Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3056.1
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: 165774
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:4833 original size:52 final size:52
Alignment explanation
Indices: 4755--4858 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
4745 CATAAATAGC
*
4755 ACAATTTATGATAGTGATTAATCATTCCTATGGCTAATCCTTGTCAAGCATA
1 ACAATTTATGATAGTGATTAACCATTCCTATGGCTAATCCTTGTCAAGCATA
4807 ACAATTTATGATAGTGATTAACCATTCCTATGGCTAATCCTTGTCAAGCATA
1 ACAATTTATGATAGTGATTAACCATTCCTATGGCTAATCCTTGTCAAGCATA
4859 TCCACACCGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (52 bp):
ACAATTTATGATAGTGATTAACCATTCCTATGGCTAATCCTTGTCAAGCATA
Found at i:5557 original size:79 final size:81
Alignment explanation
Indices: 5455--5638 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
5445 GCTCCTCGTT
* *
5455 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
5517 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
5535 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
5599 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
5615 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5639 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:5572 original size:39 final size:41
Alignment explanation
Indices: 5455--5638 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
5445 GCTCCTCGTT
* *
5455 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
5495 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
5535 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
5574 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
5615 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5639 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:13159 original size:40 final size:39
Alignment explanation
Indices: 13061--13283 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
13051 TCCTCGTTCA
* * ** * *
13061 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
13100 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
13139 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
* **
13179 GAATGCCTTCGGGACTTAACCTGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
13219 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
13260 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13284 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 39 0.25
40 106 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:13283 original size:120 final size:119
Alignment explanation
Indices: 13061--13283 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 119
13051 TCCTCGTTCA
* * *
13061 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
13126 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * * *
13180 AATGCCTTCGGGACTTAACCTGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
13244 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
13284 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:23341 original size:13 final size:13
Alignment explanation
Indices: 23323--23351 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23313 TTATTCGATA
23323 TTAGTTGTGAATT
1 TTAGTTGTGAATT
23336 TTAGTTGTGAATT
1 TTAGTTGTGAATT
23349 TTA
1 TTA
23352 TGCTCCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (13 bp):
TTAGTTGTGAATT
Found at i:24778 original size:54 final size:54
Alignment explanation
Indices: 24719--24858 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
24709 CATAGTCCCA
* *
24719 GACTAGGTCTTACACAATGTGGTCTTCATTACCCT-ATATGATGCCACAGCAAAC
1 GACTAGGCCTTACACTATGTGGTCTTC-TTACCCTCATATGATGCCACAGCAAAC
** * * *
24773 GACTAGGCCTTACACTATGTGGTCTTCTTTTCCTCGTATGATGCCATAGCAAAT
1 GACTAGGCCTTACACTATGTGGTCTTCTTACCCTCATATGATGCCACAGCAAAC
* *
24827 GGCTAGGCCTTACACTATATGGTCTTCTTACC
1 GACTAGGCCTTACACTATGTGGTCTTCTTACC
24859 ATGGCCATGG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 5 0.07
54 69 0.93
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (54 bp):
GACTAGGCCTTACACTATGTGGTCTTCTTACCCTCATATGATGCCACAGCAAAC
Found at i:35727 original size:18 final size:18
Alignment explanation
Indices: 35704--35738 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35694 AACTTAATTC
* *
35704 ATTTATACATATTTAATA
1 ATTTATAAATACTTAATA
35722 ATTTATAAATACTTAAT
1 ATTTATAAATACTTAAT
35739 GATTACACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATAAATACTTAATA
Found at i:40032 original size:46 final size:45
Alignment explanation
Indices: 39862--40032 Score: 161
Period size: 47 Copynumber: 3.7 Consensus size: 45
39852 ACTTGTGTGA
* * ** * *
39862 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATAAGACGAGT
*
39908 GCCT-GTGTAAGACCATGTCTGGGAAATGGCATCGGCATTAAGACGAGT
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-TAAGACGAGT
*
39956 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-TACGA-GATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGACGA-GT
40000 G-TCAGTGTAAGACTATGTCTGGGACATCGCATC
1 GCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATC
40033 AGCACAGATA
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 3 0.03
44 17 0.16
45 13 0.12
46 22 0.21
47 31 0.29
48 21 0.20
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGACGAGT
Found at i:47734 original size:34 final size:34
Alignment explanation
Indices: 47691--47793 Score: 136
Period size: 34 Copynumber: 3.0 Consensus size: 34
47681 ATGTAGTTTG
47691 GATACTGTTACTGTATTGGGCTAAGGCCCACACT
1 GATACTGTTACTGTATTGGGCTAAGGCCCACACT
*
47725 GATACTGTTACTGTATTGGGCTAATGCCCACACT
1 GATACTGTTACTGTATTGGGCTAAGGCCCACACT
* * * * *
47759 GATATTGTGACTG-ATATAGGCTTAGGCCCAGACT
1 GATACTGTTACTGTAT-TGGGCTAAGGCCCACACT
47793 G
1 G
47794 TTCAACGCTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 2 0.03
