:12 final size:12
Alignment explanation
Indices: 66240--66264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66230 ATGAACATAC
66240 ATGATAATAAAA
1 ATGATAATAAAA
66252 ATGATAATAAAA
1 ATGATAATAAAA
66264 A
1 A
66265 AAAATGCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGATAATAAAA
Found at i:66322 original size:111 final size:109
Alignment explanation
Indices: 66139--66353 Score: 376
Period size: 111 Copynumber: 2.0 Consensus size: 109
66129 TCATGAGGTA
*
66139 AAAAATGATAATAAAAAAATACAACTAACACCATATACAAGCTAACAAATCATATTCCTTCTACA
1 AAAAATGATAATAAAAAAATACAACTAACACCATATACAAGCTAACAAATCACATTCCTTCTACA
66204 CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
66 CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
* * *
66248 AAAAATGATAATAAAAAAAAATGCAACTAACACCATGTACAAGCTAACAAATCACATTCCTTCTT
1 AAAAATGATAAT--AAAAAAATACAACTAACACCATATACAAGCTAACAAATCACATTCCTTCTA
66313 CACATAATTAAATAAACTTGAAAACATGATGAACATACATG
64 CACATAATTAAATAAACTTGAAAACATGATGAACATACATG
66354 CTGATATATA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 12 0.12
111 88 0.88
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (109 bp):
AAAAATGATAATAAAAAAATACAACTAACACCATATACAAGCTAACAAATCACATTCCTTCTACA
CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
Found at i:66654 original size:23 final size:22
Alignment explanation
Indices: 66593--66663 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 22
66583 TGCTTTCACA
*
66593 TTGCTGTCGGTTGCTTCATGGAG
1 TTGCTGTCGGTTGC-TCGTGGAG
66616 TTGCTGTCGGTTGCTCGTGGAAG
1 TTGCTGTCGGTTGCTCGTGG-AG
*
66639 TTGCTG-CTGGTTGCTCGTGGTG
1 TTGCTGTC-GGTTGCTCGTGGAG
66661 TTG
1 TTG
66664 GCTGCTTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 10 0.23
23 34 0.77
ACGTcount: A:0.06, C:0.17, G:0.38, T:0.39
Consensus pattern (22 bp):
TTGCTGTCGGTTGCTCGTGGAG
Found at i:66762 original size:78 final size:78
Alignment explanation
Indices: 66558--66763 Score: 241
Period size: 78 Copynumber: 2.6 Consensus size: 78
66548 GCTCATTGGA
* * *
66558 GCTGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACATTGCTGTCGGTTGCTTCATGGAGTTGCTGT
1 GCTGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACATTGCTG-C----CCTCCATGGAGTTGCTGC
* * * *
66623 CGGTTGCTCGTGGAAGTT
61 CAGTTACTCGTAGAAGCT
* * * * *
66641 GCTGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGTTGCCCTCCGTGGGGTTGTTGCCAGTT
1 GCTGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACATTGCTGCCCTCCATGGAGTTGCTGCCAGTT
66706 ACTCGTAGAAGCT
66 ACTCGTAGAAGCT
* *
66719 GCTGCTGGTTGCTCGTGGTGTTGGCTACTTTCACATTACTGCCCT
1 GCTGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACATTGCTGCCCT
66764 TCTCCCGTTC
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 67 0.63
82 1 0.01
83 39 0.36
ACGTcount: A:0.08, C:0.22, G:0.33, T:0.37
Consensus pattern (78 bp):
GCTGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACATTGCTGCCCTCCATGGAGTTGCTGCCAGTT
ACTCGTAGAAGCT
Found at i:67167 original size:32 final size:32
Alignment explanation
Indices: 67126--67210 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
67116 TTTCAACGAT
*
67126 TTGTATCGATACAATGTATTGATACGTAAGTG
1 TTGTATCGATACAATGTATCGATACGTAAGTG
*
67158 TTGTATCGATACAATGTATCGATACGTAAGTT
1 TTGTATCGATACAATGTATCGATACGTAAGTG
*
67190 TTATATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
67211 CTATAAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACGTAAGTG
Found at i:67168 original size:19 final size:18
Alignment explanation
Indices: 67140--67201 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
67130 ATCGATACAA
*
67140 TGTATTGATACGTAAGTGT
1 TGTATCGATACGTAAGT-T
67159 TGTATCGATAC--AA---
1 TGTATCGATACGTAAGTT
67172 TGTATCGATACGTAAGTTT
1 TGTATCGATACGTAAG-TT
*
67191 TATATCGATAC
1 TGTATCGATAC
67202 AATGTATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 20 0.57
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (18 bp):
TGTATCGATACGTAAGTT
Found at i:67273 original size:13 final size:13
Alignment explanation
Indices: 67255--67279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67245 ATTACTCAAA
67255 TGTATCGATACAT
1 TGTATCGATACAT
67268 TGTATCGATACA
1 TGTATCGATACA
67280 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67332 original size:52 final size:52
Alignment explanation
Indices: 67288--67416 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
67278 CACTGATCTT
67288 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
67340 TGTATCGATACATACAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
67392 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
67417 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:81302 original size:17 final size:16
Alignment explanation
Indices: 81259--81316 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
81249 GACGTCCTCC
*
81259 ACAAAAAAAA-AGAAA
1 ACAAAAAAAACAAAAA
*
81274 AC-AAACAAACAAACAA
1 ACAAAAAAAACAAA-AA
81290 ACAAAAAAAACAAAACA
1 ACAAAAAAAACAAAA-A
81307 ACAACAAAAA
1 ACAA-AAAAA
81317 GGGTCCGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 6 0.17
15 4 0.11
16 5 0.14
17 15 0.43
18 5 0.14
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAACAAAAA
Found at i:81304 original size:8 final size:8
Alignment explanation
Indices: 81259--81316 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
81249 GACGTCCTCC
81259 ACAAAAAA
1 ACAAAAAA
*
81267 A-AAGAAA
1 ACAAAAAA
*
81274 ACAAACAA
1 ACAAAAAA
*
81282 ACAAACAA
1 ACAAAAAA
81290 ACAAAAAAA
1 AC-AAAAAA
*
81299 ACAAAACA
1 ACAAAAAA
81307 ACAACAAAA
1 ACAA-AAAA
81316 A
1 A
81317 GGGTCCGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
7 6 0.15
8 24 0.59
9 11 0.27
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (8 bp):
ACAAAAAA
Found at i:82785 original size:29 final size:30
Alignment explanation
Indices: 82742--82831 Score: 114
Period size: 29 Copynumber: 3.1 Consensus size: 30
82732 TTCCTCACCC
82742 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
82772 TTC-AAAGCCCACAAATTAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
82799 TTCAAAAGCCCACAAGTCCGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
82829 TTC
1 TTC
82832 CTTTTAAGCC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 3 0.06
28 19 0.40
29 20 0.42
30 6 0.12
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:82855 original size:33 final size:33
Alignment explanation
Indices: 82804--82957 Score: 134
Period size: 32 Copynumber: 4.6 Consensus size: 33
82794 CAACCTTCAA
*
82804 AAGCCCACAAGTCCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * * *
82837 AAGCCCATAACTCTGTGGC-GCCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
82869 AAGTCTACAACTCCGTGGCA-CTTCTTTTCTTTTGT
1 AAGCCCACAACTCCGTGGCATC-T-TTTTCCTTT-T
82904 AAGCCCACAACAT-CGTGGCACTCTTTTTCCTTTT
1 AAGCCCACAAC-TCCGTGGCA-TCTTTTTCCTTTT
* * *
82938 AAGCCTACAAGTCAGTGGCA
1 AAGCCCACAACTCCGTGGCA
82958 CCCTTTTCAA
Statistics
Matches: 96, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
32 26 0.27
33 17 0.18
34 25 0.26
35 25 0.26
36 2 0.02
37 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:82921 original size:35 final size:33
Alignment explanation
Indices: 82804--82965 Score: 141
Period size: 34 Copynumber: 4.8 Consensus size: 33
82794 CAACCTTCAA
* * *
82804 AAGCCCACAAGTCCGTGGCA-TCTTTTTCCTTTT
1 AAGCCTACAACTCCGTGGCACTC-TTTTCTTTTT
* * * *
82837 AAGCCCATAACTCTGTGGCGC-CTTTTCTTTTT
1 AAGCCTACAACTCCGTGGCACTCTTTTCTTTTT
*
82869 AAGTCTACAACTCCGTGGCACTTCTTTTCTTTTGT
1 AAGCCTACAACTCCGTGGCAC-TCTTTTCTTTT-T
* *
82904 AAGCCCACAACAT-CGTGGCACTCTTTTTCCTTTT
1 AAGCCTACAAC-TCCGTGGCACTC-TTTTCTTTTT
* * *
82938 AAGCCTACAAGTCAGTGGCACCCTTTTC
1 AAGCCTACAACTCCGTGGCACTCTTTTC
82966 AAAAGCCCAC
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
32 25 0.24
33 23 0.22
34 30 0.29
35 26 0.25
36 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (33 bp):
AAGCCTACAACTCCGTGGCACTCTTTTCTTTTT
Found at i:82956 original size:69 final size:66
Alignment explanation
Indices: 82804--82964 Score: 175
Period size: 69 Copynumber: 2.4 Consensus size: 66
82794 CAACCTTCAA
* * * *
82804 AAGCCCACAAGTCCGTGGCA-TCTTTTTCCTTTTAAGCCCATAACTCTGTGGCGCCTTTTCTTTT
1 AAGCCTACAAGTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACCTTTTCCTTT
82868 T
66 T
* * *
82869 AAGTCTACAACTCCGTGGCACT-TCTTTTCTTTTGTAAGCCCACAACATC-GTGGCACTCTTTTT
1 AAGCCTACAAGTCCGTGGCACTCT-TTTTCCTTT-TAAGCCCACAAC-TCTGTGGCAC-C-TTTT
82932 CCTTTT
61 CCTTTT
* *
82938 AAGCCTACAAGTCAGTGGCACCCTTTT
1 AAGCCTACAAGTCCGTGGCACTCTTTT
82965 CAAAAGCCCA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
65 18 0.23
66 9 0.12
67 17 0.22
68 3 0.04
69 30 0.38
70 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (66 bp):
AAGCCTACAAGTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACCTTTTCCTTT
T
Found at i:82978 original size:30 final size:28
Alignment explanation
Indices: 82938--83007 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
82928 TTTTCCTTTT
* *
82938 AAGCCTACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC--TTCAA
82968 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAA
*
82996 AAGCACACAAGT
1 AAGCCCACAAGT
83008 TGGTGGCGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 16 0.43
30 21 0.57
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAA
Found at i:83004 original size:28 final size:29
