Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 192 of 259
Found at i:61522618 original size:58 final size:57
Alignment explanation
Indices: 61522525--61522663 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 57
61522515 TATTGTTATT
* * * *
61522525 AAATTTTAATAAAATTACTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAATATAATTATTATTAAAAATAACTTAAT-AAAATAATAAATAATTTAACA
* * * * *
61522583 ATATTTTAACATAATTATTATTAAATATAACTTAATAAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAACTTAATAAAATAATAAATAATTTAACA
61522640 AAATTCTTAATATAATTATTATTA
1 AAATT-TTAATATAATTATTATTA
61522664 TATAAATTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
57 22 0.32
58 47 0.68
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (57 bp):
AAATTTTAATATAATTATTATTAAAAATAACTTAATAAAATAATAAATAATTTAACA
Found at i:61525762 original size:23 final size:23
Alignment explanation
Indices: 61525720--61525770 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
61525710 CTTTGAGAGT
*
61525720 TTTTCCTCTGCTACTATAGCTCG
1 TTTTCCTCTGCTACTATAGCACG
*
61525743 TTTTCCTCTGCTTA-TGTAGCACG
1 TTTTCCTCTGC-TACTATAGCACG
61525766 TTTTC
1 TTTTC
61525771 TAGGTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.12, C:0.27, G:0.14, T:0.47
Consensus pattern (23 bp):
TTTTCCTCTGCTACTATAGCACG
Found at i:61529955 original size:21 final size:21
Alignment explanation
Indices: 61529929--61529974 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
61529919 GGGATTTGAT
61529929 TGACTTACTTTTTATAGCTGC
1 TGACTTACTTTTTATAGCTGC
61529950 TGACTTACTTTTTATAGCTGC
1 TGACTTACTTTTTATAGCTGC
61529971 TGAC
1 TGAC
61529975 GCAATCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (21 bp):
TGACTTACTTTTTATAGCTGC
Found at i:61533898 original size:17 final size:17
Alignment explanation
Indices: 61533811--61533899 Score: 56
Period size: 17 Copynumber: 5.1 Consensus size: 17
61533801 TTTTTAATTT
*
61533811 TTTTAATATTTACATTA
1 TTTTAATATTTATATTA
61533828 TTTTAATTTAATGTTA-ATTA
1 TTTTAA--T-AT-TTATATTA
*
61533848 TTTTATATATTTTTA-TA
1 TTTTA-ATATTTATATTA
** * * *
61533865 TAGTCATCTTAATATTA
1 TTTTAATATTTATATTA
61533882 TTTTAATATTTATATTA
1 TTTTAATATTTATATTA
61533899 T
1 T
61533900 AGTAGTATTA
Statistics
Matches: 53, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
16 6 0.11
17 27 0.51
18 3 0.06
19 2 0.04
20 11 0.21
21 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTAATATTTATATTA
Found at i:61533908 original size:17 final size:17
Alignment explanation
Indices: 61533888--61533920 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61533878 ATTATTTTAA
61533888 TATT-TATATTATAGTAG
1 TATTATATATT-TAGTAG
61533905 TATTATATATTTAGTA
1 TATTATATATTTAGTA
61533921 TATGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTATATATTTAGTAG
Found at i:61542303 original size:27 final size:27
Alignment explanation
Indices: 61542273--61542422 Score: 133
Period size: 27 Copynumber: 5.5 Consensus size: 27
61542263 AAATTGTACA
*
61542273 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
61542300 GCACTCAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
61542327 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
* * *
61542354 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
61542382 GCACTAAGTGTGCGATTTGA-T-TGTAT
1 GCACTAAGTGTGCGATTTGACTATGT-T
*
61542408 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
61542423 GGCTCAATAT
Statistics
Matches: 98, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 73 0.74
28 21 0.21
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:61542340 original size:54 final size:55
Alignment explanation
Indices: 61542272--61542422 Score: 150
Period size: 54 Copynumber: 2.8 Consensus size: 55
61542262 TAAATTGTAC
* *
61542272 AGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCG-AATCGAACTATGT
* * ** * *
61542325 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATCGAACTATGT
*
61542381 AGCACTAAGTGTGCGATTTGA-T-TGTATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGATTTGACTATGT-T-GCACTAAGTGTGCG
61542423 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
53 5 0.06
54 37 0.47
55 36 0.46
56 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATCGAACTATGT
Found at i:61547647 original size:20 final size:21
Alignment explanation
Indices: 61547622--61547706 Score: 63
Period size: 20 Copynumber: 4.1 Consensus size: 21
61547612 TCAAAGATTT
61547622 TATT-TATTAAAATATATATA
1 TATTATATTAAAATATATATA
61547642 TATT-TATTTAATAAT-TA-AGTA
1 TATTATA-TTAA-AATATATA-TA
* *
61547663 TATTATATTATATTATAT-TA
1 TATTATATTAAAATATATATA
* *
61547683 TATTATATTATATTATTATATA
1 TATTATATTAAAATA-TATATA
61547705 TA
1 TA
61547707 AAAGAAACAA
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
20 26 0.47
21 20 0.36
22 9 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TATTATATTAAAATATATATA
Found at i:61547671 original size:5 final size:5
Alignment explanation
Indices: 61547661--61547698 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
61547651 AATAATTAAG
61547661 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
61547699 TATATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:61548414 original size:14 final size:13
Alignment explanation
Indices: 61548395--61548435 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 13
61548385 ATGTATGTGT
61548395 GGTAAGTATCTTAA
1 GGTAAGTAT-TTAA
61548409 GGTAAGTATTTTAA
1 GGTAAGTA-TTTAA
61548423 GGTAAGTATTTAA
1 GGTAAGTATTTAA
61548436 TGAACTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.19
14 20 0.77
15 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (13 bp):
GGTAAGTATTTAA
Found at i:61548807 original size:12 final size:12
Alignment explanation
Indices: 61548790--61548814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61548780 GCCGACTACT
61548790 GTTACTGTTACC
1 GTTACTGTTACC
61548802 GTTACTGTTACC
1 GTTACTGTTACC
61548814 G
1 G
61548815 ATTTGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:61548856 original size:6 final size:6
Alignment explanation
Indices: 61548837--61548867 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
61548827 GTGTGTCGAA
*
61548837 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
61548868 TCGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:61549707 original size:15 final size:14
Alignment explanation
Indices: 61549649--61549709 Score: 67
Period size: 13 Copynumber: 4.5 Consensus size: 14
61549639 GTCGAAATTT
*
61549649 ATAAAAATAAAATA
1 ATAATAATAAAATA
61549663 A-AATAA-AATAA-A
1 ATAATAATAA-AATA
61549675 ATAA-AATAAAATA
1 ATAATAATAAAATA
61549688 ATAATAATAATAATA
1 ATAATAATAA-AATA
61549703 ATAATAA
1 ATAATAA
61549710 AACTGGAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 8 0.20
13 15 0.38
14 6 0.15
15 11 0.28
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAATAATAAAATA
Found at i:61549709 original size:6 final size:5
Alignment explanation
Indices: 61549652--61549706 Score: 83
Period size: 5 Copynumber: 10.4 Consensus size: 5
61549642 GAAATTTATA
61549652 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AATAAT AATAAT AATAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AA-AAT
61549705 AA
1 AA
61549707 TAAAACTGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 32 0.65
6 17 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:61551092 original size:18 final size:17
Alignment explanation
Indices: 61551057--61551092 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
61551047 CTTGATTATT
*
61551057 AAAATTTTAAAATTAAA
1 AAAATTTTAAAATAAAA
61551074 AAAATTTTAAAAATAAAA
1 AAAATTTT-AAAATAAAA
61551092 A
1 A
61551093 TTATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTTAAAATAAAA
Found at i:61551098 original size:18 final size:17
Alignment explanation
Indices: 61551057--61551092 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
61551047 CTTGATTATT
*
61551057 AAAATTTTAAAATTAAA
1 AAAATTTTAAAAATAAA
61551074 AAAATTTTAAAAATAAA
1 AAAATTTTAAAAATAAA
61551091 AA
1 AA
61551093 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTTAAAAATAAA
Found at i:61551156 original size:20 final size:20
Alignment explanation
Indices: 61551115--61551159 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
61551105 TTATTTTTCA
* *
61551115 ATAAAAATACATAAAATTTT
1 ATAAAAATACACAAAATATT
61551135 ATAAAAATACACACAAA-ATT
1 ATAAAAATACACA-AAATATT
61551155 ATAAA
1 ATAAA
61551160 TAAATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAAATACACAAAATATT
Found at i:61551867 original size:19 final size:19
Alignment explanation
Indices: 61551845--61551884 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61551835 AAAAATAAAC
61551845 TTTTAAATAAATT-TTTATT
1 TTTTAAA-AAATTGTTTATT
*
61551864 TTTTAAAAATTTGTTTATT
1 TTTTAAAAAATTGTTTATT
61551883 TT
1 TT
61551885 GAATGCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAAAAATTGTTTATT
Found at i:61571073 original size:32 final size:32
Alignment explanation
Indices: 61571032--61571155 Score: 221
Period size: 32 Copynumber: 3.9 Consensus size: 32
61571022 AAAATTAACA
*
61571032 AATATGTAAAACTCATATCAAGCAAGAGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
*
