Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 300 of 320
Found at i:95411790 original size:98 final size:98
Alignment explanation
Indices: 95411670--95411893 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
95411660 TTTGAGTACT
*
95411670 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
95411735 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
95411768 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
95411833 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
95411866 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
95411894 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:95411902 original size:37 final size:37
Alignment explanation
Indices: 95411855--95412001 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
95411845 TGATAGCTTC
* *
95411855 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
95411892 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
95411929 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
95411966 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
95412001 G
1 G
95412002 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:95413331 original size:58 final size:58
Alignment explanation
Indices: 95413254--95413421 Score: 228
Period size: 58 Copynumber: 3.0 Consensus size: 58
95413244 CATGTGAACA
95413254 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
*
95413313 TGTGATATGTGATTCCGTGTAGGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
95413369 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
95413420 TG
1 TG
95413422 ATTACGTGTA
Statistics
Matches: 102, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
49 37 0.36
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 50 0.49
59 5 0.05
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:95413388 original size:49 final size:49
Alignment explanation
Indices: 95413314--95413456 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
95413304 AGTGATATGT
* *
95413314 GTGATATGTGATTCCGTGTAGGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
95413363 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
95413412 GTGATTTGTGATTACGTGTAAGACCATA-CTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGC-TGGGCTATGGCATCG
95413457 AGAAAACGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
49 85 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:95416660 original size:46 final size:46
Alignment explanation
Indices: 95416642--95416798 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
95416632 TGACAAGTGG
* * *
95416642 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
95416688 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
95416734 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
95416786 AAAGTGATAAGTG
1 AAAGTGATAAGTG
95416799 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:95416661 original size:52 final size:51
Alignment explanation
Indices: 95416590--95416798 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
95416580 ATCAAGTGAC
* **
95416590 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
95416642 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
95416688 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
95416739 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
95416792 ATAAGTG
1 A-AAGTG
95416799 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:95416696 original size:98 final size:98
Alignment explanation
Indices: 95416576--95416799 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
95416566 TTTGAGTACT
*
95416576 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
95416641 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
95416674 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
95416739 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
95416772 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
95416800 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:95416808 original size:37 final size:37
Alignment explanation
Indices: 95416761--95416907 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
95416751 TGATAGCTTC
* *
95416761 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
95416798 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
95416835 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
95416872 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
95416907 G
1 G
95416908 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:95420003 original size:13 final size:13
Alignment explanation
Indices: 95419986--95420010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95419976 TCTCCACAGC
95419986 ACTTTTTAAAAGT
1 ACTTTTTAAAAGT
95419999 ACTTTTTAAAAG
1 ACTTTTTAAAAG
95420011 CAATAAACAA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ACTTTTTAAAAGT
Found at i:95425783 original size:71 final size:70
Alignment explanation
Indices: 95425668--95425806 Score: 269
Period size: 71 Copynumber: 2.0 Consensus size: 70
95425658 TTTCAGTTTG