34 59 0.97
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (34 bp):
GATACTGTTACTGTATTGGGCTAAGGCCCACACT
Found at i:54687 original size:55 final size:55
Alignment explanation
Indices: 54593--54703 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
54583 GAATTGTTAG
* *
54593 TGTAACACCCCTAACCCGTATCCATCGCCAAAATAGGGTTACGAGGCATTACCGA
1 TGTAACACCCCTAACCCATACCCATCGCCAAAATAGGGTTACGAGGCATTACCGA
* ** *
54648 TGTAACACCCCTAACCCATACCCGTCGCCGGAATGGGGTTACGAGGCATTACCGA
1 TGTAACACCCCTAACCCATACCCATCGCCAAAATAGGGTTACGAGGCATTACCGA
54703 T
1 T
54704 CATAAAACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.20
Consensus pattern (55 bp):
TGTAACACCCCTAACCCATACCCATCGCCAAAATAGGGTTACGAGGCATTACCGA
Found at i:61567 original size:27 final size:27
Alignment explanation
Indices: 61537--61589 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
61527 GCATTTTACC
61537 CTACAAGGGTATTTCAGTAATCCTACT
1 CTACAAGGGTATTTCAGTAATCCTACT
* **
61564 CTACAGGGGTATTTTTGTAATCCTAC
1 CTACAAGGGTATTTCAGTAATCCTAC
61590 CCCAAAGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
CTACAAGGGTATTTCAGTAATCCTACT
Found at i:61598 original size:27 final size:27
Alignment explanation
Indices: 61543--61630 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
61533 TACCCTACAA
* * * *
61543 GGGTATTTCAGTAATCCTACTCTACAG
1 GGGTATTTTAGTAATCCTACCCCAAAG
*
61570 GGGTATTTTTGTAATCCTACCCCAAAG
1 GGGTATTTTAGTAATCCTACCCCAAAG
* *
61597 GGGT-TTTTCGATAATCCTACCCCATAG
1 GGGTATTTTAG-TAATCCTACCCCAAAG
*
61624 AGGTATT
1 GGGTATT
61631 CCGATAATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.10
27 44 0.86
28 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGGTATTTTAGTAATCCTACCCCAAAG
Found at i:61635 original size:27 final size:27
Alignment explanation
Indices: 61581--61638 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
61571 GGTATTTTTG
* * *
61581 TAATCCTACCCCAAAGGGGTTTTTCGA
1 TAATCCTACCCCAAAGAGGTATTCCGA
*
61608 TAATCCTACCCCATAGAGGTATTCCGA
1 TAATCCTACCCCAAAGAGGTATTCCGA
61635 TAAT
1 TAAT
61639 TTCACAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (27 bp):
TAATCCTACCCCAAAGAGGTATTCCGA
Found at i:61655 original size:27 final size:27
Alignment explanation
Indices: 61625--61870 Score: 220
Period size: 27 Copynumber: 9.1 Consensus size: 27
61615 ACCCCATAGA
* *
61625 GGTATTCCGATAATTTCACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
61652 GGTATTTCGATAATTTCACAAATC-AG
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
61678 GGATATTTCAATAACTTTACAAGTC-AGG
1 GG-TATTTCGATAATTTTACAAATCGA-G
61706 GGTATTTCGATAATTTTACAAATC-AGG
1 GGTATTTCGATAATTTTACAAATCGA-G
* *
61733 GGTATTTC-AGTAATTTTACAAGTTTG-G
1 GGTATTTCGA-TAATTTTACAA-ATCGAG
* * *
61760 GGTATTTCGATAATTTTACAACTTGTG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
61787 GGTATTT-TAGTAATTTTACAAATCGGG
1 GGTATTTCGA-TAATTTTACAAATCGAG
* *
61814 GGTATTTCGGTAATTTTACAAAT-TAGG
1 GGTATTTCGATAATTTTACAAATCGA-G
*
61841 GGTATTT-TAGTAATTTTACAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
61868 GGT
1 GGT
61871 CTTAATGACC
Statistics
Matches: 185, Mismatches: 22, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.05
27 170 0.92
28 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:61728 original size:81 final size:81
Alignment explanation
Indices: 61625--61861 Score: 266
Period size: 81 Copynumber: 2.9 Consensus size: 81
61615 ACCCCATAGA
* * * * *
61625 GGTATTCCGATAATTTCACAAATCGAGGGTATTTCGATAATTTCACAAATCAGGGATATTTCAAT
1 GGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTAGGGGTATTTCAAT
* *
61690 AACTTTACAAGTCAG-G
66 AATTTTACAACT-AGTG
* * *
61706 GGTATTTCGATAATTTTACAAATC-AGGGGTATTTC-AGTAATTTTACAAGTTTGGGGTATTTCG
1 GGTATTTCGATAATTTTACAAATCGA-GGGTATTTCGA-TAATTTTACAAATTAGGGGTATTTCA
*
61769 ATAATTTTACAACTTGTG
64 ATAATTTTACAACTAGTG
* * * * *
61787 GGTATTT-TAGTAATTTTACAAATCGGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTAG
1 GGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTAGGGGTATTTCAA
61851 TAATTTTACAA
65 TAATTTTACAA
61862 ATCGAGGGTC
Statistics
Matches: 131, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.03
81 127 0.97
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (81 bp):
GGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTAGGGGTATTTCAAT
AATTTTACAACTAGTG
Found at i:61862 original size:54 final size:54
Alignment explanation
Indices: 61635--61870 Score: 294
Period size: 54 Copynumber: 4.4 Consensus size: 54
61625 GGTATTCCGA
* * * * *
61635 TAATTTCACAAATCGAGGGTATTTCGATAATTTCACAAATCAGGGATATTTCAA
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAG
* * *
61689 TAACTTTACAAGTCAGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAG
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAG
* ** * * *
61743 TAATTTTACAAGTTTGGGGTATTTCGATAATTTTACAACT-TGTGGGTATTTTAG
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCAG-GGGTATTTCAG
* * *
61797 TAATTTTACAAATCGGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTAG
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAG
*
61851 TAATTTTACAAATCGAGGGT
1 TAATTTTACAAATCGGGGGT
61871 CTTAATGACC
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 157 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAG
Found at i:65569 original size:22 final size:23
Alignment explanation
Indices: 65544--65594 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
65534 TTTGGCATAC
*
65544 AGCCATATTCAA-GATGGCACGG
1 AGCCATATTCAAGGATGGCACAG
* *
65566 AGCCAT-TTTAAGGTTGGCACAG
1 AGCCATATTCAAGGATGGCACAG
65588 AGCCATA
1 AGCCATA
65595 ATTAGATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
AGCCATATTCAAGGATGGCACAG
Found at i:66278 original size:70 final size:70