61571064 AATATGTAAAACTCACATCAAGCAAGCGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
61571096 AATATGTAAAACTCACATCAAGCAAGAGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
*
61571128 AATATTTAAAACTCACATCAAGCAAGAG
1 AATATGTAAAACTCACATCAAGCAAGAG
61571156 GACTTTTATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 88 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (32 bp):
AATATGTAAAACTCACATCAAGCAAGAGTGTT
Found at i:61575776 original size:21 final size:21
Alignment explanation
Indices: 61575752--61575792 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61575742 TTTTTTTCTA
61575752 TTTTTGAAT-AAATTTAAAATG
1 TTTTT-AATGAAATTTAAAATG
*
61575773 TTTTTAATGAAATTTTAAAT
1 TTTTTAATGAAATTTAAAAT
61575793 TATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTTAATGAAATTTAAAATG
Found at i:61581953 original size:26 final size:26
Alignment explanation
Indices: 61581922--61582029 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61581912 TGAAATTCCC
*
61581922 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
61581948 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
61581974 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
61582000 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61582026 ATCA
1 ATCA
61582030 ATTTGTATCG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61589434 original size:87 final size:88
Alignment explanation
Indices: 61589325--61589513 Score: 281
Period size: 87 Copynumber: 2.2 Consensus size: 88
61589315 TTTATGATCA
* * *
61589325 ATGAATTTGATATTAATGAAAAAGTATTATGCCTTTAGGAGGATTTGATTTTAGGCTTTTAGCAC
1 ATGAATTTGATAATAATAAAAAAGTATTATGACTTTAGGAGGATTTGATTTTAGGCTTTTAGCAC
61589390 ACATATTTTTT-CATATGTTCTT
66 ACATATTTTTTCCATATGTTCTT
* * * *
61589412 ATGAATTTGATAATAATAAAAAAGTCTTGTGACTTTTGTAGGATTTGATTTTAGGCTTTTAGCAC
1 ATGAATTTGATAATAATAAAAAAGTATTATGACTTTAGGAGGATTTGATTTTAGGCTTTTAGCAC
*
61589477 ATATATTTTTTCCATATGTTCTT
66 ACATATTTTTTCCATATGTTCTT
* *
61589500 ATGAAGTCGATAAT
1 ATGAATTTGATAAT
61589514 TATTGCAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 68 0.75
88 23 0.25
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (88 bp):
ATGAATTTGATAATAATAAAAAAGTATTATGACTTTAGGAGGATTTGATTTTAGGCTTTTAGCAC
ACATATTTTTTCCATATGTTCTT
Found at i:61598055 original size:31 final size:31
Alignment explanation
Indices: 61598015--61598073 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
61598005 AAATAGTAAT
61598015 TAAACTATTTAA-ATATTTTTATTTAAGTTAA
1 TAAACTATTTAATA-ATTTTTATTTAAGTTAA
* *
61598046 TAAATTATTTGATAATTTTTATTTAAGT
1 TAAACTATTTAATAATTTTTATTTAAGT
61598074 CATTGGGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (31 bp):
TAAACTATTTAATAATTTTTATTTAAGTTAA
Found at i:61603751 original size:34 final size:33
Alignment explanation
Indices: 61603663--61603756 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
61603653 CGGCATCCAT
* *
61603663 AGAGATAGTCCGCTGGGATAGTAAACATTGAAC
1 AGAGATAGTCCGCTAGGATAGTAAACATAGAAC
* * **
61603696 AGAGATGGTCCACTAGGATAGTAAGTATAGAAC
1 AGAGATAGTCCGCTAGGATAGTAAACATAGAAC
*
61603729 ATAGATACGTCCGCTAGGATAGTAAACA
1 AGAGATA-GTCCGCTAGGATAGTAAACA
61603757 CAAGACAAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 32 0.65
34 17 0.35
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (33 bp):
AGAGATAGTCCGCTAGGATAGTAAACATAGAAC
Found at i:61605320 original size:46 final size:46
Alignment explanation
Indices: 61605244--61605417 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
61605234 TGTAACCCGC
** * * *
61605244 CCATAAGCAAACTCGGGCTCAAATCAACGAGCTCGGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTTCGCAT
* * **
61605290 CCATGAGTGAACTCGGACTCAACTTAACGAGTTCGGATGCTTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTT--TCGCAT
* * *
61605340 --ATCA-CGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCT-TTCGCAT
*
61605383 CCATAAGTGAACTCGGACTCAGCTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
61605418 AATGCCCAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 4 0.04
46 55 0.54
47 25 0.25
48 7 0.07
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTTCGCAT
Found at i:61605412 original size:93 final size:93
Alignment explanation
Indices: 61605253--61605422 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
61605243 CCCATAAGCA
* * * *
61605253 AACTCGGGCTCAAATCAACGAGCTCGGGCTTTCGCATCCATGAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAAATCAACGAGCTCGGGATTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
61605318 GAGTTCGGATGCTTAGTTACATATCACG
66 GAGTTCGAATGCTTAGTTACATATCACG
* * *
61605346 AACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCATCCATAAGTGAACTCGGACTCAGCTCAA
1 AACTCGGACTCAAATCAACGAGCTCGGGAT-TTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61605410 CGAGTTCGAATGC
65 CGAGTTCGAATGC
61605423 CCAAATATCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 3 0.04
93 65 0.96
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAAATCAACGAGCTCGGGATTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGAATGCTTAGTTACATATCACG
Found at i:61610433 original size:21 final size:21
Alignment explanation
Indices: 61610407--61610447 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
61610397 TTGTCCTTTC
61610407 AACAAAGGATATATGAGGAAG
1 AACAAAGGATATATGAGGAAG
61610428 AACAAAGGATATATGAGGAA
1 AACAAAGGATATATGAGGAA
61610448 CAATAGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.27, T:0.15
Consensus pattern (21 bp):
AACAAAGGATATATGAGGAAG
Found at i:61613527 original size:26 final size:26
Alignment explanation
Indices: 61613497--61613547 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
61613487 TATATTATGA
61613497 TAAATAATATTAATCTTTATGATAAT
1 TAAATAATATTAATCTTTATGATAAT
* * *
61613523 TAAATAATATTTATTTTTGTGATAA
1 TAAATAATATTAATCTTTATGATAA
61613548 AATTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
TAAATAATATTAATCTTTATGATAAT
Found at i:61616857 original size:4 final size:4
Alignment explanation
Indices: 61616848--61616888 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
61616838 AAAAAGAAAA
*
61616848 TATG TATG TATG TATT TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
61616889 GTTAGAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (4 bp):
TATG
Found at i:61619917 original size:30 final size:30
Alignment explanation
Indices: 61619852--61619927 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
61619842 GGTAACCTTG
* * * *
61619852 ATATAATGTCAACTTGAGTGAGCAGCCCTG
1 ATATAATGTCAACTTGAGTAAACAACCCTA
*
61619882 TTATAATGTCAACTTGTA-TAAACAACCCTA
1 ATATAATGTCAACTTG-AGTAAACAACCCTA
*
61619912 ATATAATGTCAGCTTG
1 ATATAATGTCAACTTG
61619928 CGTATGCAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 37 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (30 bp):
ATATAATGTCAACTTGAGTAAACAACCCTA
Found at i:61622563 original size:22 final size:22
Alignment explanation
Indices: 61622538--61622639 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
61622528 TACTGGTAGT
61622538 TTGTCTGCAACTTACTAGCAGC
1 TTGTCTGCAACTTACTAGCAGC
* *
61622560 TTGTCTACAAAC-TATTAGCAG-
1 TTGTCTGC-AACTTACTAGCAGC
* *
61622581 TTGTACTGCATACTATTACTAGCGGT
1 TTGT-CTGCA-AC--TTACTAGCAGC
* * *
61622607 TTATCTGCAACTTACTGGCAAC
1 TTGTCTGCAACTTACTAGCAGC
*
61622629 TTGTCTACAAC
1 TTGTCTGCAAC
61622640 CCATTGACAG
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
21 5 0.08
22 36 0.59
23 3 0.05
24 2 0.03
25 12 0.20
26 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (22 bp):
TTGTCTGCAACTTACTAGCAGC
Found at i:61622678 original size:69 final size:69
Alignment explanation
Indices: 61622527--61622680 Score: 193
Period size: 69 Copynumber: 2.2 Consensus size: 69
61622517 TTATCGCAAT
* * * *
61622527 TTACTGGTAGTTTGTCTGCAACTTACTAGCAGCTTGTCTACAAACTATTAGCAGTTGTACTGCAT
1 TTACTGGTAGTTTATCTGCAACTTACTAGCAACTTGTCTACAAACCATTAGCAGTTGTACAGCAT
61622592 ACTA
66 ACTA
* ** * * *
61622596 TTACTAGCGGTTTATCTGCAACTTACTGGCAACTTGTCTACAACCCATT-GACAGTTTTACAGCA
1 TTACTGGTAGTTTATCTGCAACTTACTAGCAACTTGTCTACAAACCATTAG-CAGTTGTACAGCA
*
61622660 TACTG
65 TACTA
61622665 TTACTGGTAGTTTATC
1 TTACTGGTAGTTTATC
61622681 AACAACGAGC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
68 1 0.01
69 69 0.99
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (69 bp):
TTACTGGTAGTTTATCTGCAACTTACTAGCAACTTGTCTACAAACCATTAGCAGTTGTACAGCAT
ACTA
Found at i:61625264 original size:10 final size:10
Alignment explanation
Indices: 61625249--61625274 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
61625239 TTGCCCATCC
61625249 CCTTCATCGA
1 CCTTCATCGA
61625259 CCTTCATCGA
1 CCTTCATCGA
61625269 CCTTCA
1 CCTTCA
61625275 AAGGCTCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.08, T:0.31
Consensus pattern (10 bp):
CCTTCATCGA
Found at i:61627827 original size:24 final size:24
Alignment explanation
Indices: 61627799--61627844 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61627789 ACAAAATTTT
*
61627799 TTAAAAAATAGTTTTTAAATTACA
1 TTAAAAAATACTTTTTAAATTACA
*
61627823 TTAAAAAGTACTTTTTAAATTA
1 TTAAAAAATACTTTTTAAATTA
61627845 TTTTGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAAATACTTTTTAAATTACA
Found at i:61628382 original size:2 final size:2
Alignment explanation
Indices: 61628377--61628401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61628367 CGTATATGTG
61628377 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
61628402 GCCTCGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61629219 original size:27 final size:27
Alignment explanation
Indices: 61629181--61629234 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
61629171 AAAGTGTTTC
61629181 TCCATATCAACTCAAGGATCCCATCAA
1 TCCATATCAACTCAAGGATCCCATCAA
61629208 TCCATATCAACTCAAGGATCCCATCAA
1 TCCATATCAACTCAAGGATCCCATCAA
61629235 AAAAGCCATC
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:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (27 bp):
TCCATATCAACTCAAGGATCCCATCAA
Found at i:61631532 original size:23 final size:23
Alignment explanation
Indices: 61631474--61631534 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
61631464 TTCTCGTGAT
* *
61631474 ATATATATTAAGTTTTTGCTTTCA
1 ATATATATTAAG-TTTTGATATCA
*
61631498 ATA-A-ATTAAGTTTTGATATGA
1 ATATATATTAAGTTTTGATATCA
61631519 ATATATATTAAGTTTT
1 ATATATATTAAGTTTT
61631535 AATTCTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 11 0.34
22 7 0.22
23 11 0.34
24 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (23 bp):
ATATATATTAAGTTTTGATATCA
Found at i:61641926 original size:3 final size:3
Alignment explanation
Indices: 61641920--61642010 Score: 89
Period size: 3 Copynumber: 30.7 Consensus size: 3
61641910 TTAGTTAATT
* *
61641920 TTA TTA TTA TT- TTC TT- TTA CTA TTA TT- TATA TTCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA
* * * *
61641964 TTA TTA TTA TTA TTA CTA TTA TTT TTA TTT TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61642011 TTTAAACCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.07
3 64 0.88
4 4 0.05
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61646709 original size:21 final size:21
Alignment explanation
Indices: 61646685--61646745 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
61646675 TCGAAACCAA
*
61646685 TAAATTATTATTATTTTTATT
1 TAAATTATAATTATTTTTATT
* *
61646706 TAAATTA-AATTATCTTTCTT
1 TAAATTATAATTATTTTTATT
*
61646726 TCAAAATATAATTATTTTTA
1 T-AAATTATAATTATTTTTA
61646746 AAAAAATCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 11 0.34
21 12 0.38
22 9 0.28
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAATTATAATTATTTTTATT
Found at i:61648444 original size:15 final size:17
Alignment explanation
Indices: 61648409--61648462 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
61648399 AGAAAATAAT
*
61648409 ATTTT-TCATCCTTCTA
1 ATTTTCTCACCCTTCTA
*
61648425 GTTTTCT-ACCCTTC-A
1 ATTTTCTCACCCTTCTA
*
61648440 ATTTT-TCATCCTTCTA
1 ATTTTCTCACCCTTCTA
61648456 ATTTTCT
1 ATTTTCT
61648463 TTTGGCCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 1 0.03
15 11 0.37
16 16 0.53
17 2 0.07
ACGTcount: A:0.17, C:0.26, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTCTCACCCTTCTA
Found at i:61650146 original size:3 final size:3
Alignment explanation
Indices: 61650085--61650132 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
61650075 ACAAAAGAGA
*
61650085 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
61650133 TAATTTGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:61653357 original size:19 final size:20
Alignment explanation
Indices: 61653327--61653370 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
61653317 CGAAAAATAA
*
61653327 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATCTACT
*
61653347 TTTCT-GAAAATGATCTATT
1 TTTCTGGAAAATGATCTACT
61653366 TTTCT
1 TTTCT
61653371 AGTGTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATCTACT
Found at i:61678515 original size:38 final size:38
Alignment explanation
Indices: 61678464--61678543 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
61678454 TTATAAGCCC
* *
61678464 AAAACCCTGAATACCTAATCTGCTAACGTAAAAATCCT
1 AAAACCCTGAATACCCAATCTGCTAACCTAAAAATCCT
*
61678502 AAAACCTTGAATACCCAATCTGCTAACCTAAAAATCCT
1 AAAACCCTGAATACCCAATCTGCTAACCTAAAAATCCT
61678540 AAAA
1 AAAA
61678544 GCCCAAAGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (38 bp):
AAAACCCTGAATACCCAATCTGCTAACCTAAAAATCCT
Found at i:61679998 original size:36 final size:37
Alignment explanation
Indices: 61679958--61680028 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
61679948 TAGATGTATT
* *
61679958 ATTATGATTTATTAGCATGATTA-TTATTTTATTCTC
1 ATTATGATCTACTAGCATGATTATTTATTTTATTCTC
* *
61679994 ATTATTATCTACTAGCATGGTTATTTTATTTTATT
1 ATTATGATCTACTAGCATGATTA-TTTATTTTATT
61680029 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 19 0.66
38 10 0.34
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (37 bp):
ATTATGATCTACTAGCATGATTATTTATTTTATTCTC
Found at i:61680000 original size:20 final size:21
Alignment explanation
Indices: 61679934--61680001 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 21
61679924 TGATTAATAA
61679934 TATTATTACTA-TTA-TAG-AT
1 TATTATTA-TATTTATTAGCAT
61679953 GTATTATTATGATTTATTAGCAT
1 -TATTATTAT-ATTTATTAGCAT
* **
61679976 GATTATTAT-TTTATTCTCAT
1 TATTATTATATTTATTAGCAT
61679996 TATTAT
1 TATTAT
61680002 CTACTAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
20 23 0.57
21 3 0.08
22 11 0.28
23 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (21 bp):
TATTATTATATTTATTAGCAT
Found at i:61683300 original size:6 final size:6
Alignment explanation
Indices: 61683291--61683418 Score: 235
Period size: 6 Copynumber: 21.8 Consensus size: 6
61683281 TTAGTATTAT
61683291 ATATAC ATATAC ATATAC ATATAC ATAT-- -TATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
61683336 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
61683384 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
61683419 TATTGTTTTT
Statistics
Matches: 119, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.03
6 116 0.97
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:61684224 original size:16 final size:16
Alignment explanation
Indices: 61684187--61684229 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
61684177 TAATTTATTA
*
61684187 AATAAAA-ATAATCTT
1 AATAAAATATTATCTT
*
61684202 AATTAAAATATTATTTT
1 AA-TAAAATATTATCTT
61684219 AATAAAATATT
1 AATAAAATATT
61684230 TATATTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:61684725 original size:18 final size:18
Alignment explanation
Indices: 61684694--61684740 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
61684684 ATATAATAGT
*
61684694 TAAAGTAAATAAAATAAAA
1 TAAAG-AAACAAAATAAAA
61684713 TAAAGAAACAAAATAAAA
1 TAAAGAAACAAAATAAAA
* *
61684731 AAAAGGAACA
1 TAAAGAAACA
61684741 GATAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (18 bp):
TAAAGAAACAAAATAAAA
Found at i:61688301 original size:2 final size:2
Alignment explanation
Indices: 61688294--61688318 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61688284 TTTGAATTAT
61688294 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
61688319 GCATCTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61696984 original size:15 final size:16
Alignment explanation
Indices: 61696947--61696984 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
61696937 TTTTCTCCTC
* *
61696947 TGTTGTTCATTTTTGG
1 TGTTTTTCATTTCTGG
61696963 TGTTTTTCATTTCTGG
1 TGTTTTTCATTTCTGG
61696979 -GTTTTT
1 TGTTTTT
61696985 TGTTGTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.05, C:0.08, G:0.21, T:0.66
Consensus pattern (16 bp):
TGTTTTTCATTTCTGG
Found at i:61701917 original size:31 final size:31
Alignment explanation
Indices: 61701881--61701941 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
61701871 TTGGTCACTG
** *
61701881 AACTATTTGAAAGTTTTCATTTAAGTCATTT
1 AACTATTCAAAAGTTTTCATTTAACTCATTT
*
61701912 AACTATTCAAAAGTTTTTATTTAACTCATT
1 AACTATTCAAAAGTTTTCATTTAACTCATT
61701942 GGGCTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAACTCATTT
Found at i:61708573 original size:58 final size:58
Alignment explanation
Indices: 61708483--61708600 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
61708473 TCATGTCTAT
*
61708483 AAATATCGATAATAATTTTATTTTTTTAATAAACAAGTAAAATAAAAATAAAATATGA
1 AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
61708541 AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
1 AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
61708599 AA
1 AA
61708601 TTAAAATTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (58 bp):
AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
Found at i:61719716 original size:21 final size:21
Alignment explanation
Indices: 61719692--61719735 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61719682 TTTTTGATCT
*
61719692 TTTTC-CTTTATTTTTTATTTC
1 TTTTCTCTCTATTTTTT-TTTC
*
61719713 TTTTCTCTCTCTTTTTTTTTC
1 TTTTCTCTCTATTTTTTTTTC
61719734 TT
1 TT
61719736 ATTAGTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTCTCTATTTTTTTTTC
Found at i:61723419 original size:26 final size:26
Alignment explanation
Indices: 61723383--61723438 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
61723373 TGAAATTCCA