95425668 CTCTAGGCTGGTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATAT
1 CTCTAGGCTGGTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATAT
95425733 ATATA
66 ATATA
95425738 CTCTAGGCTGGTTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATA
1 CTCTAGGCTGG-TTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATA
95425803 TATA
65 TATA
95425807 AAAACTGATA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 11 0.16
71 57 0.84
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (70 bp):
CTCTAGGCTGGTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATAT
ATATA
Found at i:95425869 original size:17 final size:17
Alignment explanation
Indices: 95425836--95425868 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
95425826 TTGTAGCTTC
95425836 TTTGAAAACTTTAAAAA
1 TTTGAAAACTTTAAAAA
95425853 TTTG-AAACTTTAAAAA
1 TTTGAAAACTTTAAAAA
95425869 AAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTGAAAACTTTAAAAA
Found at i:95426970 original size:42 final size:41
Alignment explanation
Indices: 95426889--95426971 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
95426879 TGCCCGTGGG
* * *
95426889 GCTCCCATGGCGTGGGGCTAGCCCGTAGGCAGATTTGACTT
1 GCTCACATGGCGTGGGACTAACCCGTAGGCAGATTTGACTT
* *
95426930 GCTCACATGGCCGTGGGACTAACCTGTGGGCA-ATTCTGACTT
1 GCTCACATGG-CGTGGGACTAACCCGTAGGCAGATT-TGACTT
95426972 TACCACACGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 12 0.34
42 23 0.66
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (41 bp):
GCTCACATGGCGTGGGACTAACCCGTAGGCAGATTTGACTT
Found at i:95428778 original size:5 final size:5
Alignment explanation
Indices: 95428768--95428847 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
95428758 AATTTCTCCT
*
95428768 TTTTC TTTTC TTTTC TTTTC TTCTT- TCTTTC -TTTC TATTTC GTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC T-TTTC TTTTC T-TTTC TTTTC
* * *
95428814 TTCTC TGTTTAT TTTTC TTGT- TTTTC -TTTC TTTT
1 TTTTC T-TTT-C TTTTC TTTTC TTTTC TTTTC TTTT
95428848 ATTTATTCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
4 11 0.19
5 34 0.59
6 12 0.21
7 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:95429024 original size:3 final size:3
Alignment explanation
Indices: 95429016--95429045 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
95429006 TTGATAAAAT
95429016 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95429046 GTAAATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:95429030 original size:14 final size:14
Alignment explanation
Indices: 95429009--95429045 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
95428999 CAATTAATTG
*
95429009 ATAA-AATATAATA
1 ATAATAATAAAATA
95429022 ATAATAATAAAATA
1 ATAATAATAAAATA
95429036 ATAATAATAA
1 ATAATAATAA
95429046 GTAAATATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAAAATA
Found at i:95429036 original size:17 final size:18
Alignment explanation
Indices: 95429016--95429050 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
95429006 TTGATAAAAT
95429016 ATAATAATAATAA-TAAA
1 ATAATAATAATAAGTAAA
95429033 ATAATAATAATAAGTAAA
1 ATAATAATAATAAGTAAA
95429051 TATCTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAATAATAATAAGTAAA
Found at i:95429052 original size:14 final size:12
Alignment explanation
Indices: 95429016--95429045 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
95429006 TTGATAAAAT
95429016 ATAATAATAATA
1 ATAATAATAATA
95429028 ATAA-AATAATA
1 ATAATAATAATA
95429039 ATAATAA
1 ATAATAA
95429046 GTAAATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAATAATA
Found at i:95435393 original size:15 final size:15
Alignment explanation
Indices: 95435373--95435403 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
95435363 ATGCAGCAAT
95435373 GAATAAGAAGAAGAA
1 GAATAAGAAGAAGAA
95435388 GAATAAGAAGAAGAA
1 GAATAAGAAGAAGAA
95435403 G
1 G
95435404 CTTACTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (15 bp):
GAATAAGAAGAAGAA
Found at i:95435531 original size:14 final size:14
Alignment explanation
Indices: 95435512--95435544 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
95435502 CTGGGATTTG
95435512 GGTGGATCAGTGGA
1 GGTGGATCAGTGGA
*
95435526 GGTGGATCGGTGGA
1 GGTGGATCAGTGGA
95435540 GGTGG
1 GGTGG
95435545 TGGTGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.58, T:0.21
Consensus pattern (14 bp):
GGTGGATCAGTGGA
Found at i:95446471 original size:21 final size:20
Alignment explanation
Indices: 95446447--95446487 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
95446437 CAGGTTCTTA
*
95446447 TATTTTTTTTACTTATTTTTT
1 TATTTTTTTT-CTTATATTTT
95446468 TATTTTTTTTCTTATATTTT
1 TATTTTTTTTCTTATATTTT
95446488 GTCTCTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (20 bp):
TATTTTTTTTCTTATATTTT
Found at i:95446564 original size:18 final size:17
Alignment explanation
Indices: 95446513--95446560 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
95446503 TTTTTTAAGT
*
95446513 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
95446531 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