Alignment explanation
Indices: 66202--66341 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
66192 AATATCAAAC
66202 ATGATCTAAATTAGCCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACATGGCCA
1 ATGATCTAAATTAGCCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACATGGCCA
66267 TATCA
66 TATCA
*
66272 ATGATCTAAATTAGCCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAATCATGGCCA
1 ATGATCTAAATTAGCCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACATGGCCA
66337 TATCA
66 TATCA
66342 TAAAATTATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (70 bp):
ATGATCTAAATTAGCCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACATGGCCA
TATCA
Found at i:66618 original size:19 final size:20
Alignment explanation
Indices: 66594--66631 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66584 GGTACCACCA
66594 AAACAT-ATATCAT-ATCTTT
1 AAACATCAT-TCATCATCTTT
66613 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66632 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66923 original size:46 final size:46
Alignment explanation
Indices: 66856--67120 Score: 209
Period size: 46 Copynumber: 5.7 Consensus size: 46
66846 AACCCGCCCC
*
66856 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTCCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTCCGCATCCA
* * * *
66902 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG-CCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTCC--GCATCCA
* * * *
66948 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTCCGCATCCA
* * * * *
66995 TAAATGAACTCGGACTCAACTCAACGAGTTCAGATG-CCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTCC--GCATCCA
* * * *** **
67041 TTTCA-TGACCTCGGACTCAACTCTACGAGTTCGGACATTTGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTCCGCATCCA
*
67088 TAATTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
67121 ATGCTCAACC
Statistics
Matches: 171, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
45 7 0.04
46 96 0.56
47 63 0.37
48 5 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTCCGCATCCA
Found at i:66968 original size:93 final size:93
Alignment explanation
Indices: 66861--67124 Score: 411
Period size: 93 Copynumber: 2.8 Consensus size: 93
66851 GCCCCTAAGT
* * * *
66861 GAACTCGGACTCAACTCAACGAGCTCGGGTGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
66926 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
66954 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
67019 CGAGTTCAGATGCCTAGTTACATTTCAT
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * *
67047 GACCTCGGACTCAACTCTACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
67112 CGAGTTCGGATGC
66 CGAGTTCGGATGC
67125 TCAACCATCC
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:67580 original size:30 final size:30
Alignment explanation
Indices: 67546--67605 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
67536 ATTTAATACG
* *
67546 AACTTTGGTAAAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
67576 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
67606 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:74138 original size:68 final size:68
Alignment explanation
Indices: 74054--74187 Score: 259
Period size: 68 Copynumber: 2.0 Consensus size: 68
74044 TCCATAATAT
74054 CAAACATGATCTAAATTAGACATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACAT
1 CAAACATGATCTAAATTAGACATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACAT
74119 GCG
66 GCG
*
74122 CAAACATGATCTAAATTAGACATCACCATGACTTATCAATATCAAACATTTTCTCAACCAATCAT
1 CAAACATGATCTAAATTAGACATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACAT
74187 G
66 G
74188 GCCATATCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.28
Consensus pattern (68 bp):
CAAACATGATCTAAATTAGACATCACCATGACTTATCAATATCAAACATTTTCTCAACCAAACAT
GCG
Found at i:74473 original size:19 final size:20
Alignment explanation
Indices: 74449--74486 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
74439 GGTACCACCA
74449 AAACAT-ATATCAT-ATCTTT
1 AAACATCAT-TCATCATCTTT
74468 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
74487 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:74615 original size:47 final size:47
Alignment explanation
Indices: 74556--74910 Score: 408
Period size: 47 Copynumber: 7.6 Consensus size: 47
74546 ATCCATAATT
74556 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
74603 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAATT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TTCA-C
74649 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
74696 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAATT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TTCA-C
74742 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * ** *
74789 GAACTCGGACTCAACTCAACGAGTTCGG--GCGTTCGCATCCA-TAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAG-TTACATTTCAC
74835 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
74882 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
74911 CATTTGCATC
Statistics
Matches: 255, Mismatches: 34, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
43 12 0.05
44 2 0.01
45 6 0.02
46 93 0.36
47 122 0.48
48 6 0.02
49 2 0.01
50 12 0.05
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:74685 original size:93 final size:93
Alignment explanation
Indices: 74526--74959 Score: 832
Period size: 93 Copynumber: 4.7 Consensus size: 93
74516 AACCCGAGGA
74526 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
74591 GTTACATTTCACGAACTCGGACTCAACT
66 GTTACATTTCACGAACTCGGACTCAACT
74619 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
74684 GTTACATTTCACGAACTCGGACTCAACT
66 GTTACATTTCACGAACTCGGACTCAACT