61723383 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61723409 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61723435 ATCA
1 ATCA
61723439 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61729064 original size:131 final size:130
Alignment explanation
Indices: 61728759--61729397 Score: 432
Period size: 131 Copynumber: 4.9 Consensus size: 130
61728749 ATTAAGAATT
** ** * *
61728759 CTTTAAAACGAATGCG-ATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGT
1 CTTTAAAACGAA-G-GAATATTCGATGTTTGACAATTCG-GGAATCGTGCCCTATCGTGCTGGGT
* * ** * ** * *
61728823 TGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTTGAATTTTGCCCATGTCTTTTAAAA
63 TGCAATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAAA
61728888 ATC
128 ATC
* * * * * * *
61728891 CCTT-AAGCGAATGTG-ATATAT-GATATTTGGCAATGCATGGAATCGTGCCCTAACGTGCTGGG
1 CTTTAAAACGAA-G-GAATAT-TCGATGTTTGACAATTC-GGGAATCGTGCCCTATCGTGCTGGG
* * * * *
61728953 TTGCAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTCATGTCTTCTAAA
62 TTGCAATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAA
61729018 AATC
127 AATC
* * * *
61729022 CGTTAAAACGAAGGCAATATTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGCGCTGGGTTG
1 CTTTAAAACGAAGG-AATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * * * ** *
61729087 TGATTTCTCGTTTGCTCAAAACAATTGAATATTCCTTTAGGTTTTCACTCATGT-TTGTTAAAAA
65 CAATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTT-CTAAAAA
61729151 -C
129 TC
** * * * * * * * *
61729152 CTTTTAAAATAAAGG-ATGTTCGAGGTTTGGCGATTTGAGAATCGTGCCCTATCATGCTAGGTTG
1 C-TTTAAAACGAAGGAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * * ** * * * * * *
61729216 CGCTTTTTCATTTG-TTCTAAACGATCAAAGATCCCTTTGGAATTTTACTCACGTTTTCTAAAAA
65 CAATTTCTCGTTTGCTT-AAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAAAA
*
61729280 CC
129 TC
* * * *
61729282 CTTTAAAACGAAAGAAATGTTCGATGTTTGACAATTCGGGGAATAGTACCCTATCGTGCTGGGTT
1 CTTTAAAACG-AAGGAATATTCGATGTTTGACAATTC-GGGAATCGTGCCCTATCGTGCTGGGTT
* * ** *
61729347 ACAATTTCCCGTTTG-TTCAAAATAATCGAATATATCTTCAGAATTTCACTC
64 GCAATTTCTCGTTTGCTT-AAAATAATCGAATATCCCTTTAGAATTTCACTC
61729398 GTATTTCCTA
Statistics
Matches: 388, Mismatches: 105, Indels: 28
0.74 0.20 0.05
Matches are distributed among these distances:
128 1 0.00
129 87 0.22
130 12 0.03
131 206 0.53
132 82 0.21
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (130 bp):
CTTTAAAACGAAGGAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGC
AATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAAAATC
Found at i:61732657 original size:42 final size:42
Alignment explanation
Indices: 61732598--61732683 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
61732588 ACTTTGAGTG
61732598 TTAGAGCGAAATTTTATCTGTAACTCAACTTTATGTAAAAGA
1 TTAGAGCGAAATTTTATCTGTAACTCAACTTTATGTAAAAGA
61732640 TTAGAGCGAAATTTTATCTGTAACTCAACTTTATGTAAAAGA
1 TTAGAGCGAAATTTTATCTGTAACTCAACTTTATGTAAAAGA
61732682 TT
1 TT
61732684 TTATTTTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (42 bp):
TTAGAGCGAAATTTTATCTGTAACTCAACTTTATGTAAAAGA
Found at i:61734142 original size:87 final size:87
Alignment explanation
Indices: 61733996--61734169 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
61733986 TTCCAAGTCA
*
61733996 TTCACCGTAAATCAACCCAAGATGGTGACCACTAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
1 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
61734061 CACGAGGGAAAACACAGAGAGG
66 CACGAGGGAAAACACAGAGAGG
61734083 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
1 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
*
61734148 CACGAGGGAGAACACAGAGAGG
66 CACGAGGGAAAACACAGAGAGG
61734170 CCATAGTTCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.13
Consensus pattern (87 bp):
TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
CACGAGGGAAAACACAGAGAGG
Found at i:61740081 original size:3 final size:3
Alignment explanation
Indices: 61740073--61740121 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
61740063 AAATCTAAAA
*
61740073 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
61740121 A
1 A
61740122 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:61741246 original size:133 final size:133
Alignment explanation
Indices: 61741007--61741282 Score: 342
Period size: 133 Copynumber: 2.1 Consensus size: 133
61740997 GCGAATCCTA
* *** *
61741007 CAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATTTAGTCTTCCTGAAG
1 CAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAAATTTAGACTTCCTGAAG
* * * *
61741072 TTGCAGTGAAGCAGATTTAAGCTACCAACCTAGCTCCCTAAAGCTATAGTGGAGTAGGCTGAGGA
66 TTGCAGTGAAGCAGATTGAAGCCACCAACCTAGCTCCCTAAAGCTATAGCGGAGTAGGCTGAAGA
61741137 TTG
131 TTG
* * ***
61741140 TAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCGGATCGGCGACGACAAATCTT-GAC-TCCTTGA
1 CAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAAAT-TTAGACTTCC-TGA
* * * *
61741203 AGTTGCAGTGAAGCAGACTTGCA-CCACCAACCTAGCTCTCTAAAGTTGTAGCGGAGTAGGCTGA
64 AGTTGCAGTGAAGCAGA-TTGAAGCCACCAACCTAGCTCCCTAAAGCTATAGCGGAGTAGGCTGA
61741267 AGATTG
128 AGATTG
61741273 CAGATCTCGT
1 CAGATCTCGT
61741283 CTCCAGTGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
132 3 0.02
133 113 0.93
134 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (133 bp):
CAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAAATTTAGACTTCCTGAAG
TTGCAGTGAAGCAGATTGAAGCCACCAACCTAGCTCCCTAAAGCTATAGCGGAGTAGGCTGAAGA
TTG
Found at i:61753757 original size:4 final size:4
Alignment explanation
Indices: 61753730--61753799 Score: 54
Period size: 4 Copynumber: 18.0 Consensus size: 4
61753720 TACAAATTGT
* * * * * *
61753730 TTTA TTTG TTTG TTTG TTTG TTTA TTTA TCTA TTTA TTTA -TTA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
61753777 TTTC TTTA TTT- TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA
61753800 GAAAAAATCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 6 0.11
4 50 0.89
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:61753775 original size:19 final size:19
Alignment explanation
Indices: 61753751--61753794 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
61753741 GTTTGTTTGT
61753751 TTATTTATCTATTTATTTA
1 TTATTTATCTATTTATTTA
* * * *
61753770 TTATTTCTTTCTTTATTTT
1 TTATTTATCTATTTATTTA
61753789 TTATTT
1 TTATTT
61753795 TTTTAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTATCTATTTATTTA
Found at i:61753889 original size:18 final size:18
Alignment explanation
Indices: 61753849--61753890 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
61753839 TCTTTGTTCA
*
61753849 TTTATTATTATTTTCATT
1 TTTATTATTATTTTAATT
*
61753867 ATTATT-TTATCTTTAATT
1 TTTATTATTAT-TTTAATT
61753885 TTTATT
1 TTTATT
61753891 CTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTAATT
Found at i:61753902 original size:21 final size:21
Alignment explanation
Indices: 61753865--61753904 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61753855 ATTATTTTCA
61753865 TTATTATTTTATCTTTAATTT
1 TTATTATTTTATCTTTAATTT
*
61753886 TTATTCTTGTTAT-TTTAAT
1 TTATTATT-TTATCTTTAAT
61753905 ATTCCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTATTTTATCTTTAATTT
Found at i:61757681 original size:18 final size:18
Alignment explanation
Indices: 61757660--61757694 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61757650 TGAATGATAC
*
61757660 TGACAGTTACTGAATAAT
1 TGACAGATACTGAATAAT
*
61757678 TGACTGATACTGAATAA
1 TGACAGATACTGAATAA
61757695 CTAACTGTCA
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:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
TGACAGATACTGAATAAT
Found at i:61757701 original size:18 final size:17
Alignment explanation
Indices: 61757667--61757710 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
61757657 TACTGACAGT
* *
61757667 TACTGAATAATTGACTG
1 TACTGAATAACTAACTG
61757684 ATACTGAATAACTAACTG
1 -TACTGAATAACTAACTG
61757702 TCACTGAAT
1 T-ACTGAAT
61757711 TGAGACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (17 bp):
TACTGAATAACTAACTG
Found at i:61763398 original size:44 final size:44
Alignment explanation
Indices: 61763349--61763525 Score: 167
Period size: 44 Copynumber: 3.9 Consensus size: 44
61763339 CAATGAAACC
* *
61763349 ACAAATCTCATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
* * *
61763393 ACAAATCTTGTCTCCATAAAGTTACAGTGGAGCAGATTAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
* * * * * *
61763437 ACGAATTTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTACAACTT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAA-G----A--T
*
61763488 ACAAATCTTATCT-CCTAGAAGTTGCAGTGGAGTAGATT
1 ACAAATCTTATCTCCCTA-AAGTTACAGTGGAGTAGATT
61763526 GAAACAATAA
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
44 71 0.67
45 1 0.01
49 1 0.01
50 3 0.03
51 30 0.28
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
Found at i:61763635 original size:145 final size:146
Alignment explanation
Indices: 61763444--61763900 Score: 699
Period size: 145 Copynumber: 3.2 Consensus size: 146
61763434 GATACGAATT
* * *
61763444 TTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTACAACTTACAAATCTTATCT-CCTAGAA
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
* * * * * *