Alignment explanation
Indices: 82944--83007 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
82934 TTTTAAGCCT
* *
82944 ACAAGTCAGTGGCACCCTTTTCAAAAGCCC
1 ACAAGTCAGTGGCAACC-TTTCAAAAGCAC
82974 ACAAGTCAGTGGCAACC-TTCAAAAGCAC
1 ACAAGTCAGTGGCAACCTTTCAAAAGCAC
83002 ACAAGT
1 ACAAGT
83008 TGGTGGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 16 0.50
30 16 0.50
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (29 bp):
ACAAGTCAGTGGCAACCTTTCAAAAGCAC
Found at i:83093 original size:49 final size:50
Alignment explanation
Indices: 83022--83259 Score: 241
Period size: 49 Copynumber: 4.8 Consensus size: 50
83012 GGCGTTTTCT
* * * *
83022 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGA-ACCTTTATT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGACACCTTTATC
* * * *
83071 TTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATT-GACATCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGACACCTTTATC
* *
83120 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATT-AACACCTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGACACCTTTATC
* * * * * *
83169 ATTAAGTCCAATATTGCTGACCTTGAATCAGCATATTGG-CGCCTTCATCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGACACCTT--T-ATC
** *
83221 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTG
1 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
83260 TCATTCTTTT
Statistics
Matches: 155, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.01
49 119 0.77
51 1 0.01
52 5 0.03
53 28 0.18
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (50 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGACACCTTTATC
Found at i:83353 original size:52 final size:52
Alignment explanation
Indices: 83242--83355 Score: 120
Period size: 52 Copynumber: 2.2 Consensus size: 52
83232 ATGTCGTTGG
* * * * * **
83242 CCTTGAATCAGCACATTGTCATTCTTTTCATCTTCAAGACTAATGTTGCTGA
1 CCTTGAATCAGCACATCGACATTCTTTACATCTTCAAGACCAATATCACTGA
* * * *
83294 CCATGAATCAGCACATCGACATTCTTTACATCTTTAAGCCCAATATCACTGG
1 CCTTGAATCAGCACATCGACATTCTTTACATCTTCAAGACCAATATCACTGA
*
83346 TCTTGAATCA
1 CCTTGAATCA
83356 ACATATTGGC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (52 bp):
CCTTGAATCAGCACATCGACATTCTTTACATCTTCAAGACCAATATCACTGA
Found at i:83468 original size:49 final size:49
Alignment explanation
Indices: 83391--83672 Score: 334
Period size: 49 Copynumber: 5.8 Consensus size: 49
83381 CTCATCCTCA
** * *
83391 TCATCTTTAAAACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
* * * *
83440 TCATCCTTAAGTTCAATATCGCTAGCCTTGAATCAGCACATTGGCATCT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
* * *
83489 TCATCTTTAAGTCCAATATCACTGGTCC-TGAAACAGCATATTGGCACCT
1 TCATCTTTAAGTCCAATATCGCTGG-CCTTGAATCAGCACATTGGCACCT
* * * * *
83538 T-GTCTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGGCACCT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
* * * **
83586 TTATCCTTAAGTCCAATATCGCTGGCCTTGAATCAGTACATTGGCATTT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
* *
83635 TCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
83673 TATTCGCATC
Statistics
Matches: 197, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.01
48 39 0.20
49 154 0.78
50 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (49 bp):
TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
Found at i:83531 original size:168 final size:174
Alignment explanation
Indices: 83213--83535 Score: 439
Period size: 168 Copynumber: 1.9 Consensus size: 174
83203 ATTGGCGCCT
* *
83213 TCATCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGTCATTCTTTTCATCTTCA
1 TCATCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-TCTCTTCATCTTCA
* *
83278 AGACTAATGTTGCTGACCATGAATCAGCACATCGACATTCTTTACATCTTTAAGCCCAATATCAC
65 AGACTAATATCGCTGACCATGAATCAGCACATCGACATTCTTTACATCTTTAAGCCCAATATCAC
* *
83343 TGGTCTTGAATCAACATATTGGCACTTTTAACACTTTTCTCATCC
130 TGGTCCTGAAACAACATATTGGCACTTTTAACACTTTTCTCATCC
83388 TCATCATCTTTAAAA-CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-CTTCATCCTT-A
1 TCATCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTCTTCAT-CTTCA
* * * * *
83449 AG-TTCAATATCGCT-AGCCTTGAATCAGCACATTGGCA-TC-TT-CATCTTTAAGTCCAATATC
65 AGACT-AATATCGCTGA-CCATGAATCAGCACATCGACATTCTTTACATCTTTAAGCCCAATATC
*
83509 ACTGGTCCTGAAACAGCATATTGGCAC
128 ACTGGTCCTGAAACAACATATTGGCAC
83536 CTTGTCTTTA
Statistics
Matches: 133, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
168 42 0.32
169 2 0.02
170 4 0.03
171 33 0.25
172 4 0.03
174 33 0.25
175 15 0.11
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (174 bp):
TCATCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTCTTCATCTTCAA
GACTAATATCGCTGACCATGAATCAGCACATCGACATTCTTTACATCTTTAAGCCCAATATCACT
GGTCCTGAAACAACATATTGGCACTTTTAACACTTTTCTCATCC
Found at i:83596 original size:97 final size:98
Alignment explanation
Indices: 83419--83672 Score: 269
Period size: 97 Copynumber: 2.6 Consensus size: 98
83409 TCGTTGGCCT
* ** *
83419 TGAATCAGCACATTGGCACCTTCATCCTTAAGTTCAATATCGCTAGCCTTGAATCAGCACATTGG
1 TGAAACAGCACATTGGCACCTTCATCCTTAAGACCAATATCACTAGCCTTGAATCAGCACATTGG
* *
83484 CATCTTCATCTTTAAGTCCAATATCACTGGTCC
66 CACCTTCATCCTTAAGTCCAATATCACTGGTCC
* * * * * *
83517 TGAAACAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGG
1 TGAAACAGCACATTGGCACCTTCATCCTTAAGACCAATATCACTAGCCTTGAATCAGCACATTGG
* *
83581 CACCTTTATCCTTAAGTCCAATATCGCTGG-CC
66 CACCTTCATCCTTAAGTCCAATATCACTGGTCC
* * ** * * * ** *
83613 TTGAATCAGTACATTGGCATTTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
1 -TGAAACAGCACATTGGCACCTTCATCCTTAAGACCAATATCACTAGCCTTGAATCAGCA
83673 TATTCGCATC
Statistics
Matches: 128, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
96 2 0.02
97 77 0.60
98 49 0.38
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (98 bp):
TGAAACAGCACATTGGCACCTTCATCCTTAAGACCAATATCACTAGCCTTGAATCAGCACATTGG
CACCTTCATCCTTAAGTCCAATATCACTGGTCC
Found at i:83672 original size:146 final size:146
Alignment explanation
Indices: 83394--83676 Score: 433
Period size: 146 Copynumber: 1.9 Consensus size: 146
83384 ATCCTCATCA
** *
83394 TCTTTAAAACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTTCAATAT
1 TCTTTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATAT
83459 CGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCACTGGTCCTGAAACA
66 CGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCACTGGTCCTGAAACA
83524 GCATATTGGCACCTTG
131 GCATATTGGCACCTTG
* * *
83540 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGGCACCTTTATCCTTAAGTCCAATAT
1 TCTTTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATAT
* * * * ** *
83605 CGCTGGCCTTGAATCAGTACATTGGCATTTTCATCTTTAAGTCCGATATCGTTGG-CCTTGAATC
66 CGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCACTGGTCC-TGAAAC
83669 AGCATATT
130 AGCATATT
83677 CGCATCTTTA
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
145 2 0.02
146 121 0.98
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (146 bp):
TCTTTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATAT
CGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCACTGGTCCTGAAACA
GCATATTGGCACCTTG
Found at i:84411 original size:13 final size:13
Alignment explanation
Indices: 84393--84417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84383 ATTACTCAAA
84393 TGTATCGATACAT
1 TGTATCGATACAT
84406 TGTATCGATACA
1 TGTATCGATACA
84418 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:84519 original size:52 final size:52
Alignment explanation
Indices: 84426--84553 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
84416 CACTGATCTT
*
84426 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
84477 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
84529 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
84554 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:87825 original size:21 final size:21
Alignment explanation
Indices: 87799--87840 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
87789 AATGCTTTTT
87799 TAGTAGGTGAAAGATTCGACA
1 TAGTAGGTGAAAGATTCGACA
*
87820 TAGTAGGTGGAAGATTCGACA
1 TAGTAGGTGAAAGATTCGACA
87841 AAATGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.24
Consensus pattern (21 bp):
TAGTAGGTGAAAGATTCGACA
Found at i:88066 original size:32 final size:32
Alignment explanation
Indices: 88030--88101 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
88020 TTTCAACGAT
*
88030 TTGTATCGATACATAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAGTGTTATATCGATACA
* *
88062 TTGTATCGATGCATAAGTTTTATATCGATACA
1 TTGTATCGATACATAAGTGTTATATCGATACA
*
88094 ATGTATCG
1 TTGTATCG
88102 CTATGAAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACATAAGTGTTATATCGATACA
Found at i:88221 original size:52 final size:52
Alignment explanation
Indices: 88141--88293 Score: 227
Period size: 52 Copynumber: 2.9 Consensus size: 52
88131 ATACATTACT
*** *
88141 CAAATGTATCGATACACTGAT-CTTTGTATCGACACATGCAGGCAAATTTGCC
1 CAAATGTATCGATACACT-ATGAAATGTATCGATACATGCAGGCAAATTTGCC
**
88193 CAAATGTATCGATACACTATGAAATGTATCGATACATATAGGCAAATTTGCC
1 CAAATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCC
*
88245 CAGATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 CAAATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
88294 TCATATTTGG
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
CAAATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCC
Found at i:91852 original size:20 final size:21
Alignment explanation
Indices: 91818--91857 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
91808 TTATGCACAA
* *
91818 TATTTTTTCACTTTT-ATTTT
1 TATTTTTTAAATTTTGATTTT
91838 TATTTTTTAAATTTTGATTT
1 TATTTTTTAAATTTTGATTT
91858 CACTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
TATTTTTTAAATTTTGATTTT
Found at i:92418 original size:43 final size:43
Alignment explanation
Indices: 92360--93176 Score: 915
Period size: 43 Copynumber: 19.2 Consensus size: 43
92350 TAGATGAGGC
* * * * *
92360 AGTCTTCAGGGTCAAAGCCGATAGGCAGACTGAA-TGATAGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGATAGGAA
*
92403 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
*
92446 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
**
92489 AGTCTCC-AGAGTCAAAGTTGACAGGCAGACTAAGGGCA-AGGAA
1 AGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAGGG-ATAGGAA
* * * *
92532 AGTCTCCAGGGTCAAAGTCGATAAGCAGACTAAGGGA-AGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
92574 AGTCTCCAAGGTCAAAGCCGATAAGCAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
92617 AGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAGGGA-AAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
92659 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
92702 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGA-AGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * **
92744 AGTCTCCAGGGTCAAAGCCAACAGGCAGACTATGGGA-AAAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
*
92786 AGTCTCCACA-GTCAAAGCCGACAGGTAGACTAAGGGATAGGAA
1 AGTCTCCA-AGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
*** * * **
92829 AGTCTCCAAGGTCAAAATTGATAGGCAGATTAAGGGATAAAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
92872 AGTCTACAGGGTCAAAGCCGACAGGCAAACTAAGGGA-AGTAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * * * *
92914 AGTATCTAGGGTCAAAACTGATAGACAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
**
92957 AGTCT-CAAGGGTCAAAGCTAACAGGCAGACTAAGGGATAGGAA
1 AGTCTCCAA-GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
93000 AGTCTCCAGGGTCAAAGCCAACAAGCAGACTAAAGGA-AGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
** *
93042 AGTCTCCAAGGTCAAAATCGACAGGCAAACTAAGGGA-AGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
93084 AGTCTCCAGGGTCAAAGCCGACAGGAAGACTAA-GGAAAGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
93126 AATCTCGAAGGTCAAAGCAGACATGCAGACTAAGGGA-AAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
*
93168 AGTTTCCAA
1 AGTCTCCAA
93177 AAGTTTAATG
Statistics
Matches: 660, Mismatches: 100, Indels: 29
0.84 0.13 0.04
Matches are distributed among these distances:
41 3 0.00
42 298 0.45
43 355 0.54
44 4 0.01
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (43 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
Found at i:92616 original size:85 final size:85
Alignment explanation
Indices: 92360--93176 Score: 944
Period size: 85 Copynumber: 9.6 Consensus size: 85
92350 TAGATGAGGC
* * * *
92360 AGTCTTCAGGGTCAAAGCCGATAGGCAGACTGAA-TGATAGAAAAGTCTCCAAGGTCAAAGCCGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGA-AGGAAAGTCTCCAAGGTCAAAGCCGA
*
92424 TAGGCAGACTAAGGGATAGGAA
64 CAGGCAGACTAAGGGATAGGAA
**
92446 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCC-AGAGTCAAAGTTGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA-AGGAAAGTCTCCAAG-GTCAAAGCCGA
92510 CAGGCAGACTAAGGGCA-AGGAA
64 CAGGCAGACTAAGGG-ATAGGAA
* * * *
92532 AGTCTCCAGGGTCAAAGTCGATAAGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGATA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGACA
*
92597 AGCAGACTAAGGGATAGGAA
66 GGCAGACTAAGGGATAGGAA
* * * *
92617 AGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAGGGAAAGAAAGTCTCCAAGGTCAAAGCCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGACA
92682 GGCAGACTAAGGGATAGGAA
66 GGCAGACTAAGGGATAGGAA
* * * *
92702 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGAAGGAAAGTCTCCAGGGTCAAAGCCAACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGACA
* **
92767 GGCAGACTATGGGA-AAAAA
66 GGCAGACTAAGGGATAGGAA
** * *** *
92786 AGTCTCCACAGTCAAAGCCGACAGGTAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAATTGAT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA-AGGAAAGTCTCCAAGGTCAAAGCCGAC
* **
92851 AGGCAGATTAAGGGATAAAAA
65 AGGCAGACTAAGGGATAGGAA
* * * * * * * * *
92872 AGTCTACAGGGTCAAAGCCGACAGGCAAACTAAGGGAAGTAAAGTATCTAGGGTCAAAACTGATA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGACA
*
92937 GACAGACTAAGGGATAGGAA
66 GGCAGACTAAGGGATAGGAA
* ** * *
92957 AGTCTCAAGGGTCAAAGCTAACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCAAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA-AGGAAAGTCTCCAAGGTCAAAGCCGAC
* *
93022 AAGCAGACTAAAGGA-AGGAA
65 AGGCAGACTAAGGGATAGGAA
* ** * *
93042 AGTCTCCAAGGTCAAAATCGACAGGCAAACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGACA
* * *
93107 GGAAGACTAA-GGAAAGAAA
66 GGCAGACTAAGGGATAGGAA
* * * * * * *
93126 AATCTCGAAGGTCAAAGCAGACATGCAGACTAAGGGAAAGAAAGTTTCCAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAA
93177 AAGTTTAATG
Statistics
Matches: 625, Mismatches: 97, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
83 3 0.00
84 116 0.19
85 329 0.53
86 176 0.28
87 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (85 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGCCGACA
GGCAGACTAAGGGATAGGAA
Found at i:107063 original size:23 final size:22
Alignment explanation
Indices: 107021--107071 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
107011 TTGCTGCCCT
*
107021 TCGTGGAGTTGCTACCGGTTGC
1 TCGTGGAGCTGCTACCGGTTGC
*
107043 TCGTGGAAGCTGCTACTGGTTGC
1 TCGTGG-AGCTGCTACCGGTTGC
107066 TCGTGG
1 TCGTGG
107072 TGTTGGCTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.10, C:0.22, G:0.37, T:0.31
Consensus pattern (22 bp):
TCGTGGAGCTGCTACCGGTTGC
Found at i:107070 original size:78 final size:78
Alignment explanation
Indices: 106978--107338 Score: 506
Period size: 78 Copynumber: 4.6 Consensus size: 78
106968 TCATTGGAAA
* * *
106978 TGCTAGTTGCTCGTGGTGTTGGCTACTTTCACATTGCTGCCCTTCGTGGAGTTGCTACCGGTTGC
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCGTGGAGTTGCTACCGGTTGC
107043 TCGTGGAAGCTGC
66 TCGTGGAAGCTGC
* * * * **
107056 TACTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCTTTCATGGAGTCGCTATTGGTTGC
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCGTGGAGTTGCTACCGGTTGC
107121 TCGTGGAAGCTGC
66 TCGTGGAAGCTGC
* *
107134 TGCTGGTTGCTCGTGGTGTTGGCTGTTTTCACGTTGCTACCCTTTGCTCGTGGAGTTGCTACCGG
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCC--T--TCGTGGAGTTGCTACCGG
* *
107199 TTGCTTGTGGAAGTTGC
62 TTGCTCGTGGAAGCTGC
* * * * * *
107216 TGCTGGTTACTCATGGTGTTGGCTGGTTTCACGTTGTTGCCCTTCGTGGAGTTGCTGCCAGTTGC
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCGTGGAGTTGCTACCGGTTGC
*
107281 TCATGGAAGCTGC
66 TCGTGGAAGCTGC
107294 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTC
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTC
107339 TCCCGTTCGG
Statistics
Matches: 246, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
78 178 0.72
80 2 0.01
82 66 0.27
ACGTcount: A:0.08, C:0.23, G:0.32, T:0.37
Consensus pattern (78 bp):
TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCGTGGAGTTGCTACCGGTTGC
TCGTGGAAGCTGC
Found at i:107194 original size:22 final size:23
Alignment explanation
Indices: 107166--107216 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
107156 CTGTTTTCAC
*
107166 GTTGCTACCCTTTGCTCGTGG-A
1 GTTGCTACCCGTTGCTCGTGGAA
* *
107188 GTTGCTACCGGTTGCTTGTGGAA
1 GTTGCTACCCGTTGCTCGTGGAA
107211 GTTGCT
1 GTTGCT
107217 GCTGGTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.10, C:0.22, G:0.31, T:0.37
Consensus pattern (23 bp):
GTTGCTACCCGTTGCTCGTGGAA
Found at i:107248 original size:160 final size:158
Alignment explanation
Indices: 106978--107337 Score: 508
Period size: 160 Copynumber: 2.3 Consensus size: 158
106968 TCATTGGAAA
* * *
106978 TGCTAGTTGCTCGTGGTGTTGGCTACTTTCACATTGCTGCCC--TTCGTGGAGTTGCTACCGGTT
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTTTCGTGGAGTTGCTACCGGTT
* * *
107041 GCTCGTGGAAGCTGCTACTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCTTTCATGGA
66 GCTCGTGGAAGCTGCTACTGGTTACTCATGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCATGGA
*** *
107106 GTCGCTATTGGTTGCTCGTGGAAGCTGC
131 GTCGCTACCAGTTGCTCATGGAAGCTGC
* *
107134 TGCTGGTTGCTCGTGGTGTTGGCTGTTTTCACGTTGCTACCCTTTGCTCGTGGAGTTGCTACCGG
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTT--TCGTGGAGTTGCTACCGG
* * * * * *
107199 TTGCTTGTGGAAGTTGCTGCTGGTTACTCATGGTGTTGGCTGGTTTCACGTTGTTGCCCTTCGTG
64 TTGCTCGTGGAAGCTGCTACTGGTTACTCATGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCATG
* *
107264 GAGTTGCTGCCAGTTGCTCATGGAAGCTGC
129 GAGTCGCTACCAGTTGCTCATGGAAGCTGC
107294 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTT
1 TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTT
107338 CTCCCGTTCG
Statistics
Matches: 178, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
156 37 0.21
158 1 0.01
160 140 0.79
ACGTcount: A:0.08, C:0.23, G:0.32, T:0.37
Consensus pattern (158 bp):
TGCTGGTTGCTCGTGGTGTTGGCTGCTTTCACGTTGCTGCCCTTTTCGTGGAGTTGCTACCGGTT