74712 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
74777 GTTACATTTCACGAACTCGGACTCAACT
66 GTTACATTTCACGAACTCGGACTCAACT
* * * *
74805 CAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
74870 GTTACATTTCACGAACTCGGACTCAACT
66 GTTACATTTCACGAACTCGGACTCAACT
74898 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGC
74960 TCAACCATCC
Statistics
Matches: 333, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 333 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (93 bp):
CAACGAGTTCGGACATTTGCATCCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
GTTACATTTCACGAACTCGGACTCAACT
Found at i:75416 original size:30 final size:30
Alignment explanation
Indices: 75382--75442 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
75372 CATTTAATAC
*
75382 AAACTTTGGA-AAAATTACACTTTTGCCCCT
1 AAACTTT-GACAAAATTACACTGTTGCCCCT
* *
75412 AAACTTTTACATAATTACACTGTTGCCCCT
1 AAACTTTGACAAAATTACACTGTTGCCCCT
75442 A
1 A
75443 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTGTTGCCCCT
Found at i:76295 original size:27 final size:27
Alignment explanation
Indices: 76251--76318 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
76241 GGATATTACA
**
76251 GATAATCCTACCGTACAGAGGTACTTC
1 GATAATCCTACCCCACAGAGGTACTTC
* *
76278 -AGTAATCCTACCCCACAGGGGTATTTC
1 GA-TAATCCTACCCCACAGAGGTACTTC
*
76305 GATAATTCTACCCC
1 GATAATCCTACCCC
76319 CGGTATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
GATAATCCTACCCCACAGAGGTACTTC
Found at i:76360 original size:27 final size:27
Alignment explanation
Indices: 76320--76528 Score: 179
Period size: 27 Copynumber: 7.7 Consensus size: 27
76310 TTCTACCCCC
* * *
76320 GGTATTTTAGTAATTTCACAAATCGAG
1 GGTATTTCAATAATTTTACAAATCGAG
* *
76347 GGTATTTCAATAATTTCACAAATCAAG
1 GGTATTTCAATAATTTTACAAATCGAG
* * *
76374 AGTATTTCAATAATTTTACAAGT-TAGG
1 GGTATTTCAATAATTTTACAAATCGA-G
* * *
76401 GGTATTTCGATAATTTTACAACTCGGG
1 GGTATTTCAATAATTTTACAAATCGAG
* * *
76428 GGTATTTCGATAATTTTACAACTCGTG
1 GGTATTTCAATAATTTTACAAATCGAG
* * * *
76455 AGTATTTCAGTAATATTACTAATC-AGG
1 GGTATTTCAATAATTTTACAAATCGA-G
* *
76482 GGTATTTCAGTAATTTTACAAATCAAG
1 GGTATTTCAATAATTTTACAAATCGAG
* * *
76509 AGTATTTTAGTAATTTTACA
1 GGTATTTCAATAATTTTACA
76529 TGTCAGGGGT
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 151 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
GGTATTTCAATAATTTTACAAATCGAG
Found at i:76431 original size:81 final size:81
Alignment explanation
Indices: 76320--76524 Score: 234
Period size: 81 Copynumber: 2.5 Consensus size: 81
76310 TTCTACCCCC
* *
76320 GGTATTTTAGTAATTTCACAAATCGAGGGTATTTCAATAATTTCACAAATCAAGAGTATTTCAAT
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAAATCAAGAGTATTTCAAT
* *
76385 AATTTTAC-AAGTTAGG
66 AATATTACTAA-TCAGG
* * * * * ** *
76401 GGTATTTC-GATAATTTTACAACTCGGGGGTATTTCGATAATTTTACAACTCGTGAGTATTTCAG
1 GGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAATAATTTCACAAATCAAGAGTATTTCAA
76465 TAATATTACTAATCAGG
65 TAATATTACTAATCAGG
* * * *
76482 GGTATTTCAGTAATTTTACAAATCAAGAGTATTTTAGTAATTT
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTT
76525 TACATGTCAG
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 98 0.96
82 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAAATCAAGAGTATTTCAAT
AATATTACTAATCAGG
Found at i:77039 original size:217 final size:223
Alignment explanation
Indices: 76796--77278 Score: 609
Period size: 238 Copynumber: 2.1 Consensus size: 223
76786 GCCCAAAACA
* * *
76796 ACCTAAGTCATGTGCGTGACATGACAAGTTTATCTACTTCCCGCTTAACAACAAAATTTACCCA-
1 ACCTAAGTCATGTGCGCGACATGACAAGTCTATCTACTTCCCGCTTAACAACAAAAATTACCCAC
*
76860 C-GCCCA-T-AT-GGCCCATTTAACCCAGAACTATTCACGACTGTACGAACGACGTAGCCTAGTC
66 CGGCCCATTCATAGGCCCATTTAACCCAAAACTATTCACGACTGTACGAACGACGTAGCCTAGTC
*
76921 CAAAACTCACCACATAACATACATTTTATCCATGTGGGCCCATAA-CCCATTGGGCCCACACAGC
131 CAAAACTCACCACATAACATACATTTTATCCATGTGGGCCCACAAGCCCATTGGGCCCACACAGC
* *
76985 CCAGTCTAGCCCAACGTGGCCCAGAAAG
196 CCAGTCCAGCCAAACGTGGCCCAGAAAG
**
77013 ACCTAAGTCATGTGCGCGACATGACAAGTCTATCTACTTCCCGCTTAACAGTAAAAATTACCCAC
1 ACCTAAGTCATGTGCGCGACATGACAAGTCTATCTACTTCCCGCTTAACAACAAAAATTACCCA-
* **
77078 GCGTGCCCATGGGCCCATTAGGCCCATACGGCCCATTTAACCTAAAACTATTCACGGTTGTACGA
65 ------CC---GGCCCATT-----CATA-GGCCCATTTAACCCAAAACTATTCACGACTGTACGA
*
77143 ACGACGTAGCCTAGTCCAAAACTTACCACATAACATACATTTTATCCATGTGGGCCCACAAGCCC
115 ACGACGTAGCCTAGTCCAAAACTCACCACATAACATACATTTTATCCATGTGGGCCCACAAGCCC
* * *
77208 ATTGGGCCCACACAGCCTAGTCCAGCCAAATGTGGCCCAGAACG
180 ATTGGGCCCACACAGCCCAGTCCAGCCAAACGTGGCCCAGAAAG
* * *
77252 ACCTATGCCATGTACGCGACATGACAA
1 ACCTAAGTCATGTGCGCGACATGACAA
77279 AGCCCAACCA
Statistics
Matches: 225, Mismatches: 19, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
217 59 0.26
225 1 0.00
229 5 0.02
230 1 0.00
236 2 0.01
238 91 0.40
239 66 0.29
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (223 bp):
ACCTAAGTCATGTGCGCGACATGACAAGTCTATCTACTTCCCGCTTAACAACAAAAATTACCCAC
CGGCCCATTCATAGGCCCATTTAACCCAAAACTATTCACGACTGTACGAACGACGTAGCCTAGTC
CAAAACTCACCACATAACATACATTTTATCCATGTGGGCCCACAAGCCCATTGGGCCCACACAGC
CCAGTCCAGCCAAACGTGGCCCAGAAAG
Found at i:77215 original size:17 final size:19
Alignment explanation
Indices: 77188--77224 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
77178 TACATTTTAT
77188 CCATGTGGGCCCACA-AGC
1 CCATGTGGGCCCACACAGC
77206 CCAT-TGGGCCCACACAGC
1 CCATGTGGGCCCACACAGC
77224 C
1 C
77225 TAGTCCAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.43, G:0.24, T:0.11
Consensus pattern (19 bp):
CCATGTGGGCCCACACAGC
Found at i:83791 original size:27 final size:28
Alignment explanation
Indices: 83759--83813 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
83749 ATTTACTACC