61763508 GTTGCAGTGGAGTAGATTGAAACAATAAGTCTTATACATCTGAGGTTGTAGTAGGTCAGATTAAA
66 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
61763573 TCTACCATAGCAAGTC
131 TCTACCATAGCAAGTC
61763589 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCT-GAA
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
* *
61763653 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTGGTAAGTCGGATTAAA
66 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
*
61763718 TCTACCATA--ATGTC
131 TCTACCATAGCAAGTC
* * *
61763732 TTATCTCCCTGAAGTTGCAGTGGAATATACTAAAGTTACAAGCTACAAATCTTATCTCCCTA-AA
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
* * * *
61763796 GTTGTAGTGGAGCAGATTGAAACGATAAGTCCTATACCTTTGAAGTTGCAGTAGGTTGGATTAAA
66 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
61763861 TCTACCATAGCAAGTC
131 TCTACCATAGCAAGTC
*
61763877 TTATCTCCCTGAAGTTGTAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
61763901 GCAGATTGAA
Statistics
Matches: 285, Mismatches: 23, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
143 132 0.46
145 150 0.53
146 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (146 bp):
TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
TCTACCATAGCAAGTC
Found at i:61763986 original size:44 final size:45
Alignment explanation
Indices: 61763867--61763986 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
61763857 TAAATCTACC
* *
61763867 ATAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
* * *
61763912 ATAGCAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAG
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
* * *
61763957 ATA-CGAGTCTCATCACCCTGAAGTTGCAGT
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGT
61763987 GGAATAGACC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 22 0.34
45 43 0.66
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
Found at i:61765505 original size:4 final size:4
Alignment explanation
Indices: 61765496--61765558 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
61765486 TACAAATTGT
* ** * *
61765496 TTTA TTTA TTTA TTTG TTCG TTTA TTTA TCTA TTTC TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
61765543 TTTA TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA
61765559 GAAAAAAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
3 3 0.06
4 45 0.94
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:61765649 original size:18 final size:18
Alignment explanation
Indices: 61765609--61765650 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
61765599 TCTTTGTTCA
*
61765609 TTTATTATTATTTTCATT
1 TTTATTATTATTTTAATT
*
61765627 ATTATT-TTATCTTTAATT
1 TTTATTATTAT-TTTAATT
61765645 TTTATT
1 TTTATT
61765651 CTTGTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTAATT
Found at i:61771638 original size:25 final size:26
Alignment explanation
Indices: 61771593--61771643 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
61771583 TATCCCTTTA
* *
61771593 TTTTATAATTTTATTTCAATTGGTTT
1 TTTTATAATTTTATTTAAATTCGTTT
*
61771619 TTTTATTATTTT-TTTAAATTCGTTT
1 TTTTATAATTTTATTTAAATTCGTTT
61771644 CACATTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTATAATTTTATTTAAATTCGTTT
Found at i:61772765 original size:17 final size:19
Alignment explanation
Indices: 61772731--61772765 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
61772721 GTGGATCGTT
61772731 TTATATGTTGTCATGTTAG
1 TTATATGTTGTCATGTTAG
61772750 TTAT-TGTTGT-ATGTTA
1 TTATATGTTGTCATGTTA
61772766 TTTTTGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (19 bp):
TTATATGTTGTCATGTTAG
Found at i:61782210 original size:18 final size:18
Alignment explanation
Indices: 61782187--61782239 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
61782177 GATAAATCCT
61782187 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
** *
61782205 AATCAAGGATTGGCCCCC
1 AATCAAGGATTTACTCCC
61782223 AAT-AAGGGATTTACTCC
1 AATCAA-GGATTTACTCC
61782240 TATATTAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:61789549 original size:43 final size:45
Alignment explanation
Indices: 61789481--61789572 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 45
61789471 TACCAGCCTC
* **
61789481 ATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-A-ATCTT
1 ATCTTCCTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGATCTT
* *
61789524 ATCTTCCTGAGGTAGC-AGGGAAGCAGACTGAAGATTGAAGATCTT
1 ATCTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGAATGAAGATCTT
61789569 ATCT
1 ATCT
61789573 CCCTAAGCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.07
43 28 0.68
44 1 0.02
45 9 0.22
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (45 bp):
ATCTTCCTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGATCTT
Found at i:61789674 original size:176 final size:175
Alignment explanation
Indices: 61789380--61790003 Score: 678
Period size: 176 Copynumber: 3.5 Consensus size: 175
61789370 GAGTATACAT
* * *
61789380 GATTGAAGATCTTATCTCCCTAA--AGTTGCAGTGGAGCAGATCGAAA-AAGGTGAATCTTATCT
1 GATTGAAGATCTTATCTCCCTAAGCAGTAGCA---AAGCAGATCGAAAGACGGTGAATCTTATCT
* * * * *
61789442 CCACGTATCAGCAATGGAGTAGATTTTACTACCAGCCTCATCT-TTCTGAGGTAGCAAGAGAGCA
63 CCATGTATCGGCAATGGAGCAGATTTAAC-CCCAGCCTCATCTCTT-TGAGGTAGCAAGAGAGCA
* * *
61789506 GGTTGAAGAATGAATCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTGAA
126 GGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
*
61789556 GATTGAAGATCTTATCTCCCTAAGCAGTAGCAAAGCAGATCGAAAGA-GGCGAATCTTATCTCCA
1 GATTGAAGATCTTATCTCCCTAAGCAGTAGCAAAGCAGATCGAAAGACGGTGAATCTTATCTCCA
* * *
61789620 TGTATCGGTAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAATGGAGCAGATTTAA-CCCC-AGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGGT
61789685 TGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACT-AA
129 TGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * * *** * *
61789731 GAATTGAAGATTTTATCTCCC-AGAGACTGCAGTGGAGTAGATCTTCG-CAGACGGTGAATCTTA
1 G-ATTGAAGATCTTATCTCCCTA-AG-CAGTAGCAAAGCAGA---TCGAAAGACGGTGAATCTTA
* * *
61789794 TCTCCATGTATCGGCAATAGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAG
60 TCTCCATGTATCGGCAATGGAGCAGATTTAACC-CCAGCCTCATCTCTTTGAGGTAGCAAGAGAG
* * * **
61789859 CAGGTTGAAGAATGAGTATTATCTTCTTGAGATAGCAAGGAAGCAAACTGTG
124 CAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * **
61789911 GATTGAGGATCTTATCTCCCTGAAGTTGCAGT-G-GAA-CAGATCGAAA-ATAGTGAATCTTATC
1 GATTGAAGATCTTATCTCCCT-AA---GCAGTAGCAAAGCAGATCGAAAGACGGTGAATCTTATC
*
61789972 TCTATGTATCGGCAATGGAGCAGATTTAACCC
62 TCCATGTATCGGCAATGGAGCAGATTTAACCC
61790004 ACCAACCTCA
Statistics
Matches: 381, Mismatches: 46, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
175 54 0.14
176 160 0.42
177 12 0.03
178 6 0.02
179 98 0.26
180 46 0.12
181 2 0.01
182 2 0.01
183 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (175 bp):
GATTGAAGATCTTATCTCCCTAAGCAGTAGCAAAGCAGATCGAAAGACGGTGAATCTTATCTCCA
TGTATCGGCAATGGAGCAGATTTAACCCCAGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGGTTG
AAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
Found at i:61791460 original size:25 final size:26
Alignment explanation
Indices: 61791431--61791481 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
61791421 TATCCCTTTA
*
61791431 TTTTATAATTTTATTTCAATT-GTTT
1 TTTTATAATTTTATTTAAATTCGTTT
* *
61791456 TTTTATTATTTTTTTTAAATTCGTTT
1 TTTTATAATTTTATTTAAATTCGTTT
61791482 CACATTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTATAATTTTATTTAAATTCGTTT
Found at i:61801273 original size:48 final size:48
Alignment explanation
Indices: 61801214--61801435 Score: 241
Period size: 48 Copynumber: 4.6 Consensus size: 48
61801204 TATGTGTGCT
*
61801214 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
* * *
61801262 AGTGTATGACCATGTCTGGGACATGGCATCGGCAATG-TAACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ACGAGAGCC
* ** * * * *
61801310 AGTGTAAGACCATGTTTGAAACATGGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATACGAGAGCC
* * * * * *
61801358 AGTGTAAGACCATGTCTTGGATATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
* *
61801406 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
61801436 AGCAATTCAC
Statistics
Matches: 142, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
47 3 0.02
48 137 0.96
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
Found at i:61801384 original size:96 final size:96
Alignment explanation
Indices: 61801214--61801435 Score: 270
Period size: 96 Copynumber: 2.3 Consensus size: 96
61801204 TATGTGTGCT
* * * * * *
61801214 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTATGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACACGAGACGAGAGCCAGTGTAAGACCATGTCT
61801279 GGGACATGGCATCGGCAAT-GTA-ACGAGAGCC
66 GGGACATGGCATCGGC-ATCG-ACACGAGAGCC
* * *
61801310 AGTGTAAGACCATGTTTGAAACATGGCATC-GACATTGAGACGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACA-CGAGACGAGAGCCAGTGTAAGACCATGTC
* * * * *
61801374 TTGGATATGGCATCGGCCTCGACATGTGAGCC
65 TGGGACATGGCATCGGCATCGACACGAGAGCC
61801406 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTTTGGAACATGGCATC
61801436 AGCAATTCAC
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
95 5 0.05
96 103 0.95