95446549 TTTATATTATTA
1 TTTATATTATTA
95446561 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:95446573 original size:23 final size:22
Alignment explanation
Indices: 95446547--95446631 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
95446537 TTGCTTATTT
*
95446547 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
95446570 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
**
95446592 TGTATTATAATATT-TTTTAAAA
1 AAT-TTATAATATTATTTTAAAA
95446614 AATTT-TAATTATTATTTT
1 AATTTATAA-TATTATTTT
95446632 TAAATTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.06
21 8 0.16
22 21 0.42
23 17 0.34
24 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:95446704 original size:38 final size:40
Alignment explanation
Indices: 95446635--95446718 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 40
95446625 TTATTTTTAA
* *
95446635 ATTTTTTTTTAAATTTATATATATATATATTTGTGAAATT
1 ATTTTTTTTTAAATTTATATATAAATATATTTGTCAAATT
* *
95446675 ATTTTTTTTATAAATTT-TA-A-AAATGTATTTTTCAAATT
1 ATTTTTTTT-TAAATTTATATATAAATATATTTGTCAAATT
*
95446713 AGTTTT
1 ATTTTT
95446719 GAAATTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
38 19 0.50
39 1 0.03
40 11 0.29
41 7 0.18
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.60
Consensus pattern (40 bp):
ATTTTTTTTTAAATTTATATATAAATATATTTGTCAAATT
Found at i:95447220 original size:21 final size:21
Alignment explanation
Indices: 95447178--95447221 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
95447168 TTTTGAAATT
* *
95447178 TTTTGTTTTTTTCTTATTTTA
1 TTTTGTTTATTTATTATTTTA
95447199 TTTTGTTTATTTATT-TTATTA
1 TTTTGTTTATTTATTATT-TTA
95447220 TT
1 TT
95447222 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTGTTTATTTATTATTTTA
Found at i:95447295 original size:21 final size:21
Alignment explanation
Indices: 95447256--95447299 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95447246 ATTTAAAATG
95447256 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
95447278 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
95447298 TT
1 TT
95447300 CTGTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:95450465 original size:30 final size:30
Alignment explanation
Indices: 95450429--95450551 Score: 192
Period size: 30 Copynumber: 4.1 Consensus size: 30
95450419 GTCCCAGAGC
*
95450429 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
95450459 AGTTCATATCACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
95450489 AGTTCATATCACCCGAACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
95450519 AGTTCATATCATCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
95450549 AGT
1 AGT
95450552 CTATTTGACC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:95453981 original size:26 final size:26
Alignment explanation
Indices: 95453926--95453981 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
95453916 GTTTCAGCCC
* *
95453926 TTTTTTTTTTTAAAGTTCTGACTTTC
1 TTTTTTTTTTTAAAGTCCTGACTTTA
* *
95453952 TTTTTTCTTTTTTAAGTCCTTA-TTTA
1 TTTTTT-TTTTTAAAGTCCTGACTTTA
95453978 TTTT
1 TTTT
95453982 ATTTATTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTTTTTTTTTAAAGTCCTGACTTTA
Found at i:95454037 original size:13 final size:13
Alignment explanation
Indices: 95454005--95454047 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
95453995 AACTTGAAAC
95454005 ATATTTTTTA-AA
1 ATATTTTTTATAA
*
95454017 A-ATGTTTTATAA
1 ATATTTTTTATAA
95454029 TATATTTTTTATAA
1 -ATATTTTTTATAA
95454043 ATATT
1 ATATT
95454048 AAAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 7 0.27
12 3 0.12
13 6 0.23
14 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
ATATTTTTTATAA
Found at i:95454696 original size:9 final size:9
Alignment explanation
Indices: 95454684--95454716 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
95454674 ATGTATAATA
95454684 AAAATAAAT
1 AAAATAAAT
*
95454693 AAAATAGAT
1 AAAATAAAT
95454702 AAAA-AAAT
1 AAAATAAAT
95454710 AAAATAA
1 AAAATAA
95454717 GAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:95454709 original size:17 final size:16
Alignment explanation
Indices: 95454680--95454725 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
95454670 TGAAATGTAT
*
95454680 AATAA-AAATAAATAA
1 AATAAGAAAAAAATAA
*
95454695 AATAGATAAAAAAATAA
1 AATA-AGAAAAAAATAA
95454712 AATAAGAAAAAAAT
1 AATAAGAAAAAAAT
95454726 TAGACTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 4 0.15
16 10 0.37
17 13 0.48
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (16 bp):
AATAAGAAAAAAATAA
Found at i:95454835 original size:37 final size:36
Alignment explanation
Indices: 95454765--95454835 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
95454755 AATAATTATT
*
95454765 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
95454801 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
95454836 TATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:95454915 original size:21 final size:21
Alignment explanation
Indices: 95454876--95454933 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