83759 ACATATATATCACATTTTATAATCACCA
1 ACATATATATCACATTTTATAATCACCA
*
83787 TATATATATATCACATTTTATAATCAC
1 -ACATATATATCACATTTTATAATCAC
83814 TCATTGAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (28 bp):
ACATATATATCACATTTTATAATCACCA
Found at i:85077 original size:44 final size:43
Alignment explanation
Indices: 85027--85116 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 43
85017 AACTCATATA
* *
85027 CGATGCCAATGTCCCAGACATGGTCTTAAACGTAAATCACAAAT
1 CGATGCCAACGTCCCAGACATAGTCTTAAACG-AAATCACAAAT
* * *
85071 CGATGCCAACGTCCCAGACGTAGTCTTACACGAAATCACATAT
1 CGATGCCAACGTCCCAGACATAGTCTTAAACGAAATCACAAAT
85114 CGA
1 CGA
85117 AATCCTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 13 0.32
44 28 0.68
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATAGTCTTAAACGAAATCACAAAT
Found at i:91850 original size:47 final size:47
Alignment explanation
Indices: 91781--91990 Score: 200
Period size: 46 Copynumber: 4.5 Consensus size: 47
91771 TAAGGTACCG
* *
91781 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-ACATCTCGAAGCCA
* * * *
91828 ATGCCATGTCCCAGACATGGTCTTACACTGACTACCATCTCGTAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTA-CATCTCGAAGCCA
* * * * * *
91876 ACG-CATGTCTCGGACAT-GACTTACACTGGCTTACGTCTCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAAGCCA
* *
91922 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCATCTC-AATGCCGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAA-GCC-A
91968 A-GCCATGTCCCAGACATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
91991 GCGTTGGCTC
Statistics
Matches: 134, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 10 0.07
46 61 0.46
47 56 0.42
48 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAAGCCA
Found at i:94316 original size:43 final size:43
Alignment explanation
Indices: 94268--94438 Score: 204
Period size: 43 Copynumber: 4.0 Consensus size: 43
94258 AGCTCGTACA
*
94268 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * * *
94311 ATGCC-ACTGTCCCAGATAGGGTCTTATATGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * *
94353 ATGCCAATGTCCCAGAAATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AAATCA-AATATCG
* *
94397 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATATC
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATC
94439 AAAATCCTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.26
43 49 0.46
44 29 0.27
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:94420 original size:86 final size:85
Alignment explanation
Indices: 94268--94432 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 85
94258 AGCTCGTACA
* *
94268 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAACGTCCCAGAAATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
*
94333 CTTATATGAAATCATATACG
66 CTTACATGAAATCATATACG
* *
94353 ATGCCAATGTCCCAGAAATGGTCTTACACGTAAATCACAA-ATCGATGCCAAC-GTCCCAGA-CG
1 ATGCCAACGTCCCAGAAATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGATAG
94415 TGGTCTTACATGAAATCA
63 -GGTCTTACATGAAATCA
94433 CATATCAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
85 29 0.41
86 38 0.54
87 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGAAATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
CTTACATGAAATCATATACG
Found at i:97592 original size:27 final size:26
Alignment explanation
Indices: 97562--97714 Score: 110
Period size: 27 Copynumber: 5.7 Consensus size: 26
97552 TTTAGTTTAC
97562 TAAAATTATCGAAATACCCTCGATTTG
1 TAAAATTA-CGAAATACCCTCGATTTG
** *
97589 TAAAATTACTGAAATACATTCGACTTG
1 TAAAATTAC-GAAATACCCTCGATTTG
* *
97616 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACGAAA-TACCCTCGATTTG
* *** *
97643 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTAC-GAAATACCCTCGATTTG
* ***
97670 CAAAATTACCGTTTTACCCTCGA-TTG
1 TAAAATTA-CGAAATACCCTCGATTTG
*
97696 TGAAATTACCGAAATACCC
1 TAAAATTA-CGAAATACCC
97715 CTGTAAGATA
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 20 0.20
27 80 0.79
28 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (26 bp):
TAAAATTACGAAATACCCTCGATTTG
Found at i:97732 original size:27 final size:27
Alignment explanation
Indices: 97699--98217 Score: 716
Period size: 27 Copynumber: 19.3 Consensus size: 27
97689 TCGATTGTGA
* *
97699 AATTACCGAAATACCCCTGTAAGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
97726 AACTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
97753 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
97780 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
97807 AACTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
97834 AATTACCGAAATACCCCTAAAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
97861 AATTACCAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
97888 AACTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
97915 AACTACCGAAATACCCTTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
97942 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
97969 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
97996 AATTACCAAAATACCCCTGCATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
98023 AACTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
98050 AAATA-CGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
98076 AATTACCGAAATACTCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
98103 AATTACAGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
98130 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
98157 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
98184 AATTACCGAAATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
98211 AATTACC
1 AATTACC
98218 ATTTTGCCCC
Statistics
Matches: 438, Mismatches: 53, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 0.05