GCTCGTGGAAGCTGCTACTGGTTACTCATGGTGTTGGCTGCTTTCACGTTGCTGCCCTTCATGGA
GTCGCTACCAGTTGCTCATGGAAGCTGC
Found at i:107801 original size:31 final size:31
Alignment explanation
Indices: 107755--107814 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
107745 AGAGTTCCAT
* *
107755 TTGCTTGTGTTTCCCATGATTGCATGCTACA
1 TTGCATGTGTCTCCCATGATTGCATGCTACA
107786 TTGCATGTGTCTCCCATGATTGCATGCTA
1 TTGCATGTGTCTCCCATGATTGCATGCTA
107815 TATTACCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (31 bp):
TTGCATGTGTCTCCCATGATTGCATGCTACA
Found at i:108779 original size:60 final size:61
Alignment explanation
Indices: 108701--108831 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 61
108691 GACGTTGAGT
** *
108701 TTAAAGAT-ACGAAGAATGATAAAGGTGTTAATATGCTAATTCACGGCCAACAATATCG-GC
1 TTAAAGATGA-GAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATCGAGC
* * * * *
108761 TTGAAGATGAGAAGAATGATAAGGGTGCCAATATGCTGATTCAAGGCCAACGATATTGAGC
1 TTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATCGAGC
108822 TTAAAGATGA
1 TTAAAGATGA
108832 CAAATGTGTC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
60 48 0.80
61 12 0.20
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (61 bp):
TTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATCGAGC
Found at i:108907 original size:52 final size:52
Alignment explanation
Indices: 108785--109020 Score: 172
Period size: 52 Copynumber: 4.6 Consensus size: 52
108775 AATGATAAGG
* * * *
108785 GTGCCAATATGCTGATTCAAGGCCAACGATATTGAGCTTAAAGATGACAAAT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTAAACTTAAAGATGACAAAA
* * * * * **
108837 GTGTCAGTGTGCTGATTCAAAGCCAGCGACATTAAACTTAAAGATGGTAAAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTAAACTTAAAGATGACAAAA
* ** ** * *
108889 GTGCCAATATGCTAATTCAAGGCCAA-GATTTTGGAC-TAGAGAAAGA-AGAAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTAAACTTAAAG-ATGACA-AAA
* * * ** * *
108940 GTGTCAATGTGCTGATTTAAGGCCAACGACATTGGATTTAAAGATGATAAAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTAAACTTAAAGATGACAAAA
* * * *
108992 GTACCAATATACTGACTCAAGACCAACGA
1 GTGCCAATATGCTGATTCAAGGCCAACGA
109021 TATTGGACTT
Statistics
Matches: 139, Mismatches: 40, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
50 5 0.04
51 33 0.24
52 96 0.69
53 5 0.04
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (52 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTAAACTTAAAGATGACAAAA
Found at i:108981 original size:103 final size:103
Alignment explanation
Indices: 108776--109029 Score: 280
Period size: 103 Copynumber: 2.5 Consensus size: 103
108766 GATGAGAAGA
** * *
108776 ATGATAAGGGTGCCAATATGCTGATTCAAGGCCAACGATATT-GAGCTTAAAGATGACAAATGTG
1 ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGA-C-TAAAGAAGACAAAAGTG
* *
108840 TCAGTGTGCTGATTCAAAGCCAGCGACATTAAACTTAAAG
64 TCAATGTGCTGATTCAAAGCCAACGACATTAAACTTAAAG
* * * *
108880 ATGGTAAAAGTGCCAATATGCTAATTCAAGGCCAA-GATTTTGGACTAGAGAAAGA-AGAAAGTG
1 ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTAAAG-AAGACA-AAAGTG
* * ** *
108943 TCAATGTGCTGATTTAAGGCCAACGACATTGGATTTAAAG
64 TCAATGTGCTGATTCAAAGCCAACGACATTAAACTTAAAG
* * * *
108983 ATGATAAAAGTACCAATATACTGACTCAAGACCAACGATATTGGACT
1 ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACT
109030 TGTACCAATG
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
102 5 0.04
103 76 0.61
104 43 0.35
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (103 bp):
ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTAAAGAAGACAAAAGTGTC
AATGTGCTGATTCAAAGCCAACGACATTAAACTTAAAG
Found at i:110237 original size:15 final size:15
Alignment explanation
Indices: 110217--110248 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
110207 ATGAAATAAT
110217 TAAAAATAAATAAAA
1 TAAAAATAAATAAAA
*
110232 TAAAAATAAGTAAAA
1 TAAAAATAAATAAAA
110247 TA
1 TA
110249 TTCAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAAAATAAATAAAA
Found at i:112710 original size:16 final size:16
Alignment explanation
Indices: 112676--112710 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
112666 TTTTGCCAAA
* *
112676 TTTTACTCTCTTTTTT
1 TTTTACTCTCTGTTGT
112692 TTTTACTCTCTGTTGT
1 TTTTACTCTCTGTTGT
112708 TTT
1 TTT
112711 AGCTTGTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTACTCTCTGTTGT
Found at i:118504 original size:22 final size:22
Alignment explanation
Indices: 118479--118521 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118469 ATATTTTATT
*
118479 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAAATA-AAAAATATA
118501 TAAATATTAAATAAAAAATAT
1 TAAATATTAAATAAAAAATAT
118522 TTTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATTAAATAAAAAATATA
Found at i:119118 original size:29 final size:30
Alignment explanation
Indices: 119076--119134 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
119066 GACAAGTATT
119076 TTTTTTAAA-TTTTTTTAACAGTGTTTTTA
1 TTTTTTAAACTTTTTTTAACAGTGTTTTTA
* * *
119105 TTTTTTCAACTTTTTTTAATAGTTTTTTTA
1 TTTTTTAAACTTTTTTTAACAGTGTTTTTA
119135 ATGATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (30 bp):
TTTTTTAAACTTTTTTTAACAGTGTTTTTA
Found at i:120347 original size:16 final size:16
Alignment explanation
Indices: 120317--120349 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
120307 AAAAATATAC
120317 TATTTCTGATATTTTT
1 TATTTCTGATATTTTT
120333 TATTT-TGATAGTTTTT
1 TATTTCTGATA-TTTTT
120349 T
1 T
120350 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.70
Consensus pattern (16 bp):
TATTTCTGATATTTTT
Found at i:122896 original size:9 final size:8
Alignment explanation
Indices: 122882--122961 Score: 74
Period size: 8 Copynumber: 9.9 Consensus size: 8
122872 AAATAGTAAT
*
122882 AAAAAATC
1 AAAAAAAC
122890 AAAAAAACC
1 AAAAAAA-C
122899 AAAAAAAC
1 AAAAAAAC
*
122907 -AACAAA-
1 AAAAAAAC
122913 AAAAAAAC
1 AAAAAAAC
122921 AAAAAAATC
1 AAAAAAA-C
122930 AAAAAAAAC
1 -AAAAAAAC
*
122939 AAAAAATC
1 AAAAAAAC
* *
122947 GAAAAACC
1 AAAAAAAC
122955 AAAAAAA
1 AAAAAAA
122962 ATAATCAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
7 10 0.17
8 32 0.54
9 10 0.17
10 7 0.12
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.04
Consensus pattern (8 bp):
AAAAAAAC
Found at i:122920 original size:23 final size:23
Alignment explanation
Indices: 122890--122943 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
122880 ATAAAAAATC
* *
122890 AAAAAAACCAAAAAAA-CAACAA
1 AAAAAAAACAAAAAAATCAAAAA
122912 AAAAAAAACAAAAAAATCAAAAA
1 AAAAAAAACAAAAAAATCAAAAA
122935 AAACAAAAA
1 AAA-AAAAA
122944 ATCGAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 15 0.54
23 8 0.29
24 5 0.18
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAAAAAATCAAAAA
Found at i:122924 original size:31 final size:29
Alignment explanation
Indices: 122882--122944 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 29
122872 AAATAGTAAT
*
122882 AAAAAATCAAAAAAACCAAAAAAACAACAAA
1 AAAAAAACAAAAAAACC-AAAAAA-AACAAA
*
122913 AAAAAAACAAAAAAATCAAAAAAAACAAA
1 AAAAAAACAAAAAAACCAAAAAAAACAAA
122942 AAA
1 AAA
122945 TCGAAAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.30
30 6 0.20
31 15 0.50
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (29 bp):
AAAAAAACAAAAAAACCAAAAAAAACAAA
Found at i:122944 original size:11 final size:11
Alignment explanation
Indices: 122890--122927 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
122880 ATAAAAAATC
*
122890 AAAAAAACCAA
1 AAAAAAAACAA
*
122901 AAAAACAACAA
1 AAAAAAAACAA
122912 AAAAAAAACAA
1 AAAAAAAACAA
122923 AAAAA
1 AAAAA
122928 TCAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:122961 original size:17 final size:16
Alignment explanation
Indices: 122882--122961 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
122872 AAATAGTAAT
*
122882 AAAAAATCAAAAAAACC
1 AAAAAA-CAAAAAAATC
*
122899 AAAAAAACAACAAAA--
1 -AAAAAACAAAAAAATC
122914 AAAAAACAAAAAAATC
1 AAAAAACAAAAAAATC
*
122930 AAAAAAAACAAAAAATC
1 AAAAAACA-AAAAAATC
*
122947 GAAAAACCAAAAAAA
1 -AAAAAACAAAAAAA
122962 ATAATCAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
14 13 0.25
16 7 0.13
17 21 0.40
18 12 0.23
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.04
Consensus pattern (16 bp):
AAAAAACAAAAAAATC
Found at i:122962 original size:11 final size:10
Alignment explanation
Indices: 122890--122944 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
122880 ATAAAAAATC
*
122890 AAAAAAACCA
1 AAAAAAAACA
122900 AAAAAACAACA
1 AAAAAA-AACA
122911 AAAAAAAA-A
1 AAAAAAAACA
*
122920 CAAAAAAATC-
1 -AAAAAAAACA
122930 AAAAAAAACA
1 AAAAAAAACA
122940 AAAAA
1 AAAAA
122945 TCGAAAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 9 0.24
10 20 0.53
11 9 0.24
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:123006 original size:8 final size:8
Alignment explanation
Indices: 122995--123057 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
122985 TAACTAATTA
122995 AAAATAAT
1 AAAATAAT
123003 AAAATAAT
1 AAAATAAT
* *
123011 AAAACAAA
1 AAAATAAT
*
123019 AAAATAAC
1 AAAATAAT
*
123027 AAAATAAC
1 AAAATAAT
123035 AAAATAAT
1 AAAATAAT
*
123043 AAAAAAAT
1 AAAATAAT
*
123051 GAAATAA
1 AAAATAA
123058 AAATGATGGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 47 1.00
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAATAAT
Found at i:123037 original size:19 final size:19