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGACACGAGACGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCATCGACACGAGAGCC
Found at i:61809499 original size:12 final size:12
Alignment explanation
Indices: 61809482--61809539 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
61809472 TCAGTTTAGT
61809482 TTTAATATTTAA
1 TTTAATATTTAA
*
61809494 TTTAATACTTAA
1 TTTAATATTTAA
61809506 TTT--T-TTTAA
1 TTTAATATTTAA
*
61809515 TTTGATATTTAA
1 TTTAATATTTAA
*
61809527 GTTTGAT-TTTAA
1 -TTTAATATTTAA
61809539 T
1 T
61809540 GTTTATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 7 0.17
10 1 0.03
11 2 0.05
12 24 0.60
13 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (12 bp):
TTTAATATTTAA
Found at i:61809533 original size:13 final size:12
Alignment explanation
Indices: 61809509--61809549 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
61809499 TACTTAATTT
61809509 TTTTAA-TTTGA
1 TTTTAAGTTTGA
61809520 TATTTAAGTTTGA
1 T-TTTAAGTTTGA
61809533 TTTTAATGTTT-A
1 TTTTAA-GTTTGA
61809545 TTTTA
1 TTTTA
61809550 GTATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 16 0.59
13 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (12 bp):
TTTTAAGTTTGA
Found at i:61810862 original size:13 final size:13
Alignment explanation
Indices: 61810844--61810868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61810834 ATTTACAAAG
61810844 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
61810857 GAAAAAGAAAAA
1 GAAAAAGAAAAA
61810869 CTAGGCTTCA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:61811564 original size:7 final size:7
Alignment explanation
Indices: 61811529--61811560 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
61811519 GTTAATGTTG
61811529 TAAAAAA
1 TAAAAAA
61811536 TAAAAAA
1 TAAAAAA
61811543 TAAAAAA
1 TAAAAAA
*
61811550 TAAATAA
1 TAAAAAA
61811557 TAAA
1 TAAA
61811561 TAATTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAAAAA
Found at i:61812383 original size:17 final size:16
Alignment explanation
Indices: 61812346--61812379 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61812336 GAGAATAATC
61812346 AATTTTTATATAAATT
1 AATTTTTATATAAATT
* *
61812362 AATTTTTTTGTAAATT
1 AATTTTTATATAAATT
61812378 AA
1 AA
61812380 ATTTATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTTTTATATAAATT
Found at i:61813844 original size:23 final size:23
Alignment explanation
Indices: 61813796--61813844 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
61813786 TCCATTTCTT
*
61813796 TTATTTATATTATAAAATTTTTA
1 TTATTTATATTATAAAATTTTCA
* *
61813819 TTATATTATA-TATACACTTTTCA
1 TTAT-TTATATTATAAAATTTTCA
61813842 TTA
1 TTA
61813845 GTCGGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTATATTATAAAATTTTCA
Found at i:61815109 original size:11 final size:11
Alignment explanation
Indices: 61815093--61815122 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
61815083 AAAGAACACA
*
61815093 AAAGCATAAAC
1 AAAGCAGAAAC
61815104 AAAGCAGAAAC
1 AAAGCAGAAAC
61815115 AAAGCAGA
1 AAAGCAGA
61815123 GAAATGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.17, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAGCAGAAAC
Found at i:61816029 original size:3 final size:3
Alignment explanation
Indices: 61816021--61816052 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61816011 AATCGATCCT
61816021 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61816053 GTAATTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:61816199 original size:18 final size:16
Alignment explanation
Indices: 61816161--61816205 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
61816151 TAAGTCTTCG
61816161 TTTATTTAATTATTTAA
1 TTTATTT-ATTATTTAA
61816178 -TTATTTATTATTATACA
1 TTTATTTATTATT-TA-A
61816195 TTTATTTATTA
1 TTTATTTATTA
61816206 CTCTTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 1 0.04
18 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATTTATTATTTAA
Found at i:61816616 original size:20 final size:20
Alignment explanation
Indices: 61816573--61816623 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
61816563 AAAAATGATT
*
61816573 TATTTTATTATCGTCATTAT
1 TATTTTATTATCGTCATTAC
*
61816593 TATTATTATT-TCGTCTTTAC
1 TATT-TTATTATCGTCATTAC
*
61816613 TATTTCATTAT
1 TATTTTATTAT
61816624 TTTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (20 bp):
TATTTTATTATCGTCATTAC
Found at i:61822783 original size:20 final size:20
Alignment explanation
Indices: 61822758--61822797 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
61822748 ATGATACTCT
*
61822758 GCATTCATGTAAATATCAGA
1 GCATTCATATAAATATCAGA
61822778 GCATTCATATAAATATCAGA
1 GCATTCATATAAATATCAGA
61822798 CATATACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATTCATATAAATATCAGA
Found at i:61823287 original size:44 final size:44
Alignment explanation
Indices: 61823201--61823288 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
61823191 ATGAATTCAC
* * **
61823201 AGTCTTATTTTTCTGAGGTAGCAAGAGATCAGGTTGAAGATTGA
1 AGTCTTATTTTCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGA
*
61823245 AGTCTTATTTTCCTGAGGTAGCAAG-GAAGCAGACTGAGGATTGA
1 AGTCTTATTTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGATTGA
61823289 CCATCCTATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (44 bp):
AGTCTTATTTTCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGA
Found at i:61823347 original size:44 final size:44
Alignment explanation
Indices: 61823297--61823480 Score: 126
Period size: 44 Copynumber: 4.2 Consensus size: 44
61823287 GACCATCCTA
*
61823297 TCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTGCAGATCTTG
1 TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCAGATCTTG
** * * * * * * *
61823341 TCTCCCTGAAGTTGCAGTGGAATAGATTAAAGATGGC-GAATATTG
1 TCTCCCT-AAGCAGTAATGGAGTAGACTGAAGATTGCAG-ATCTTG
* * * * * * *
61823386 TCTCCCTAACCAGTAGTGGAGCAGATTTAAG--T-CACCATAC-TA
1 TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCA-GAT-CTTG
* *
61823428 TCTCCCTAAGCAGTAATGAAGTAGACTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCAGATCTTG
61823472 TCTCCCTAA
1 TCTCCCTAA
61823481 AGTTGCAGTG
Statistics
Matches: 102, Mismatches: 29, Indels: 18
0.68 0.19 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.27
43 1 0.01
44 38 0.37
45 34 0.33
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCAGATCTTG
Found at i:61823522 original size:131 final size:131
Alignment explanation
Indices: 61823288--61823769 Score: 705
Period size: 131 Copynumber: 3.7 Consensus size: 131
61823278 CTGAGGATTG
* *
61823288 ACCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGT
1 ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* ** * *
61823353 TGCAGTGGAATAGATTAAAGATGGCGAATATTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
61823418 C
131 C
* * *
61823419 ACCATAC-TATCTCCCTAAGCAGTAATGAAGTAGACTGAAGATTACAGATCTTGTCTCCCTAAAG
1 ACCAT-CTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAG
61823483 TTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAG
65 TTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAG
*
61823548 CC
130 TC
* * * * *
61823550 ATCATCTTATCTCTCTAACCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTATCTCCCTGAAGT
1 ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * * * *
61823615 TACGGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCTAACCAGTAGTGAAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
61823680 C
131 C
* * * * *
61823681 ACTATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGCAGATCTCGTCTCCCTGAAGT
1 ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
*
61823746 TGCAGTGGAACAAATCGAAGACGG
66 TGCAGTGGAACAGATCGAAGACGG
61823770 TGAGCCTTAA
Statistics
Matches: 314, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
130 1 0.00
131 312 0.99
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
C
Found at i:61823867 original size:88 final size:88
Alignment explanation
Indices: 61823762--61823936 Score: 269
Period size: 88 Copynumber: 2.0 Consensus size: 88
61823752 GGAACAAATC
* * * *
61823762 GAAGACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAATAGGCTGAAAATTACATATCTTATCTC
1 GAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTC
*
61823827 CCTAAGCAGTAGTGGAGCAGATT
66 CCTAAGAAGTAGTGGAGCAGATT
* * **
61823850 GAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTGTAGATCTTATCTC
1 GAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTC
61823915 CCTAAGAAGTAGTGGAGCAGAT
66 CCTAAGAAGTAGTGGAGCAGAT
61823937 CAAAGATAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (88 bp):
GAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTC
CCTAAGAAGTAGTGGAGCAGATT
Found at i:61823962 original size:88 final size:88
Alignment explanation
Indices: 61823774--61823970 Score: 223
Period size: 88 Copynumber: 2.2 Consensus size: 88
61823764 AGACGGTGAG
* * * *
61823774 CCTTAACCCCCTAAGCAATAGGGTAATAGGCTGAAAATTACATATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTAG
** * ** *
61823839 TGGAGCAGATTGAAGACGATGAG
66 TGGAGCAGATCAAAGACAACAAA
* * **
61823862 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTGTAGATCTTATCTCCCTAAGAAGTAG
1 CCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTAG
*