27 414 0.95
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:98496 original size:24 final size:25
Alignment explanation
Indices: 98420--98489 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
98410 AGGAAGTGCT
* * * *
98420 AAAAGGGCTATGCCCAAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
98445 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
98470 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
98490 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:100002 original size:93 final size:93
Alignment explanation
Indices: 99872--100042 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
99862 GCCCCTAAGT
*
99872 GAACTCGGACTCAACTCAACGAGCTCGAGTGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAATGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
99937 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
99965 GAACTCGGACTCAACTCAATGAGTTCGGACAT-T-CGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTC-GA-ATGTCCGCATCCATAAGTGAACTCGGACTCAACTC
100028 AACGAGTTCGGATGC
64 AACGAGTTCGGATGC
100043 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
93 68 0.94
94 3 0.04
95 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAATGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:100038 original size:46 final size:46
Alignment explanation
Indices: 99867--100039 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 46
99857 AACCCGCCCC
* *
99867 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GTGTCCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAT-T-CGCATCCA
* * *
99913 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
99961 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
100006 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
100040 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.55
47 31 0.30
48 2 0.02
50 3 0.03
52 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:103272 original size:68 final size:68
Alignment explanation
Indices: 103192--103347 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
103182 CATAATGTGT
* * * * * *
103192 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-C
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGCGTGATTCAAGGGAAGGA-CAC
103253 CATGTAG
62 CATGTAG
* *
103260 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGCGTGATT-CAAGGGAAGGACACC
103325 ATGTAG
63 ATGTAG
103331 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
103348 CAAATCGGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
68 30 0.41
69 10 0.14
70 6 0.08
71 27 0.37
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGCGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:107866 original size:48 final size:48
Alignment explanation
Indices: 107795--108270 Score: 799
Period size: 48 Copynumber: 9.9 Consensus size: 48
107785 CAAGATAAAT
* * * *
107795 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
107843 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
107891 ATATTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
107939 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
107987 ATATTTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
108035 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
108083 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
108131 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
108179 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
108227 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
108271 GGAAATGTGT
Statistics
Matches: 402, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 402 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:108467 original size:37 final size:37
Alignment explanation
Indices: 108417--108519 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
108407 GGAAATATAT
*
108417 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
108454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
108491 TTCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
108520 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:109524 original size:27 final size:26
Alignment explanation
Indices: 109494--109583 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
109484 TTTAGTTTAC
109494 TAAAATTATCGAAATACCCTCGATTTG
1 TAAAATTA-CGAAATACCCTCGATTTG
* *
109521 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTAC-GAAATACCCTCGATTTG
* *
109548 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACGAAA-TACCCTCGATTTG
*
109575 TAGAATTAC
1 TAAAATTAC
109584 TGTTTTACCC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
TAAAATTACGAAATACCCTCGATTTG
Found at i:109592 original size:27 final size:27
Alignment explanation
Indices: 109562--109653 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
109552 ATTACCAAAG
*
109562 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
** *
109589 TACCCTTAATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
109616 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
109643 TACCCTTGATT
1 TACCCTCGATT
109654 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:109688 original size:27 final size:27
Alignment explanation
Indices: 109658--110204 Score: 716
Period size: 27 Copynumber: 20.3 Consensus size: 27
109648 TTGATTGTGA
*
109658 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
109685 AATTACCAAAATACCCTTGTAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
109712 AACTACCGAAATACCTTTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
109739 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
109766 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
109793 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