Alignment explanation
Indices: 122882--123050 Score: 62
Period size: 19 Copynumber: 8.8 Consensus size: 19
122872 AAATAGTAAT
*
122882 AAAAAATCAAAAAAACCAA-A
1 AAAAAAT-AAAAAAA-TAACA
* *
122902 AAAACAACAAAAAAAAAACA
1 AAAA-AATAAAAAAATAACA
*
122922 AAAAAATCAAAAAA-AAC-
1 AAAAAATAAAAAAATAACA
** **
122939 AAAAAATCGAAAAACCA-A
1 AAAAAATAAAAAAATAACA
* *
122957 AAAAAATAATCAAGATAA-A
1 AAAAAATAA-AAAAATAACA
* ** *
122976 AAAAATTATTAACTAATTA-A
1 AAAAA--ATAAAAAAATAACA
* *
122996 AAATAATAAAATAATAAAACA
1 AAAAAATAAAA-AA-ATAACA
*
123017 AAAAAATAACAAAATAACA
1 AAAAAATAAAAAAATAACA
*
123036 AAATAATAAAAAAAT
1 AAAAAATAAAAAAAT
123051 GAAATAAAAA
Statistics
Matches: 110, Mismatches: 29, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
17 13 0.12
18 15 0.14
19 39 0.35
20 28 0.25
21 15 0.14
ACGTcount: A:0.76, C:0.09, G:0.01, T:0.13
Consensus pattern (19 bp):
AAAAAATAAAAAAATAACA
Found at i:123055 original size:24 final size:25
Alignment explanation
Indices: 122993--123057 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 25
122983 ATTAACTAAT
*
122993 TAAAAATAATAAAATAATAAAACAA
1 TAAAAATAATAAAATAACAAAACAA
* *
123018 -AAAAATAACAAAATAACAAAATAA
1 TAAAAATAATAAAATAACAAAACAA
*
123042 TAAAAA-AATGAAATAA
1 TAAAAATAATAAAATAA
123058 AAATGATGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (25 bp):
TAAAAATAATAAAATAACAAAACAA
Found at i:123949 original size:19 final size:19
Alignment explanation
Indices: 123867--123955 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
123857 ACAGTTTCAG
* *
123867 CAGCTCCAGCA-ACAACAG
1 CAGCTCCAGCATGCAACAA
123885 CAGCTCCAGCA-GCCAACATCGA
1 CAGCTCCAGCATG-CAACA---A
** *
123907 CAGCTCCAGCATGCCGCAG
1 CAGCTCCAGCATGCAACAA
123926 CAGCTCCAGCATGCAACAA
1 CAGCTCCAGCATGCAACAA
*
123945 TAGCTCCAGCA
1 CAGCTCCAGCA
123956 AGAGTAGCAC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 11 0.19
19 31 0.54
22 14 0.25
23 1 0.02
ACGTcount: A:0.31, C:0.39, G:0.19, T:0.10
Consensus pattern (19 bp):
CAGCTCCAGCATGCAACAA
Found at i:126156 original size:157 final size:154
Alignment explanation
Indices: 125848--126158 Score: 367
Period size: 157 Copynumber: 2.0 Consensus size: 154
125838 TAATTTTTCA
*
125848 AAACCAAGTCCTAGGTTGTCATCAGGTTCGCTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTC
1 AAACCAAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCCGAA---GGGTATTTAAGATAGGTTC
* * * * * *
125913 ACTCATTTTATAGTCCTTTTAAAGTCCTTTAGAGGTATTTGGTACTTTTACATCAAAGGTATCCC
63 ACCCATTTTATAATCCTTTTAAAGTCATTTAGAGGTACTAGGTACTTTTACATCAAAGGTATACC
* *
125978 TTAGGGGCATTTTCGTTTTTTTTTTTT
128 TTAGGGGCATTTTCATATTTTTTTTTT
* *
126005 AAACCAAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGTCGAA-GGTATTTAGGATAGGTTCATC
1 AAACCAAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCCGAAGGGTATTTAAGATAGGTTCA-C
* ** *
126069 CCATTTTTATAATCCTTTT-AAGTCATTTAG-GGTTACTAGGATATTTTTATGTCAAAGGTATAT
65 CCA-TTTTATAATCCTTTTAAAGTCATTTAGAGG-TACTAGG-TACTTTTACATCAAAGGTATAC
* * *
126132 CTTCAGGGGTATTTTTATAATTTTTTT
127 CTT-AGGGGCATTTTCATATTTTTTTT
126159 GAACTTAGTC
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
153 20 0.15
154 18 0.14
155 34 0.26
156 18 0.14
157 41 0.31
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (154 bp):
AAACCAAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCCGAAGGGTATTTAAGATAGGTTCACC
CATTTTATAATCCTTTTAAAGTCATTTAGAGGTACTAGGTACTTTTACATCAAAGGTATACCTTA
GGGGCATTTTCATATTTTTTTTTT
Found at i:127304 original size:43 final size:43
Alignment explanation
Indices: 127257--127343 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
127247 GAATTTAAGA
127257 TAGATTTTTTATTTTATTTTATTATTTTGAACAGGTAAGTTTG
1 TAGATTTTTTATTTTATTTTATTATTTTGAACAGGTAAGTTTG
127300 TAGATTTTTTATTTTATTTTATTATTTTGAACAGGTAAGTTTG
1 TAGATTTTTTATTTTATTTTATTATTTTGAACAGGTAAGTTTG
127343 T
1 T
127344 TCCCCCGCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (43 bp):
TAGATTTTTTATTTTATTTTATTATTTTGAACAGGTAAGTTTG
Found at i:127850 original size:2 final size:2
Alignment explanation
Indices: 127843--127896 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
127833 TCTTCAATTC
127843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127885 AT AT AT AT AT AT
1 AT AT AT AT AT AT
127897 TCGATATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129813 original size:16 final size:15
Alignment explanation
Indices: 129788--129817 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
129778 TTAGGAGCAT
129788 GAAAAAAAAAAGAAG
1 GAAAAAAAAAAGAAG
129803 GAAAGAAAAAAAGAA
1 GAAA-AAAAAAAGAA
129818 AAAGCGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAGAAG
Found at i:131393 original size:90 final size:89
Alignment explanation
Indices: 131233--131587 Score: 399
Period size: 90 Copynumber: 4.0 Consensus size: 89
131223 AAGGAAATTA
* * * *
131233 TGCAGCCCACACATTCCCAATCATATCCCCTTCA-TCTAACTACTAGATGGTATTGATACATCAT
1 TGCAGCCCACACATTCCCAATCATATCCCCTTCATTC-AACCACTAGATGATATTGATGCATCAC
*
131297 ATAGCCTGATTTCCTTTGGGGCAAGG
65 AAAGCCTGATTTCC-TTGGGGCAAGG
* * * *
131323 TGCAGCCCACACATTTCTAATCATATCCCCTTCATTTAACCACTAGATGATATTGTTGCATCACA
1 TGCAGCCCACACATTCCCAATCATATCCCCTTCATTCAACCACTAGATGATATTGATGCATCACA
*
131388 AAGCCTGATTTCCTTTAGGGCAAGG
66 AAGCCTGATTTCC-TTGGGGCAAGG
* ** * *
131413 TACAGCCCTTACATTCCCAATAATATCCCCTTCATTCAACCACTAGATGATATTGATGCATCACG
1 TGCAGCCCACACATTCCCAATCATATCCCCTTCATTCAACCACTAGATGATATTGATGCATCACA
* * *
131478 AAGCTTGATTTTCTAGGGGCAAGG
66 AAGCCTGATTTCCTTGGGGCAAGG
* * * ** * * * *
131502 TGCAGCCC-CTACATTCCTAATCATATTCCATTCACACAATCATTAAATGGTATTGATGCATCAC
1 TGCAGCCCAC-ACATTCCCAATCATATCCCCTTCATTCAACCACTAGATGATATTGATGCATCAC
* *
131566 AAAGCCTAATATCCTTGGGGCA
65 AAAGCCTGATTTCCTTGGGGCA
131588 GGGATATCCC
Statistics
Matches: 222, Mismatches: 41, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
89 76 0.34
90 145 0.65
91 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (89 bp):
TGCAGCCCACACATTCCCAATCATATCCCCTTCATTCAACCACTAGATGATATTGATGCATCACA
AAGCCTGATTTCCTTGGGGCAAGG
Found at i:131569 original size:179 final size:180
Alignment explanation
Indices: 131243--131581 Score: 434
Period size: 179 Copynumber: 1.9 Consensus size: 180
131233 TGCAGCCCAC
* * * *
131243 ACATTCCCAATCATATCCCCTTCATCTAACTACTAGATGGTATTGATACATCATATAGCCTGATT
1 ACATTCCCAATAATATCCCCTTCATCTAACCACTAGATGATATTGATACATCAGATAGCCTGATT
* * * *** *
131308 TCCTTTGGGGCAAGGTGCAGCCCACACATTTCTAATCATATCCCCTTCATTTAACCACTAGATGA
66 TCCTTAGGGGCAAGGTGCAGCCCACACATTCCTAATCATATCCCATTCACACAACCACTAAATGA
* * *
131373 TATTGTTGCATCACAAAGCCTGATTTCCTTTAGGGCAAGGTACAGCCCTT
131 TATTGATGCATCACAAAGCCTAATATCCTTTAGGGCAAGGTACAGCCCTT
* *
131423 ACATTCCCAATAATATCCCCTTCAT-TCAACCACTAGATGATATTGATGCATCACGA-AGCTTGA
1 ACATTCCCAATAATATCCCCTTCATCT-AACCACTAGATGATATTGATACATCA-GATAGCCTGA
* * * *
131486 TTTTC-TAGGGGCAAGGTGCAGCCC-CTACATTCCTAATCATATTCCATTCACACAATCATTAAA
64 TTTCCTTAGGGGCAAGGTGCAGCCCAC-ACATTCCTAATCATATCCCATTCACACAACCACTAAA
*
131549 TGGTATTGATGCATCACAAAGCCTAATATCCTT
128 TGATATTGATGCATCACAAAGCCTAATATCCTT
131582 GGGGCAGGGA
Statistics
Matches: 135, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
178 1 0.01
179 76 0.56
180 57 0.42
181 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (180 bp):
ACATTCCCAATAATATCCCCTTCATCTAACCACTAGATGATATTGATACATCAGATAGCCTGATT
TCCTTAGGGGCAAGGTGCAGCCCACACATTCCTAATCATATCCCATTCACACAACCACTAAATGA
TATTGATGCATCACAAAGCCTAATATCCTTTAGGGCAAGGTACAGCCCTT
Found at i:131910 original size:36 final size:35
Alignment explanation
Indices: 131831--131920 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 35
131821 TTTTCCATCA
* * * **
131831 TCGTTTAACTGTATTCGGTTAAACTCTTTTCATCTT
1 TCGTTTGACTGTATT-GGTCAAACTCTTCTCATCCC
*
131867 TCATTTGACTGTACTTGGTCAAACTCTTCTCATCCC
1 TCGTTTGACTGTA-TTGGTCAAACTCTTCTCATCCC
*
131903 TCGTTTGACTATATTGGT
1 TCGTTTGACTGTATTGGT
131921 GTTAGGGCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
35 5 0.11
36 38 0.84
37 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (35 bp):
TCGTTTGACTGTATTGGTCAAACTCTTCTCATCCC
Found at i:132298 original size:127 final size:127
Alignment explanation
Indices: 132082--132942 Score: 738
Period size: 127 Copynumber: 6.8 Consensus size: 127
132072 ATCAATTTTA
* * * *
132082 ACCCTGGAGACTGCCTTATCTTC-AGTCTGCCTGTCGACTTTG-ACCTTGGAAACTTCTCCACCC
1 ACCCTGGAGACTGCCTCATC-TCAAGTCTGCTTGTCG-CTTTGAACCTTGGAGACTTCTTCACCC
* * * * * *
132145 TTAAGTCTGCCTATC-AGCTATGACCCTAAAAACTTTCTTACCTTCAATCTGCTTTTCGGCTTTG
64 TTAAGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCTTGTCGGCTTTG
* *
132209 ACCCTAGAGACTGCCTCATCTCAAGTCTGCTTGTCAGCTTTGAACC-TAGAGACTTCTTCACCCT
1 ACCCTGGAGACTGCCTCATCTCAAGTCTGCTTGTC-GCTTTGAACCTTGGAGACTTCTTCACCCT
* * * * *
132273 TAAATCTGTCTGTCGACTTTAACCCTAAAGACTTTCTTACCTTCAGTCTGTCTT-TCAGCTTTG
65 TAAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTG-CTTGTCGGCTTTG
* * *
132336 ACCCTGGAGACTGCTTCATCTCAAGTCTGTTTGTCAGCTTT-AACCTTGGAAACTTCTTCACCCT
1 ACCCTGGAGACTGCCTCATCTCAAGTCTGCTTGTC-GCTTTGAACCTTGGAGACTTCTTCACCCT
* * * * *
132400 TAAGTCTTCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTG
65 TAAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCTTGTCGGCTTTG
* * * *
132463 ACCTTGGAGACTGCTTCATCTTAAGT-TCGCCTGTCGACTTTG-ACCTTGGAGACTTCTTCACCC
1 ACCCTGGAGACTGCCTCATCTCAAGTCT-GCTTGTCG-CTTTGAACCTTGGAGACTTCTTCACCC
* * *