61823927 TGGAGCAGATCAAAGATAACAAA
66 TGGAGCAGATCAAAGACAACAAA
* ** *
61823950 TCTTGTCTCCCTAAGCAATAG
1 CCTTAACCCCCTAAGCAATAG
61823971 TGGAGCAGAT
Statistics
Matches: 88, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (88 bp):
CCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTAG
TGGAGCAGATCAAAGACAACAAA
Found at i:61824174 original size:44 final size:44
Alignment explanation
Indices: 61824114--61824647 Score: 226
Period size: 44 Copynumber: 12.0 Consensus size: 44
61824104 GAGCAGAATA
* *
61824114 AAGATACCAATTTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
1 AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
** * * * *
61824158 AAGCCACTAACCTTATCTCCCTGAAGTCGCAGTAGAACATG-TTG
1 AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCA-GATCG
** * **
61824202 AATTTAC-AAGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGA-CTG
1 AAGATACTAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-G
* * * * * * * *
61824246 AAAATAGCGAATCATATCTCTCTAAAGTTACAGTAGAGTAGAGT-A
1 AAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCG
* * * * *
61824291 AAGCTA-TAAATCATATTTCCCTGAAGTTGCAGTGGAGCGGATCG
1 AAGATACT-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
* * * * * * **
61824335 AAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAGCAGAGTTA
1 AAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCG
* * * * * *
61824381 AAGCTA-TAAACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTG
1 AAGATACT-AATCTTATCT-CCCTGAAGTTGCAGTAGAGCAGATCG
* * * * *
61824425 AAGTTAC-ATGTCCTATCTCCTTGAAGTTGCAGTAGAGCGGATCG
1 AAGATACTA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
** * * * *
61824469 AAGATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG
1 AAGATACT-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
** * * * * * * * **
61824514 AAGCCACAAACCTTATCTCTCTGAAGTTGTATTGGGGCA-AGTTA
1 AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCG
* *
61824558 AAGTTAC-AAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-CTG
1 AAGATACTAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-G
* * * * *
61824602 AAGAAAGTAGATTTTATCTCCTTGAAGTTGCAATAGAGCAGATCG
1 AAGATACTA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
61824647 A
1 A
61824648 GTTATAATTT
Statistics
Matches: 352, Mismatches: 111, Indels: 53
0.68 0.22 0.10
Matches are distributed among these distances:
43 8 0.02
44 194 0.55
45 139 0.39
46 11 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
Found at i:61824328 original size:89 final size:90
Alignment explanation
Indices: 61824219--61824420 Score: 246
Period size: 89 Copynumber: 2.3 Consensus size: 90
61824209 AAGTCTTATC
* * * * * *
61824219 TCCCTGAAGTTGTAGCGGAGCAGA-CTGAAAATAGCGAATCATATCTCTCTAAAGTTACAGTAGA
1 TCCCTGAAGTTGCAGTGGAGCAGATC-GAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAA
* *
61824283 GTAGAG-TAAAGCTATAAATCATATT
65 GCAGAGTTAAAGCTATAAACCATATT
* * * *
61824308 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAAG
*
61824373 CAGAGTTAAAGCTATAAACCTTATT
66 CAGAGTTAAAGCTATAAACCATATT
* *
61824398 CCCCTGAAGTTGCAGTGGGGCAG
1 TCCCTGAAGTTGCAGTGGAGCAG
61824421 GTTGAAGTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 57 0.60
90 38 0.40
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (90 bp):
TCCCTGAAGTTGCAGTGGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAAG
CAGAGTTAAAGCTATAAACCATATT
Found at i:61824411 original size:45 final size:45
Alignment explanation
Indices: 61824270--61824413 Score: 114
Period size: 45 Copynumber: 3.2 Consensus size: 45
61824260 TATCTCTCTA
* * * * *
61824270 AAGTTACAGTAGAGTAGAG-TAAAGCTATAAATCATATTTCCCTG
1 AAGTTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
* * ** * * * *
61824314 AAGTTGCAGTGGAGCGGA-TCGAAGATAGCAAACCTTA-TCTCTCTA
1 AAGTTGCAGTAGAGCAGAGTTAAAGCTA-TAAACCTTATTC-CCCTG
* *
61824359 AAATTGCAGTAAAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
1 AAGTTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
61824404 AAGTTGCAGT
1 AAGTTGCAGT
61824414 GGGGCAGGTT
Statistics
Matches: 71, Mismatches: 24, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
44 20 0.28
45 43 0.61
46 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (45 bp):
AAGTTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
Found at i:61824575 original size:133 final size:134
Alignment explanation
Indices: 61824308--61824595 Score: 337
Period size: 133 Copynumber: 2.2 Consensus size: 134
61824298 AAATCATATT
* *
61824308 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAG
1 TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGCAGTAAAG
* * * * *
61824373 CAGAGTTAAAGCTATAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC
66 CAGAGTTAAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
61824438 TATC
131 TATC
* * ** * * * * **
61824442 TCCTTGAAGTTGCAGTAGAGCGGATCGAAGATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAG
1 TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGCAGTAAAG
* * * * *
61824507 TAGA-TTGAAGCCACAAACCTTA-TCTCTCTGAAGTTGTATTGGGGCAAGTTAAAGTTACAAGTC
66 CAGAGTTAAAGCCACAAACCTTATTC-CCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTC
*
61824570 TTATC
130 CTATC
*
61824575 TCCCTGAAGTTGTAGTAGAGC
1 TCCCTGAAGTTGCAGTAGAGC
61824596 AGACTGAAGA
Statistics
Matches: 128, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
132 2 0.02
133 70 0.55
134 56 0.44
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (134 bp):
TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGCAGTAAAG
CAGAGTTAAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
TATC
Found at i:61824605 original size:133 final size:133
Alignment explanation
Indices: 61824308--61824631 Score: 321
Period size: 133 Copynumber: 2.4 Consensus size: 133
61824298 AAATCATATT
* * * * * * * * * * **
61824308 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAG
1 TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAGATCTTATCTCCCTGAAGTTGTAGTGGAG
* * * * * * *
61824373 CAGAGTTAAAGCTATAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC
66 TAGA-TTGAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
61824438 TATC
130 TATC
* * **
61824442 TCCTTGAAGTTGCAGTAGAGCGGATCGAAGATGGT-GAATCTTATCTCCCTGAAGTTGTAGTGGA
1 TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAG-ATCTTATCTCCCTGAAGTTGTAGTGGA
* * *
61824506 GTAGATTGAAGCCACAAACCTTA-TCTCTCTGAAGTTGTATTGGGGCAAGTTAAAGTTACAAGTC
65 GTAGATTGAAGCCACAAACCTTATTC-CCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTC
*
61824570 TTATC
129 CTATC
* * *
61824575 TCCCTGAAGTTGTAGTAGAGCAGA-CTGAAGAAAGTAGATTTTATCTCCTTGAAGTTG
1 TCCCTGAAGTTGCAGTAGAGCAGATC-GAAGAAAGTAGATCTTATCTCCCTGAAGTTG
61824632 CAATAGAGCA
Statistics
Matches: 156, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
132 3 0.02
133 97 0.62
134 56 0.36
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (133 bp):
TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAGATCTTATCTCCCTGAAGTTGTAGTGGAG
TAGATTGAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCCT
ATC
Found at i:61826758 original size:14 final size:15
Alignment explanation
Indices: 61826739--61826767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61826729 ACATCATGTA
61826739 TATTTATTT-TTATT
1 TATTTATTTATTATT
61826753 TATTTATTTATTATT
1 TATTTATTTATTATT
61826768 CTATACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATTTATTATT
Found at i:61828243 original size:53 final size:53
Alignment explanation
Indices: 61828146--61828295 Score: 255
Period size: 53 Copynumber: 2.8 Consensus size: 53
61828136 AGCATCAAAT
* *
61828146 GATTTCCTTGCATTCAACAAACTTATAAAGATTGTAGCTCAAATTTATAAATAA
1 GATTTCTTTGCATTCAACAAACTT-TAGAGATTGTAGCTCAAATTTATAAATAA
* *
61828200 GGTTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTTATAAATAA
1 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAATTTATAAATAA
61828253 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAAT
1 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAAT
61828296 ATCTAGCATT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 68 0.76
54 22 0.24
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (53 bp):
GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAATTTATAAATAA
Found at i:61830133 original size:14 final size:14
Alignment explanation
Indices: 61830114--61830141 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61830104 ATCCAAGAAT
61830114 GCATTAATACATAA
1 GCATTAATACATAA
61830128 GCATTAATACATAA
1 GCATTAATACATAA
61830142 ACATCAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
GCATTAATACATAA
Found at i:61831549 original size:43 final size:43
Alignment explanation
Indices: 61831520--61831616 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
61831510 TAGCCCAGCT
61831520 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
* * *
61831563 ATGGTCTTACACGTAATCACATAATGATGCCAATGT-CCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
**
61831605 ATTCTCTTACAC
1 ATGGTCTTACAC
61831617 ATAAACACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 16 0.33
43 33 0.67
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:61831616 original size:42 final size:43