109820 AACTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
109847 AAATATCGAATTACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
109874 AACTATCGAAATACCCTTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
109901 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
109928 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
109955 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
109982 AACTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
110009 AAATACCGAAATACACCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
110036 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
110063 AATTACTTAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
110090 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
110117 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
110144 AATTACCGAAATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * * *
110171 AATTATCGAGATACCCTTTTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
110198 AATTACC
1 AATTACC
110205 ATTTTGCCCC
Statistics
Matches: 455, Mismatches: 65, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 455 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:110477 original size:24 final size:25
Alignment explanation
Indices: 110406--110475 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
110396 AGGAAGTGCT
* * *
110406 AAAAGGGCTATGCCTCAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
110431 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
110456 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
110476 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 40 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:110488 original size:24 final size:24
Alignment explanation
Indices: 110405--110500 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
110395 GAGGAAGTGC
*
110405 TAAAAGGGCTATGCCTCAGTTTACT
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
110430 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
110454 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
110478 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
110501 ATATAATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 12 0.20
25 42 0.70
26 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:110499 original size:50 final size:50
Alignment explanation
Indices: 110406--110500 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
110396 AGGAAGTGCT
* **
110406 AAAAGGGCTATGCCTCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
* *
110456 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
110501 ATATAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 6 0.16
49 10 0.26
50 22 0.58
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:116813 original size:29 final size:29
Alignment explanation
Indices: 116771--116828 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
116761 ATCCAAGAGG
*
116771 TTGAATTTGGTATTGAGTTAGTGTCTGGA
1 TTGAATTTGGTATTGAGTTAGTGCCTGGA
116800 TTGAATTTGGTATTGAGTTAGTGCCTGGA
1 TTGAATTTGGTATTGAGTTAGTGCCTGGA
116829 ACAACTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.43
Consensus pattern (29 bp):
TTGAATTTGGTATTGAGTTAGTGCCTGGA
Found at i:120585 original size:94 final size:94
Alignment explanation
Indices: 120434--120610 Score: 232
Period size: 94 Copynumber: 1.9 Consensus size: 94
120424 AGCATATCTG
* * ** *
120434 TACCGATGCCGTGTCCCAGACATGGTCTTACATTGACTTATGTCTCGAGGCCGATGCATGTCCCA
1 TACCGATGCCGTGTCCCAGACATGGCCTTACACTGACTTATGAATCGAGGCCAATGCATGTCCCA
*
120499 AACATGTCTTGCACTAGCACTCGTCTCAA
66 AACATGTCTTACACTAGCACTCGTCTCAA
* * *
120528 TACCGATGCCGTGTCCCAGACATGGCCTTACACTGGCTCTCAT-AAT-GTGGCTAATGCATGTCC
1 TACCGATGCCGTGTCCCAGACATGGCCTTACACTGACT-T-ATGAATCGAGGCCAATGCATGTCC
*
120591 CAGACATGTCTTACACTAGC
64 CAAACATGTCTTACACTAGC
120611 TCACAAAAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 67 0.94
95 2 0.03
96 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
TACCGATGCCGTGTCCCAGACATGGCCTTACACTGACTTATGAATCGAGGCCAATGCATGTCCCA
AACATGTCTTACACTAGCACTCGTCTCAA
Found at i:122728 original size:46 final size:45
Alignment explanation
Indices: 122661--122835 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
122651 TGTAACCCGC
** * *
122661 CCATAAGTGAACTTAGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTC-CAT
* **
122707 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTT-GTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCATTCCAT
* *** * * * *
122753 ACATTTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAG
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTC-CAT
*
122800 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
122836 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 3 0.03
46 65 0.64
47 30 0.29
48 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCAT
Found at i:125251 original size:15 final size:15
Alignment explanation
Indices: 125222--125271 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
125212 CAAAGATAAC
*
125222 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
125236 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
125251 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
125266 AAGAAA
1 AAGAAA
125272 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:125280 original size:15 final size:15
Alignment explanation
Indices: 125233--125280 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
125223 AGAAAACCGA
125233 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
125247 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
125263 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
125278 ATA
1 ATA
125281 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:128332 original size:93 final size:93