132526 TTAAGTCTGCCTGTCGACTTTAACCCTAGAGACTTTCTTACTTTCAGTCTTC-TGTCGGCTTTG
64 TTAAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCTTGTCGGCTTTG
* * * * * *
132589 ACTCTAGAGACTGTCTCATCTCAAGTCTG-TCTGTTGGCTTT-AATCTTGGAGACTT-TTATACC
1 ACCCTGGAGACTGCCTCATCTCAAGTCTGCT-TG-TCGCTTTGAACCTTGGAGACTTCTT-CACC
*
132651 CTTAAGTCTGCCTGTCAACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTG-TCTGTCGGCTTT
63 CTTAAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCT-TGTCGGCTTT
132715 G
127 G
* *** * ** * * ** * * *
132716 ACCTTGGAGACTTTTTCACCCTTTAGTCTGCCTGTCGGCTTTG-ACCCTACAGGCTGCCTT-A-T
1 ACCCTGGAGACTGCCTCA-TCTCAAGTCTGCTTGTC-GCTTTGAACCTTGGAGACT-TCTTCACC
* * * * * * * * *
132778 CTCAAGTCTGCCTGTCAACTTTGA-TCTCGGAGAC-TTCTTCACCCTTAAGTATACCTGTTGGCT
63 CTTAAGTCTGCCTGTCGACTTTGACCCT-AGAGACTTTCTT-A-CCTTCAGTCTGCTTGTCGGCT
132841 TTG
125 TTG
* * * * * *
132844 ACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTTGACTTTG-ACCCTCGAGACTTCTTATATCC
1 ACCCTGGAGACTGCCTCATCTCAAGTCTGCTTGTCG-CTTTGAACCTTGGAGACTTCTT-CA-CC
** *
132908 CTT-AGTCTGTTTGTC-AGCTTTGACCCTGGAGACTT
63 CTTAAGTCTGCCTGTCGA-CTTTGACCCTAGAGACTT
132943 CCTCATCTTT
Statistics
Matches: 603, Mismatches: 96, Indels: 67
0.79 0.13 0.09
Matches are distributed among these distances:
125 2 0.00
126 121 0.20
127 387 0.64
128 64 0.11
129 22 0.04
130 7 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (127 bp):
ACCCTGGAGACTGCCTCATCTCAAGTCTGCTTGTCGCTTTGAACCTTGGAGACTTCTTCACCCTT
AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCTTGTCGGCTTTG
Found at i:132685 original size:85 final size:84
Alignment explanation
Indices: 132082--132950 Score: 503
Period size: 85 Copynumber: 10.2 Consensus size: 84
132072 ATCAATTTTA
* * * * * **
132082 ACCCTGGAGACTGCCTTATCTTC-AGTCTGCCTGTCGACTTTGACCTTGGAAACTTCTCCACCCT
1 ACCCTAGAGACTGTCTCATC-TCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTT-TTTACCCT
* * *
132146 TAAGTCTGCCTATCAGCTATG
64 TAAGTCTGCCTGTCGGCTTTG
* * * * * * * * * * * *** *
132167 ACCCTAAAAACTTTCTTACCTTCAA-TCTGCTTTTCGGCTTTGACCCTAGAGACTGCCT-CATCT
1 ACCCTAGAGACTGTCTCATC-TCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTTTTTAC-CCT
* * *
132230 CAAGTCTGCTTGTCAGCTTTG
64 TAAGTCTGCCTGTCGGCTTTG
* * * * * * **
132251 AACCTAGAGACT-TCTTCACCCTTAAATCTGTCTGTCGACTTTAACCCTAAAGACTTTCTTA-CC
1 ACCCTAGAGACTGTC-TCA-TCTCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTTT-TTACCC
* * * *
132314 TTCAGTCTGTCTTTCAGCTTTG
63 TTAAGTCTGCCTGTCGGCTTTG
* ** * *
132336 ACCCTGGAGACTG-CTTCATCTCAAGTCTGTTTGTC-AGCTTTAACCTTGGAAACTTCTTCACCC
1 ACCCTAGAGACTGTC-TCATCTCAAGTCTGCCTGTCGA-CTTTAACCTTGGAGACTT-TTTACCC
*
132399 TTAAGTCTTCCTGTCGGCTTTG
63 TTAAGTCTGCCTGTCGGCTTTG
* * * * * ** *
132421 ACCCTGGAGACTTTCTTACCTTC-AGTCTGCCTGTC-AGCTTTGACCTTGGAGACTGCTT-CATC
1 ACCCTAGAGACTGTCTCATC-TCAAGTCTGCCTGTCGA-CTTTAACCTTGGAGACTTTTTAC-CC
*
132483 TTAAGT-TCGCCTGTCGACTTTG
63 TTAAGTCT-GCCTGTCGGCTTTG
* * * * * * *
132505 ACCTTGGAGACT-TCTTCACCCTTAAGTCTGCCTGTCGACTTTAACCCTAGAGACTTTCTTA-CT
1 ACCCTAGAGACTGTC-TCA-TCTCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTTT-TTACCC
* *
132568 TTCAGTCT-TCTGTCGGCTTTG
63 TTAAGTCTGCCTGTCGGCTTTG
* * * * *
132589 ACTCTAGAGACTGTCTCATCTCAAGTCTGTCTGTTGGCTTTAATCTTGGAGACTTTTATACCCTT
1 ACCCTAGAGACTGTCTCATCTCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTTTT-TACCCTT
**
132654 AAGTCTGCCTGTCAACTTTG
65 AAGTCTGCCTGTCGGCTTTG
* * * * * *
132674 ACCCTAGAGACTTTCTTACCTTC-AGTCTGTCTGTCGGCTTTGACCTTGGAGACTTTTTCACCCT
1 ACCCTAGAGACTGTCTCATC-TCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTTTTT-ACCCT
*
132738 TTAGTCTGCCTGTCGGCTTTG
64 TAAGTCTGCCTGTCGGCTTTG
* * * * * * * * *
132759 ACCCTACAGGCTGCCTTATCTCAAGTCTGCCTGTCAACTTTGATCTCGGAGACTTCTTCACCCTT
1 ACCCTAGAGACTGTCTCATCTCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTT-TTTACCCTT
* * *
132824 AAGTATACCTGTTGGCTTTG
65 AAGTCTGCCTGTCGGCTTTG
* * * * *
132844 ACCCTAGAGACTGCCTCATCTCAAGTCTGCCTGTTGACTTTGACCCTCGAGACTTCTTATATCCC
1 ACCCTAGAGACTGTCTCATCTCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTT-TT-TA-CCC
** *
132909 TT-AGTCTGTTTGTCAGCTTTG
63 TTAAGTCTGCCTGTCGGCTTTG
*
132930 ACCCTGGAGACT-TCCTCATCT
1 ACCCTAGAGACTGT-CTCATCT
132951 TTCGTCTACC
Statistics
Matches: 610, Mismatches: 141, Indels: 65
0.75 0.17 0.08
Matches are distributed among these distances:
82 1 0.00
83 40 0.07
84 131 0.21
85 388 0.64
86 45 0.07
87 5 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (84 bp):
ACCCTAGAGACTGTCTCATCTCAAGTCTGCCTGTCGACTTTAACCTTGGAGACTTTTTACCCTTA
AGTCTGCCTGTCGGCTTTG
Found at i:132885 original size:42 final size:42
Alignment explanation
Indices: 132105--132899 Score: 362
Period size: 42 Copynumber: 18.8 Consensus size: 42
132095 CCTTATCTTC
* * * *
132105 AGTCTGCCTGTCGACTTTGACCTTGGAAACTT-CTCCACCCTTA
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCT-CA-CCTCA
* * * * * *
132148 AGTCTGCCTATC-AGCTATGACCCTAAAAACTTTCTTACCTTCA
1 AGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTCCTCACC-TCA
* * * * *
132191 A-TCTGCTTTTCGGCTTTGACCCTAGAGACTGCCTCATCTCA
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCTCA
* * * *
132232 AGTCTGCTTGTC-AGCTTTGAACCTAGAGACTTCTTCACCCTTA
1 AGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTCCTCA-CCTCA
* * * * * *
132275 AATCTGTCTGTCGACTTTAACCCTAAAGACTTTCTTACCTTC-
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACC-TCA
* * * * * *
132317 AGTCTGTCTTTC-AGCTTTGACCCTGGAGACTGCTTCATCTCA
1 AGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTCCTCACCTCA
** * * * * * *
132359 AGTCTGTTTGTC-AGCTTTAACCTTGGAAACTTCTTCACCCTTA
1 AGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTCCTCA-CCTCA
* * * * *
132402 AGTCTTCCTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTC-
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACC-TCA
* * * * * *
132444 AGTCTGCCTGTC-AGCTTTGACCTTGGAGACTGCTTCATCTTA
1 AGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTCCTCACCTCA
* * * *
132486 AGT-TCGCCTGTCGACTTTGACCTTGGAGACTTCTTCACCCTTA
1 AGTCT-GCCTGTCGACTTTGACCCTAGAGACTTCCTCA-CCTCA
* * * *
132529 AGTCTGCCTGTCGACTTTAACCCTAGAGACTTTCTTACTTTC-
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCAC-CTCA
* * * *
132571 AGTCT-TCTGTCGGCTTTGACTCTAGAGACTGT-CTCATCTCA
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACT-TCCTCACCTCA
* * * * * * * * * *
132612 AGTCTGTCTGTTGGCTTTAATCTTGGAGACTT-TTATACCCTTA
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCT-CA-CCTCA
* * *
132655 AGTCTGCCTGTCAACTTTGACCCTAGAGACTTTCTTACCTTC-
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACC-TCA
* * * * ** **
132697 AGTCTGTCTGTCGGCTTTGACCTTGGAGACTTTTTCACCCTTT
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCA-CCTCA
* * * * * *
132740 AGTCTGCCTGTCGGCTTTGACCCTACAGGCTGCCTTATCTCA
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCTCA
* * * * *
132782 AGTCTGCCTGTCAACTTTGA-TCTCGGAGACTTCTTCACCCTTA
1 AGTCTGCCTGTCGACTTTGACCCT-AGAGACTTCCTCA-CCTCA
* * * * * *
132825 AGTATACCTGTTGGCTTTGACCCTAGAGACTGCCTCATCTCA
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCTCA
* *
132867 AGTCTGCCTGTTGACTTTGACCCTCGAGACTTC
1 AGTCTGCCTGTCGACTTTGACCCTAGAGACTTC
132900 TTATATCCCT
Statistics
Matches: 563, Mismatches: 156, Indels: 67
0.72 0.20 0.09
Matches are distributed among these distances:
40 2 0.00
41 42 0.07
42 300 0.53
43 212 0.38
44 7 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (42 bp):
AGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCTCA
Found at i:133080 original size:126 final size:126
Alignment explanation
Indices: 132921--133205 Score: 310
Period size: 126 Copynumber: 2.3 Consensus size: 126
132911 AGTCTGTTTG
* * * *
132921 TCAGCTTTGACCCTGGAGACTTCCTCATCTTTCGTCTACCTATTAGCTTAAACCTGAGAAACTTC
1 TCAGCTTAGACCCTGGAGACTTCCTCATCTTTCGTCTACCCATCAGCTTAAACCCGAGAAACTTC
*
132986 CT-AACCTTTCGTCTGCCCGTCAGCTTAGACCCGGAAAA-CTTTC-TTATCTTTCATCTGCCCA
66 CTCAACC-ATCGTCTGCCCGTCAGCTTAGACCC--AAAAGCTTTCTTTATCTTTCATCTGCCCA
* * * *
133047 TCAGCTTAGA-CCTGGAAGACTTCTTTATCTTTCGTCTACCCATCAGCTTAGACCCGAGAGACTT
1 TCAGCTTAGACCCTGG-AGACTTCCTCATCTTTCGTCTACCCATCAGCTTAAACCCGAGAAACTT
** * * * * * *
133111 TTTCATCCATCGTCTGCCCGTCGGCTTAGACCCAAAAGGTTTCTTTATCTTTCGTCTGCTCG
65 CCTCAACCATCGTCTGCCCGTCAGCTTAGACCCAAAAGCTTTCTTTATCTTTCATCTGCCCA
* * *
133173 TC-GATTTAGACTCGGGAGACTTCCTCATCTTTC
1 TCAG-CTTAGACCCTGGAGACTTCCTCATCTTTC
133206 ATTTTCCAGA
Statistics
Matches: 131, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
124 4 0.03
125 10 0.08
126 111 0.85
127 6 0.05
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (126 bp):
TCAGCTTAGACCCTGGAGACTTCCTCATCTTTCGTCTACCCATCAGCTTAAACCCGAGAAACTTC
CTCAACCATCGTCTGCCCGTCAGCTTAGACCCAAAAGCTTTCTTTATCTTTCATCTGCCCA
Found at i:133109 original size:42 final size:41
Alignment explanation
Indices: 132921--133169 Score: 187
Period size: 42 Copynumber: 5.9 Consensus size: 41
132911 AGTCTGTTTG
* * * * *
132921 TCAGCTTTGACCCTGGAGACTTCCTCATCTTTCGTCTACCTA
1 TCAGCTTAGACCC-GGAGACTTCTTTATCTTTCGTCTGCCCA
* * * * * * * *
132963 TTAGCTTAAACCTGAGAAACTTCCTAACCTTTCGTCTGCCCG
1 TCAGCTTAGACCCG-GAGACTTCTTTATCTTTCGTCTGCCCA
* *
133005 TCAGCTTAGACCCGGAAAACTT-TCTTATCTTTCATCTGCCCA
1 TCAGCTTAGACCCGG-AGACTTCT-TTATCTTTCGTCTGCCCA
* *
133047 TCAGCTTAGACCTGGAAGACTTCTTTATCTTTCGTCTACCCA
1 TCAGCTTAGACCCGG-AGACTTCTTTATCTTTCGTCTGCCCA