Alignment explanation
Indices: 61831481--61831625 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
61831471 CCAAATATGG
* * ** * *
61831481 TCTTACATGTTATCACATATGGATGCCGATAG-CCCAG-CTATGG
1 TCTTACACGTAATCACATAACGATGCCAAT-GTCCCAGAC-ATGC
* * *
61831524 TCTTACACGAAATCAAATAACGATGCCAATGTCCCAGACATGG
1 TCTTACACGTAATCACATAACGATGCCAATGTCCCAGACATGC
* *
61831567 TCTTACACGTAATCACATAATGATGCCAATGT-CCAGACATTC
1 TCTTACACGTAATCACATAACGATGCCAATGTCCCAGACATGC
* *
61831609 TCTTACACATAAACACA
1 TCTTACACGTAATCACA
61831626 ACTCGTTAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 24 0.28
43 61 0.71
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
TCTTACACGTAATCACATAACGATGCCAATGTCCCAGACATGC
Found at i:61833871 original size:33 final size:33
Alignment explanation
Indices: 61833816--61833890 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
61833806 TGGCCCTGCC
* *
61833816 ATGGTCTTACATTCGTAGTGCCATA-ACACAGTT
1 ATGGTCTTACATTCGTAATGCCATAGAC-CAGCT
* *
61833849 ATGGTCTTATCATTTG-AATGCCATAGTCCAGCT
1 ATGGTCTTA-CATTCGTAATGCCATAGACCAGCT
61833882 ATGGTCTTA
1 ATGGTCTTA
61833891 AATACAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (33 bp):
ATGGTCTTACATTCGTAATGCCATAGACCAGCT
Found at i:61836485 original size:10 final size:10
Alignment explanation
Indices: 61836472--61836496 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61836462 CTAAGGGTGG
61836472 AAAATGGCTT
1 AAAATGGCTT
61836482 AAAATGGCTT
1 AAAATGGCTT
61836492 AAAAT
1 AAAAT
61836497 AGCCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (10 bp):
AAAATGGCTT
Found at i:61840806 original size:15 final size:15
Alignment explanation
Indices: 61840786--61840817 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61840776 AAAATATGGG
61840786 GCCGAAGAGTTTAGA
1 GCCGAAGAGTTTAGA
61840801 GCCGAAGAGTTTAGA
1 GCCGAAGAGTTTAGA
61840816 GC
1 GC
61840818 TACTATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (15 bp):
GCCGAAGAGTTTAGA
Found at i:61848810 original size:19 final size:20
Alignment explanation
Indices: 61848767--61848811 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
61848757 TAACCAACTA
*
61848767 TTTTAAGAAAAACCATTAAT
1 TTTTAGGAAAAACCATTAAT
* *
61848787 ATTTAGGAAAAACC-TTAGT
1 TTTTAGGAAAAACCATTAAT
61848806 TTTTAG
1 TTTTAG
61848812 AGAGAACTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTTAGGAAAAACCATTAAT
Found at i:61857381 original size:27 final size:28
Alignment explanation
Indices: 61857351--61857453 Score: 99
Period size: 27 Copynumber: 3.8 Consensus size: 28
61857341 AGGAAGCGTC
*
61857351 CTGGTGGCTATGCCACAATTATTT-GA-T
1 CTGGTGGCTCTGCCAC-ATTATTTCGATT
*
61857378 CTGGTGGCTCTGCCACA-TATTTCTATT
1 CTGGTGGCTCTGCCACATTATTTCGATT
*
61857405 CTGGTGGCTCTGCCACGATTATCT-GTATT
1 CTGGTGGCTCTGCCAC-ATTATTTCG-ATT
* *
61857434 -TGGTGACTCTGTCACATTAT
1 CTGGTGGCTCTGCCACATTAT
61857454 CTATTCTGGC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
25 5 0.08
26 2 0.03
27 37 0.57
28 14 0.22
29 7 0.11
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACATTATTTCGATT
Found at i:61857457 original size:54 final size:54
Alignment explanation
Indices: 61857351--61857462 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
61857341 AGGAAGCGTC
* * *
61857351 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
61857405 CTGGTGGCTCTGCCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
61857459 CTGG
1 CTGG
61857463 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:61865300 original size:28 final size:27
Alignment explanation
Indices: 61865207--61865313 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
61865197 AGGAAGCGTC
*
61865207 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * * *
61865234 CTGGTGGCTCTACTACATATTTCT-TTT
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
61865261 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
61865289 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
61865314 TTTGGCAGCC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 45 0.69
28 18 0.28
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:61871510 original size:55 final size:53
Alignment explanation
Indices: 61871385--61871573 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
61871375 AACTTACCAT
* * * *
61871385 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCATAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
61871438 TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
** * * * *
61871493 TGCCATGTATTGACATGGTCTTACATGATTTCCTTGCATTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
61871547 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
61871574 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.29
54 34 0.30
55 42 0.37
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:61871823 original size:44 final size:44
Alignment explanation
Indices: 61871774--61871857 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
61871764 TCCTTAACCG
*
61871774 TCAATTCCTCCTTAA-ATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAATATG-CATGGTAT-AACCATGGACTTTTCCA
* *
61871818 TCAATTCTTCCTTAATTTGCATGGTATAACCATGGACTTT
1 TCAATTCCTCCTTAATATGCATGGTATAACCATGGACTTT
61871858 GAGATATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.06
44 31 0.89
45 2 0.06
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAATATGCATGGTATAACCATGGACTTTTCCA
Found at i:61887593 original size:40 final size:40
Alignment explanation
Indices: 61887516--61887692 Score: 166
Period size: 40 Copynumber: 4.4 Consensus size: 40
61887506 CTGTCCGGGC
* * * *
61887516 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT-TCCGGAT
*
61887556 TAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
* * *
61887596 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCC-GAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGA-T
* * * *
61887636 TAAGTCCCGAAGGCATTCGTACGAGTT-TTAAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATT-AATTCCGGAT
61887676 TAAGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
61887693 GTATGAGTTA
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.03
40 100 0.88
41 11 0.10
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
Found at i:61895841 original size:15 final size:15
Alignment explanation
Indices: 61895821--61895850 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61895811 CAAACTCTTG
61895821 TGATCAGTAAAAATA
1 TGATCAGTAAAAATA
61895836 TGATCAGTAAAAATA
1 TGATCAGTAAAAATA
61895851 CTTCAAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
TGATCAGTAAAAATA
Found at i:61898172 original size:41 final size:41
Alignment explanation
Indices: 61898129--61898262 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
61898119 GACCATGATT
*
61898129 CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATT
1 CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATC
** * ** **
61898170 CGATGAGGTA-TTGG-GT-ATA-TACTTACTTC-AGCAAGGC
1 CGATGAGACACTGGGTGTCATATTA-TTACTTCAAATAAATC
* *
61898207 CGATGAGACACTGGGTGTCAAATTATTACTTCAAAT-TATC
1 CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATC
*
61898247 CGATGAGGCACTGGGT
1 CGATGAGACACTGGGT
61898263 CCATATTGGT
Statistics
Matches: 69, Mismatches: 18, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
37 13 0.19
38 13 0.19
39 4 0.06
40 28 0.41
41 11 0.16
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATC
Found at i:61903448 original size:17 final size:17
Alignment explanation
Indices: 61903428--61903469 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
61903418 TTATTTTTCT
61903428 TTTATTTTTAAGATTCA
1 TTTATTTTTAAGATTCA
*
61903445 TTTAATTTTAAGATTCA
1 TTTATTTTTAAGATTCA
*
61903462 TTTGTTTT
1 TTTATTTT
61903470 CCTTTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTATTTTTAAGATTCA
Found at i:61907093 original size:7 final size:7
Alignment explanation
Indices: 61907077--61907107 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
61907067 TAATAATGTT
*
61907077 ATATATA
1 ATATAAA
61907084 ATATAAA
1 ATATAAA
61907091 ATATAAA
1 ATATAAA
61907098 ATATAAA
1 ATATAAA
61907105 ATA
1 ATA
61907108 AATTAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:61909082 original size:37 final size:37
Alignment explanation
Indices: 61909029--61909131 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
61909019 CGAATAGTCC
*
61909029 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
61909066 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
61909103 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
61909132 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:61909330 original size:48 final size:48
Alignment explanation
Indices: 61909272--61909458 Score: 356
Period size: 48 Copynumber: 3.9 Consensus size: 48
61909262 ATATACACAC
*
61909272 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
61909320 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
61909368 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
61909416 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
61909459 CATATATATT
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 137 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Done.