Alignment explanation
Indices: 128218--128432 Score: 278
Period size: 93 Copynumber: 2.3 Consensus size: 93
128208 GCCCATAAGT
*
128218 GAACTCAGACTCAACTCAACGA-TCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCAGACTCAACTCAACGAGT-TC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
128281 AACGAGCTCGGATGCCTTGTTACATCTCTC
64 AACGAGCTCGGATGCCTTGTTACATCTCTC
128311 GAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAG-ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *** *
128375 ACGAGTTCGGATGCC--CAAATATCCTACTC
65 ACGAGCTCGGATGCCTTGTTACAT-CT-CTC
* *
128404 AAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
128433 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
91 3 0.03
92 6 0.06
93 98 0.90
94 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTTGTTACATCTCTC
Found at i:128379 original size:46 final size:46
Alignment explanation
Indices: 128210--128385 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
128200 TGTAACCCGC
* *
128210 CCATAAGTGAACTCAGACTCAACTCAACGA-TCTCGGGA-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TC-GGACATTCGCAT
* * *
128256 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTT-G-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCGCAT
* *** *
128302 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
128349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
128386 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
45 6 0.06
46 65 0.61
47 33 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:136642 original size:42 final size:41
Alignment explanation
Indices: 136575--136710 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 41
136565 TACATGTAAC
* *
136575 CAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAAAAT
1 CAAATAT-GATGCCA-TGTCCCAGACATGGCCTTACACAAAAT
* **
136618 CAAATATGATGCCGATGTCTCAGACATGGCCTTACATGTAAAT
1 CAAATATGATGCC-ATGTCCCAGACATGGCCTTACA-CAAAAT
*
136661 CATAAGT-TGATGCCAATGTCCCAGACATGGCCTTACACGAAAT
1 CA-AA-TATGATGCC-ATGTCCCAGACATGGCCTTACACAAAAT
*
136704 CACATAT
1 CAAATAT
136711 TGGATCCTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.33
43 20 0.26
44 30 0.38
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
CAAATATGATGCCATGTCCCAGACATGGCCTTACACAAAAT
Found at i:136723 original size:43 final size:43
Alignment explanation
Indices: 136541--136712 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
136531 AGCTCATACA
* * * * * * *
136541 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAATGTCCCAGACATGGCCTTACACGAAATCAAATATTG
* * * *
136584 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATCAAATA-TG
1 ATGCCAATGTCCCAGACATGGCCTTACACGAAATCAAATATTG
* * * *
136626 ATGCCGATGTCTCAGACATGGCCTTACATGTAAATCATAA-GTTG
1 ATGCCAATGTCCCAGACATGGCCTTACACG-AAATCA-AATATTG
*
136670 ATGCCAATGTCCCAGACATGGCCTTACACGAAATCACATATTG
1 ATGCCAATGTCCCAGACATGGCCTTACACGAAATCAAATATTG
136713 GATCCTATGT
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.24
43 47 0.46
44 31 0.30
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGCCTTACACGAAATCAAATATTG
Found at i:140805 original size:20 final size:20
Alignment explanation
Indices: 140780--140825 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
140770 ATGGAAATTC
*
140780 ATAAAAAGGTGAAATTTTCT
1 ATAAAAAGGTGAAATTTGCT
140800 ATAAAAAGGTGAAATTTGCT
1 ATAAAAAGGTGAAATTTGCT
140820 ATAAAA
1 ATAAAA
140826 CAGTATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (20 bp):
ATAAAAAGGTGAAATTTGCT
Found at i:162787 original size:8 final size:8
Alignment explanation
Indices: 162774--162798 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
162764 ATATAGACTA
162774 AATAAAAT
1 AATAAAAT
162782 AATAAAAT
1 AATAAAAT
162790 AATAAAAT
1 AATAAAAT
162798 A
1 A
162799 TCTTATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:163363 original size:47 final size:47
Alignment explanation
Indices: 163294--163383 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
163284 ACACCGAATA
163294 TGAGGTTGTCAGGCTAATGCCGAATCCTCCTTCTCCTTGTTGCAATG
1 TGAGGTTGTCAGGCTAATGCCGAATCCTCCTTCTCCTTGTTGCAATG
*
163341 TGAGGTTGTTAGGCTAATGCCGAATCCTCCTTCTCCTTGTTGC
1 TGAGGTTGTCAGGCTAATGCCGAATCCTCCTTCTCCTTGTTGC
163384 TGGAAACCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.36
Consensus pattern (47 bp):
TGAGGTTGTCAGGCTAATGCCGAATCCTCCTTCTCCTTGTTGCAATG
Found at i:164192 original size:27 final size:27
Alignment explanation
Indices: 164162--164215 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
164152 ATTGGGCCCA
164162 TAATAGGCAAAAATGATAATTGATGCT
1 TAATAGGCAAAAATGATAATTGATGCT
164189 TAATAGGCAAAAATGATAATTGATGCT
1 TAATAGGCAAAAATGATAATTGATGCT
164216 ATGTCATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (27 bp):
TAATAGGCAAAAATGATAATTGATGCT
Found at i:164325 original size:28 final size:28
Alignment explanation
Indices: 164294--164348 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
164284 ATTTCAGCCT
*
164294 AATGGGCCACAT-AAAGGTGATTGGGCTA
1 AATGGGCCACATGAAA-GAGATTGGGCTA
*
164322 AATGGGCCATATGAAAGAGATTGGGCT
1 AATGGGCCACATGAAAGAGATTGGGCT
164349 TAGTGGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (28 bp):
AATGGGCCACATGAAAGAGATTGGGCTA
Found at i:165023 original size:32 final size:32
Alignment explanation
Indices: 164986--165050 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
164976 GGGGGCGGAG
164986 TTGGTGTGTAGCGGATGTTTATTGGGGTGGGT
1 TTGGTGTGTAGCGGATGTTTATTGGGGTGGGT
165018 TTGGTGTGTAGCGGATGTTTATTGGGGTGGGT
1 TTGGTGTGTAGCGGATGTTTATTGGGGTGGGT
165050 T
1 T
165051 GCATTGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.09, C:0.03, G:0.46, T:0.42
Consensus pattern (32 bp):
TTGGTGTGTAGCGGATGTTTATTGGGGTGGGT
Done.