** *
133089 TCAGCTTAGACCCGAGAGACTT-TTTCATCCATCGTCTGCCCG
1 TCAGCTTAGACCCG-GAGACTTCTTT-ATCTTTCGTCTGCCCA
* ** **
133131 TCGGCTTAGACCCAAAAGGTTTCTTTATCTTTCGTCTGC
1 TCAGCTTAGACCC-GGAGACTTCTTTATCTTTCGTCTGC
133170 TCGTCGATTT
Statistics
Matches: 165, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
41 5 0.03
42 155 0.94
43 5 0.03
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.34
Consensus pattern (41 bp):
TCAGCTTAGACCCGGAGACTTCTTTATCTTTCGTCTGCCCA
Found at i:133111 original size:84 final size:83
Alignment explanation
Indices: 132921--133167 Score: 228
Period size: 84 Copynumber: 2.9 Consensus size: 83
132911 AGTCTGTTTG
* * * * * * *
132921 TCAGCTTTGACCCTGGAGACTTCCTCATCTTTCGTCTACCTATTAGCTTAAACCTGAGAA-ACTT
1 TCAGCTTAGACCC-GGAGACTTTCTTATCTTTCGTCTGCCCATCAGCTTAGACCTG-GAAGACTT
* * * * *
132985 CCTAACCTTTCGTCTGCCCG
64 CTTTATCTTTCGTCTACCCA
* *
133005 TCAGCTTAGACCCGGAAAACTTTCTTATCTTTCATCTGCCCATCAGCTTAGACCTGGAAGACTTC
1 TCAGCTTAGACCCGG-AGACTTTCTTATCTTTCGTCTGCCCATCAGCTTAGACCTGGAAGACTTC
133070 TTTATCTTTCGTCTACCCA
65 TTTATCTTTCGTCTACCCA
** * * *** **
133089 TCAGCTTAGACCCGAGAGACTTT-TTCATCCATCGTCTGCCCGTCGGCTTAGACCCAAAAGGTTT
1 TCAGCTTAGACCCG-GAGACTTTCTT-ATCTTTCGTCTGCCCATCAGCTTAGACCTGGAAGACTT
133153 CTTTATCTTTCGTCT
64 CTTTATCTTTCGTCT
133168 GCTCGTCGAT
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
83 7 0.05
84 126 0.94
85 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (83 bp):
TCAGCTTAGACCCGGAGACTTTCTTATCTTTCGTCTGCCCATCAGCTTAGACCTGGAAGACTTCT
TTATCTTTCGTCTACCCA
Found at i:133323 original size:42 final size:42
Alignment explanation
Indices: 132991--133436 Score: 178
Period size: 42 Copynumber: 10.6 Consensus size: 42
132981 ACTTCCTAAC
* * * * *
132991 CTTTCGTCTGCCCGTCAGCTTAGACCCG-GAAAACTTTCTTAT
1 CTTTCATCTGCACGTCGGCTTAGACCCGAG-AGACTTTCTCAT
* * * * *
133033 CTTTCATCTGCCCATCAGCTTAGACCTG-GAAGAC-TTCTTTAT
1 CTTTCATCTGCACGTCGGCTTAGACCCGAG-AGACTTTC-TCAT
* * * * * *
133075 CTTTCGTCTACCCATCAGCTTAGACCCGAGAGACTTTTTCAT
1 CTTTCATCTGCACGTCGGCTTAGACCCGAGAGACTTTCTCAT
** * * * * * *
133117 CCATCGTCTGCCCGTCGGCTTAGACCCAAAAG-GTTTCTTTAT
1 CTTTCATCTGCACGTCGGCTTAGACCCGAGAGACTTTC-TCAT
* * ** * * *
133159 CTTTCGTCTGCTCGTCGATTTAGACTCGGGAGACTTCCTCAT
1 CTTTCATCTGCACGTCGGCTTAGACCCGAGAGACTTTCTCAT
* * * *
133201 CTTTCATTTTC-CAGAT-GGCTTAGACCCGAGAGACTTTTTTAT
1 CTTTCATCTGCAC-G-TCGGCTTAGACCCGAGAGACTTTCTCAT
** * * * * * *
133243 CCATCGTTTTCCCAC-T-GGCTTAAACCTG-GCAGATTTTCTCAT
1 CTTTC-ATCT-GCACGTCGGCTTAGACCCGAG-AGACTTTCTCAT
* *
133285 CTTTCATCTGTACGTTGGCTTAGACCCGAGAGACTTTCTTCAT
1 CTTTCATCTGCACGTCGGCTTAGACCCGAGAGACTTTC-TCAT
* * * * * * *
133328 CCATT-GTCTGCCCGTCGGTTTAGACTCTAGAGATTTTCTCAT
1 -CTTTCATCTGCACGTCGGCTTAGACCCGAGAGACTTTCTCAT
* *
133370 CTTTTC-TCTGCCCGTCGGCTTAGACCCG-GCAGACTTTTTCAT
1 C-TTTCATCTGCACGTCGGCTTAGACCCGAG-AGACTTTCTCAT
* * *
133412 CTTTAATCTGCATGTTGGCTTAGAC
1 CTTTCATCTGCACGTCGGCTTAGAC
133437 TCGGAAGAGT
Statistics
Matches: 306, Mismatches: 78, Indels: 40
0.72 0.18 0.09
Matches are distributed among these distances:
40 2 0.01
41 16 0.05
42 243 0.79
43 40 0.13
44 4 0.01
45 1 0.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (42 bp):
CTTTCATCTGCACGTCGGCTTAGACCCGAGAGACTTTCTCAT
Found at i:133900 original size:44 final size:42
Alignment explanation
Indices: 133819--134238 Score: 156
Period size: 44 Copynumber: 9.8 Consensus size: 42
133809 TCCTGGTAAA
* * * * * *
133819 CTTCTTACCCTTGGTGACCTGTCGGCTTTATCTCCAGTCAAC
1 CTTCTTACCTTTGTTTACCTGTCGGCTATGTCCCCAGTCAAC
* *
133861 CATTCTTACACTTTGTTTACTTGTCGGCTATGTCCCCAGT-AAA
1 C-TTCTTAC-CTTTGTTTACCTGTCGGCTATGTCCCCAGTCAAC
* * * * * * *
133904 CTTCTTACCCTTGGTGACCTGTTGGCTTTGTCCCCGGTCAGC
1 CTTCTTACCTTTGTTTACCTGTCGGCTATGTCCCCAGTCAAC
* * *
133946 CTTTTTTACCCTTTGTTTACCTATCGGCTATGTCCCC-GAT-AAA
1 C-TTCTTA-CCTTTGTTTACCTGTCGGCTATGTCCCCAG-TCAAC
* * * * * * * *
133989 CTTTTTACCCCTTGGTGACCTATCGGCTTTAT-CCCAGGTCAGC
1 CTTCTTA-CCTTTGTTTACCTGTCGGCTATGTCCCCA-GTCAAC
* * ** *
134032 CTTTCTTACCCTTTGTTTACCTGTCGACTATGTCTCC-GGAAAA
1 C-TTCTTA-CCTTTGTTTACCTGTCGGCTATGTCCCCAGTCAAC
* * * * * * * *
134075 CTTTTTACCCCTTGATGACCTGTCGGTTTTGTCCTCGGTCAAC
1 CTTCTTA-CCTTTGTTTACCTGTCGGCTATGTCCCCAGTCAAC
* * * * *
134118 CTTTCTTACCCTTTGTTTATCTATCGACTATGTCCTC-GAT-AAA
1 C-TTCTTA-CCTTTGTTTACCTGTCGGCTATGTCCCCAG-TCAAC
* * * * *
134161 CTTCTT-CTCTATTGGTGACCTATCGACTTTGTCCCC-GATCAAC
1 CTTCTTAC-CT-TTGTTTACCTGTCGGCTATGTCCCCAG-TCAAC
**
134204 CTTTCTTACCATTTGTTTACCTGTCAACTATGTCC
1 C-TTCTTACC-TTTGTTTACCTGTCGGCTATGTCC
134239 TCGGTAAATT
Statistics
Matches: 279, Mismatches: 79, Indels: 38
0.70 0.20 0.10
Matches are distributed among these distances:
40 1 0.00
41 28 0.10
42 91 0.33
43 35 0.13
44 120 0.43
45 4 0.01
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.39
Consensus pattern (42 bp):
CTTCTTACCTTTGTTTACCTGTCGGCTATGTCCCCAGTCAAC
Found at i:134010 original size:42 final size:43
Alignment explanation
Indices: 133884--134213 Score: 172
Period size: 42 Copynumber: 7.7 Consensus size: 43
133874 TGTTTACTTG
* *
133884 TCGGCTATGTCCCC-AGT-AAACTTCTTA-CCCTTGGTGACCTG
1 TCGGCTATGTCCCCGA-TCAAACTTTTTACCCCTTGGTGACCTA
* * * ** * * *
133925 TTGGCTTTGTCCCCGGTCAGCCTTTTTTACCCTTTGTTTACCTA
1 TCGGCTATGTCCCCGATCAAAC-TTTTTACCCCTTGGTGACCTA
133969 TCGGCTATGTCCCCGAT-AAACTTTTTACCCCTTGGTGACCTA
1 TCGGCTATGTCCCCGATCAAACTTTTTACCCCTTGGTGACCTA
* * * * ** * * * *
134011 TCGGCTTTATCCCAGGTCAGCCTTTCTTACCCTTTGTTTACCTG
1 TCGGCTATGTCCCCGATCAAACTTT-TTACCCCTTGGTGACCTA
* * * *
134055 TCGACTATGTCTCCGGA--AAACTTTTTACCCCTTGATGACCTG
1 TCGGCTATGTC-CCCGATCAAACTTTTTACCCCTTGGTGACCTA
* * * * * * * * *
134097 TCGGTTTTGTCCTCGGTCAACCTTTCTTACCCTTTGTTTATCTA
1 TCGGCTATGTCCCCGATCAAACTTT-TTACCCCTTGGTGACCTA
* * * **
134141 TCGACTATGTCCTCGAT-AAACTTCTT-CTCTATTGGTGACCTA
1 TCGGCTATGTCCCCGATCAAACTTTTTAC-CCCTTGGTGACCTA
* * *
134183 TCGACTTTGTCCCCGATCAACCTTTCTTACC
1 TCGGCTATGTCCCCGATCAAACTTT-TTACC
134214 ATTTGTTTAC
Statistics
Matches: 210, Mismatches: 65, Indels: 25
0.70 0.22 0.08
Matches are distributed among these distances:
41 16 0.08
42 82 0.39
43 33 0.16
44 75 0.36
45 4 0.02
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.38
Consensus pattern (43 bp):
TCGGCTATGTCCCCGATCAAACTTTTTACCCCTTGGTGACCTA
Found at i:134043 original size:86 final size:86
Alignment explanation
Indices: 133815--134279 Score: 494
Period size: 86 Copynumber: 5.4 Consensus size: 86
133805 CCAATCCTGG
* *
133815 TAAACTTCTTA-CCCTTGGTGACCTGTCGGCTTTATCTCCA-GTCAACCATTCTTACACTTTGTT
1 TAAACTTCTTACCCCTTGGTGACCTGTCGGCTTTATC-CCAGGTCAACCTTTCTTACCCTTTGTT
* *
133878 TACTTGTCGGCTATGTCCCC-A
65 TACCTGTCGACTATGTCCCCGA
* * * * *
133899 GTAAACTTCTTA-CCCTTGGTGACCTGTTGGCTTTGTCCCCGGTCAGCCTTTTTTACCCTTTGTT
1 -TAAACTTCTTACCCCTTGGTGACCTGTCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTT
* *
133963 TACCTATCGGCTATGTCCCCGA
65 TACCTGTCGACTATGTCCCCGA
* * *
133985 TAAACTTTTTACCCCTTGGTGACCTATCGGCTTTATCCCAGGTCAGCCTTTCTTACCCTTTGTTT
1 TAAACTTCTTACCCCTTGGTGACCTGTCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTTT
*
134050 ACCTGTCGACTATGTCTCCGGA
66 ACCTGTCGACTATGTC-CCCGA
* * * *
134072 -AAACTTTTTACCCCTTGATGACCTGTCGGTTTTGTCCTC-GGTCAACCTTTCTTACCCTTTGTT
1 TAAACTTCTTACCCCTTGGTGACCTGTCGGCTTTATCC-CAGGTCAACCTTTCTTACCCTTTGTT
* * *
134135 TATCTATCGACTATGTCCTCGA
65 TACCTGTCGACTATGTCCCCGA
** * * * * * *
134157 TAAACTTCTT-CTCTATTGGTGACCTATCGACTTTGTCCCCGATCAACCTTTCTTACCATTTGTT
1 TAAACTTCTTAC-CCCTTGGTGACCTGTCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTT
* * *
134221 TACCTGTCAACTATGTCCTCGG
65 TACCTGTCGACTATGTCCCCGA
* * ** *
134243 TAAATTTCTTACTCCTAAGTGACCTGTCAGCTTTATC
1 TAAACTTCTTACCCCTTGGTGACCTGTCGGCTTTATC
134280 TCTAATTAAC
Statistics
Matches: 321, Mismatches: 50, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
84 2 0.01
85 86 0.27
86 227 0.71
87 6 0.02
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.39
Consensus pattern (86 bp):
TAAACTTCTTACCCCTTGGTGACCTGTCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTTT
ACCTGTCGACTATGTCCCCGA
Found at i:134178 original size:172 final size:171
Alignment explanation
Indices: 133815--134238 Score: 548
Period size: 172 Copynumber: 2.5 Consensus size: 171
133805 CCAATCCTGG
* * *
133815 TAAACTTCTTACCC-TTGGTGACCTGTCGGCTTTATCTCCA-GTCAACCATTCTTACACTTTGTT
1 TAAACTTCTTACCCATTGGTGACCTATCGGCTTTATC-CCAGGTCAACCTTTCTTACCCTTTGTT
* * * * *
133878 TACTTGTCGGCTATGTCCCCAGTAAACTTCTTACCCTTGGTGACCTGTTGGCTTTGTCCCCGGTC
65 TACCTGTCGACTATGTCCCCAGAAAACTTCTTACCCTTGATGACCTGTCGGCTTTGTCCCCGGTC
* * *
133943 AGCCTTTTTTACCCTTTGTTTACCTATCGGCTATGTCCCCGA
130 AACCTTTCTTACCCTTTGTTTACCTATCGACTATGTCCCCGA
* * *
133985 TAAACTTTTTACCCCTTGGTGACCTATCGGCTTTATCCCAGGTCAGCCTTTCTTACCCTTTGTTT
1 TAAACTTCTTACCCATTGGTGACCTATCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTTT
* * * * *
134050 ACCTGTCGACTATGTCTCCGGAAAACTTTTTACCCCTTGATGACCTGTCGGTTTTGTCCTCGGTC
66 ACCTGTCGACTATGTCCCCAGAAAACTTCTTA-CCCTTGATGACCTGTCGGCTTTGTCCCCGGTC
* *
134115 AACCTTTCTTACCCTTTGTTTATCTATCGACTATGTCCTCGA
130 AACCTTTCTTACCCTTTGTTTACCTATCGACTATGTCCCCGA
* * * * * *
134157 TAAACTTCTT-CTCTATTGGTGACCTATCGACTTTGTCCCCGATCAACCTTTCTTACCATTTGTT
1 TAAACTTCTTAC-CCATTGGTGACCTATCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTT
*
134221 TACCTGTCAACTATGTCC
65 TACCTGTCGACTATGTCC
134239 TCGGTAAATT
Statistics
Matches: 219, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
170 16 0.07
171 69 0.32
172 134 0.61
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.39
Consensus pattern (171 bp):
TAAACTTCTTACCCATTGGTGACCTATCGGCTTTATCCCAGGTCAACCTTTCTTACCCTTTGTTT
ACCTGTCGACTATGTCCCCAGAAAACTTCTTACCCTTGATGACCTGTCGGCTTTGTCCCCGGTCA
ACCTTTCTTACCCTTTGTTTACCTATCGACTATGTCCCCGA
Found at i:134979 original size:8 final size:8
Alignment explanation
Indices: 134968--135014 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
134958 TAATTAATTA
134968 AAAATAAT
1 AAAATAAT
134976 AAAATAAT
1 AAAATAAT
134984 ACAAATAAT
1 A-AAATAAT
*
134993 AAAAAAAT
1 AAAATAAT
135001 AAAA-AAT
1 AAAATAAT
*
135008 GAAATAA
1 AAAATAA
135015 AGATGATGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 6 0.17
8 21 0.60
9 8 0.23
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAATAAT
Found at i:134991 original size:17 final size:16
Alignment explanation
Indices: 134968--135014 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
134958 TAATTAATTA
134968 AAAATAATAAAATAAT
1 AAAATAATAAAATAAT
*
134984 ACAAATAATAAAAAAAT
1 A-AAATAATAAAATAAT
*
135001 AAAA-AATGAAATAA
1 AAAATAATAAAATAA
135015 AGATGATGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.30
16 4 0.15
17 15 0.56
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAATAAT
Found at i:135013 original size:20 final size:21
Alignment explanation
Indices: 134969--135015 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
134959 AATTAATTAA
*
134969 AAATAATAAAATAATACAAAT
1 AAATAAAAAAATAATACAAAT
134990 -AATAAAAAAATAA-A-AAAT
1 AAATAAAAAAATAATACAAAT
135008 GAAATAAA
1 -AAATAAA
135016 GATGATGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 1 0.04
20 18 0.78
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
AAATAAAAAAATAATACAAAT
Found at i:136366 original size:21 final size:21
Alignment explanation
Indices: 136340--136392 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
136330 AGAAAAATAG
136340 CACCACC-CGCAGCAGCGGCAC
1 CACCACCAC-CAGCAGCGGCAC
* *
136361 CACCACCACCCGCAGCGGCAG
1 CACCACCACCAGCAGCGGCAC
136382 CACCACCACCA
1 CACCACCACCA
136393 CCAACAGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.55, G:0.19, T:0.00
Consensus pattern (21 bp):
CACCACCACCAGCAGCGGCAC
Found at i:136370 original size:24 final size:24
Alignment explanation
Indices: 136340--136403 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
136330 AGAAAAATAG
*
136340 CACCACCCGCAGCAGCGGCACCAC
1 CACCACCCGCAGCAGCAGCACCAC
*
136364 CACCACCCGCAGCGGCAGCACCAC
1 CACCACCCGCAGCAGCAGCACCAC
**
136388 CACCACCAACAGCAGC
1 CACCACCCGCAGCAGC
136404 TGAAGATAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.53, G:0.19, T:0.00
Consensus pattern (24 bp):
CACCACCCGCAGCAGCAGCACCAC
Found at i:136402 original size:21 final size:21
Alignment explanation
Indices: 136361--136403 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
136351 GCAGCGGCAC
* *
136361 CACCACCACCCGCAGCGGCAG
1 CACCACCACCCGCAACAGCAG
136382 CACCACCACCAC-CAACAGCAG
1 CACCACCACC-CGCAACAGCAG
136403 C
1 C
136404 TGAAGATAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.53, G:0.16, T:0.00
Consensus pattern (21 bp):
CACCACCACCCGCAACAGCAG
Found at i:138083 original size:156 final size:158
Alignment explanation
Indices: 137908--138216 Score: 398
Period size: 156 Copynumber: 2.0 Consensus size: 158
137898 ATTTTCGTAA
* *
137908 TTTTTAAAACCAAGTCCTAAGTTGTCA-TCAAGTCCGCTTTCATGCCGAATGTGAGTATTTAGGA
1 TTTTTAAAACCAAGTCCTAAGTTGTCACT-AAGTCCGCTTTCATACCGAAGGTGAGTATTTAGGA
* *
137972 TAGGTTCA-CTCC-TTTTATAGTCCTTTTAAAGTCCTTTAAGGG-T-ATCA-GATACTTTTACGT
65 TAGGTTCATC-CCATTTTATAATCCTTTT-AAGTCCTTT-AGGGCTGCT-AGGATACTTTTACGT
*
138032 CGAAGGTAT-CCCTTTGGGGCATTTTCGTTTTT
126 CGAAGGTATACCCTTAGGGGCATTTTCGTTTTT
* * * * * *
138064 TTTTTAGAACCAAGTCCTAAGTTGTCACTAGGTTCGCTTTTATATCGAAGGTGGGTATTTAGGAT
1 TTTTTAAAACCAAGTCCTAAGTTGTCACTAAGTCCGCTTTCATACCGAAGGTGAGTATTTAGGAT
*
138129 AGGTTCATCCCATTTTTATAATCCTTTTAAGTCCTTTAGGGCTGCTAGGATACTTTTTCGTCGAA
66 AGGTTCATCCCA-TTTTATAATCCTTTTAAGTCCTTTAGGGCTGCTAGGATACTTTTACGTCGAA
*
138194 GGTATACCCTTAGTGGCATTTTC
130 GGTATACCCTTAGGGGCATTTTC
138217 ATAATTTTTC
Statistics
Matches: 132, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
156 68 0.52
157 13 0.10
158 36 0.27
159 15 0.11
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (158 bp):
TTTTTAAAACCAAGTCCTAAGTTGTCACTAAGTCCGCTTTCATACCGAAGGTGAGTATTTAGGAT
AGGTTCATCCCATTTTATAATCCTTTTAAGTCCTTTAGGGCTGCTAGGATACTTTTACGTCGAAG
GTATACCCTTAGGGGCATTTTCGTTTTT
Found at i:139709 original size:97 final size:97
Alignment explanation
Indices: 139560--139748 Score: 260
Period size: 97 Copynumber: 1.9 Consensus size: 97
139550 CTAATAAAAT
* * *
139560 TAATCTTGAAATCTGAATGATGCGACAGATGCATAAGATATCAGATTCCTTCT-GACACGATAGA
1 TAATCTTGAAATCTGAAAGATGCGACAAATGCATAAGATATAAGATTCCTTCTAG-CACGATAGA
139624 AAATATTTAACTAATAT-CTAATAAATTTAATGA
65 AAATATTTAACTAAT-TCCTAATAAATTTAATGA
* * *
139657 TAATCTTGAAA-CTCGAAAGATGTGACAAATGCAT-GGAGTATAAGATTCCTTCTAGCATGATAG
1 TAATCTTGAAATCT-GAAAGATGCGACAAATGCATAAGA-TATAAGATTCCTTCTAGCACGATAG
139720 AAAATATTTAACTAATTCCTAATAAATTT
64 AAAATATTTAACTAATTCCTAATAAATTT
139749 CTTAGAACTC
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
96 5 0.06
97 76 0.93
98 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (97 bp):
TAATCTTGAAATCTGAAAGATGCGACAAATGCATAAGATATAAGATTCCTTCTAGCACGATAGAA
AATATTTAACTAATTCCTAATAAATTTAATGA
Found at i:139897 original size:89 final size:87
Alignment explanation
Indices: 139660--140011 Score: 332
Period size: 88 Copynumber: 4.0 Consensus size: 87
139650 TTAATGATAA
* * * * * * * * *
139660 TCTTGAAACTCGAAAGATGTGACAAATGCATGGAGTATAAGATTCCTTCT-AGCATGATAGAAAA
1 TCTTGGAACTCAAAAGATGTGATAGAT-CATGGGGTATCAGATTCCTTTTGA-CAAGACAGAAAA
* *
139724 TATTTAACTAATTCCTAATAAATT
64 TATTTGACTAATGCCTAATAAATT
* * * * * *
139748 TCTTAGAACTCAAAAGATGTGACACATACATGGGGTATCAGATTCCTTCTGACCCA-ACAGAAAT
1 TCTTGGAACTCAAAAGATGTGATAGAT-CATGGGGTATCAGATTCCTTTTGA-CAAGACAGAAAA
* *
139812 TATTTGACTAATGCTTAATGAATTT
64 TATTTGACTAATGCCTAAT-AAATT
* * * *
139837 TTTTGGAACCCAAAAGATGAGATAGATGCATGGGGTATCAGATTCTTTTTGACAAGACAGAAAAT
1 TCTTGGAACTCAAAAGATGTGATAGAT-CATGGGGTATCAGATTCCTTTTGACAAGACAGAAAAT
* *
139902 ATTTGATTAACGCCTAATAAATT
65 ATTTGACTAATGCCTAATAAATT
* * * * * * *
139925 TCTTGAAACTCGAAAGATGTGATAG-TCATGGGATATCATATTCCTTTTGATACGATAGAAAATA
1 TCTTGGAACTCAAAAGATGTGATAGATCATGGGGTATCAGATTCCTTTTGACAAGACAGAAAATA
*
139989 TTTGACTAATGCCTGATAAATT
66 TTTGACTAATGCCTAATAAATT
140011 T
1 T
140012 AATCTAAAAA
Statistics
Matches: 216, Mismatches: 45, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
86 52 0.24
87 1 0.00
88 91 0.42
89 72 0.33
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (87 bp):
TCTTGGAACTCAAAAGATGTGATAGATCATGGGGTATCAGATTCCTTTTGACAAGACAGAAAATA
TTTGACTAATGCCTAATAAATT
Found at i:143627 original size:2 final size:2
Alignment explanation
Indices: 143620--143650 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
143610 GGAACTTTAA
143620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
143651 AACCATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:151449 original size:3 final size:3
Alignment explanation
Indices: 151441--151491 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
151431 TAATTACACA
151441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
151488 AAT A
1 AAT A
151492 GTAACAAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:152332 original size:8 final size:8
Alignment explanation
Indices: 152300--152360 Score: 59
Period size: 8 Copynumber: 7.2 Consensus size: 8
152290 TTAGTTGCAA
152300 AGTTTGTT
1 AGTTTGTT
*
152308 AAGTTGGTT
1 -AGTTTGTT
152317 ATGTTTGTT
1 A-GTTTGTT
152326 AGTTTGTT
1 AGTTTGTT
**
152334 AGTTAATT
1 AGTTTGTT
*
152342 AGTTTGTC
1 AGTTTGTT
152350 AGTTTTGTT
1 AG-TTTGTT
152359 AG
1 AG
152361 ATATGATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 21 0.50
9 21 0.50
ACGTcount: A:0.18, C:0.02, G:0.25, T:0.56
Consensus pattern (8 bp):
AGTTTGTT
Found at i:154703 original size:8 final size:8
Alignment explanation
Indices: 154692--154717 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
154682 AATTCAAAAC
154692 AATTTTAA
1 AATTTTAA
154700 AATTTTAA
1 AATTTTAA
154708 AATTTTAA
1 AATTTTAA
154716 AA
1 AA
154718 AGCTTTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:154905 original size:54 final size:54
Alignment explanation
Indices: 154823--154928 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
154813 CATATCCATA
* *
154823 TTGCATAGCCGTGTTTCCTAGCCCCATACAATTTTCTGTAGTGTTACTGCTATG
1 TTGCATAGCCATGTTTCCGAGCCCCATACAATTTTCTGTAGTGTTACTGCTATG
*
154877 TTGCATAGCCATGTTTCCGAGCCCCATACAATTTTCTGTAGTTTTACTGCTA
1 TTGCATAGCCATGTTTCCGAGCCCCATACAATTTTCTGTAGTGTTACTGCTA
154929 GTCATGAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (54 bp):
TTGCATAGCCATGTTTCCGAGCCCCATACAATTTTCTGTAGTGTTACTGCTATG
Found at i:160725 original size:18 final size:16
Alignment explanation
Indices: 160702--160739 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
160692 CTATATGTTG
160702 TTTTTCTTTTCTTTTCTT
1 TTTTTCTTTT-TTTT-TT
160720 TTTTTCTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
160736 TTTT
1 TTTT
160740 CTATGTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTT
Done.