95454866 AAATAATAAT
95454876 TAAAAATTTTAAAAAATATTA
1 TAAAAATTTTAAAAAATATTA
*
95454897 TAAAACATTTTAAATATATATTA
1 TAAAA-ATTTTAAA-AAATATTA
* **
95454920 CAAATTTTTTAAAA
1 TAAAAATTTTAAAA
95454934 TTAATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.19
22 15 0.48
23 10 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATTTTAAAAAATATTA
Found at i:95454934 original size:23 final size:22
Alignment explanation
Indices: 95454853--95454934 Score: 55
Period size: 22 Copynumber: 3.7 Consensus size: 22
95454843 ATAAAGTTAA
95454853 AAAATATTTTTAGAAATA-ATAATT
1 AAAAT-TTTTTA-AAATATAT-ATT
* *
95454877 AAAA-ATTTTAAAAAATAT-TAT
1 AAAATTTTTTAAAATATATAT-T
**
95454898 AAAACATTTT-AAATATATATT
1 AAAATTTTTTAAAATATATATT
95454919 ACAAATTTTTTAAAAT
1 A-AAATTTTTTAAAAT
95454935 TAATAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
20 1 0.02
21 18 0.38
22 20 0.43
23 4 0.09
24 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (22 bp):
AAAATTTTTTAAAATATATATT
Found at i:95454981 original size:18 final size:18
Alignment explanation
Indices: 95454931--95454982 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
95454921 AAATTTTTTA
*
95454931 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
95454949 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
95454967 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
95454983 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:95455008 original size:38 final size:36
Alignment explanation
Indices: 95454936--95455010 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 36
95454926 TTTTAAAATT
* *
95454936 AATAATATAAATTAAATAAGTAAAATAAATTAAGAA
1 AATAATATAAATTAAAAAAGTAAAAAAAATTAAGAA
95454972 AATAATATAAAACTTAAAAAAG-AAAAAAAATATAAGAA
1 AATAATAT-AAA-TTAAAAAAGTAAAAAAAAT-TAAGAA
95455010 A
1 A
95455011 TAGACAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.24
37 11 0.32
38 15 0.44
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (36 bp):
AATAATATAAATTAAAAAAGTAAAAAAAATTAAGAA
Found at i:95455037 original size:18 final size:17
Alignment explanation
Indices: 95454957--95455037 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 17
95454947 TTAAATAAGT
95454957 AAAAT-AAATTAAGAAA
1 AAAATAAAATTAAGAAA
95454973 ATAATATAAAACTTAA-AAA
1 A-AA-ATAAAA-TTAAGAAA
*
95454992 AGAAAAAAAATATAAGAAA
1 A-AAATAAAAT-TAAGAAA
* * *
95455011 TAGACAAAATATAAGAAA
1 AAAATAAAAT-TAAGAAA
95455029 AAAATAAAA
1 AAAATAAAA
95455038 AAGTTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
16 1 0.02
17 3 0.06
18 31 0.61
19 12 0.24
20 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAAATTAAGAAA
Found at i:95455048 original size:16 final size:16
Alignment explanation
Indices: 95455027--95455064 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
95455017 AAATATAAGA
95455027 AAAAAAT-AAAAAAGTT
1 AAAAAATAAAAAAAG-T
95455043 AAAAAATAAAAAAAGT
1 AAAAAATAAAAAAAGT
95455059 AAAAAA
1 AAAAAA
95455065 AAATATAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAAAATAAAAAAAGT
Found at i:95455048 original size:17 final size:17
Alignment explanation
Indices: 95455026--95455065 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
95455016 AAAATATAAG
95455026 AAAAAAAT-AAAAAAGT
1 AAAAAAATAAAAAAAGT
*
95455042 TAAAAAATAAAAAAAGT
1 AAAAAAATAAAAAAAGT
95455059 AAAAAAA
1 AAAAAAA
95455066 AATATAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAAAAAGT
Found at i:95456004 original size:22 final size:20
Alignment explanation
Indices: 95455969--95456014 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
95455959 AATTTAGCTA
95455969 TTTTTTTCAATTTTCTGAAT
1 TTTTTTTCAATTTTCTGAAT
* *
95455989 TTTTTTTACAAGTTTTTTGAGT
1 TTTTTTT-CAA-TTTTCTGAAT
95456011 TTTT
1 TTTT
95456015 GCAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 12 0.55
ACGTcount: A:0.17, C:0.07, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTTTTCAATTTTCTGAAT
Found at i:95464186 original size:5 final size:5
Alignment explanation
Indices: 95464176--95464208 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
95464166 ATATATATGC
95464176 AAGCA AAGCA AAGCA AAGCA AAGCA AAGCA AAG
1 AAGCA AAGCA AAGCA AAGCA AAGCA AAGCA AAG
95464209 GAATGAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.18, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGCA
Found at i:95466920 original size:6 final size:6
Alignment explanation
Indices: 95466909--95466946 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
95466899 ACGAGGAAAT
95466909 GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GG
1 GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GG
95466947 ATTGGGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.32
Consensus pattern (6 bp):
GGCTTA
Found at i:95469638 original size:16 final size:17
Alignment explanation
Indices: 95469619--95469705 Score: 83
Period size: 16 Copynumber: 5.1 Consensus size: 17
95469609 TGGAAATAAT
95469619 TTAAATAC-ATTATACA
1 TTAAATACGATTATACA
95469635 TTAAATACGATTA-AC-
1 TTAAATACGATTATACA
*
95469650 TTAAGAATATTTCTATTATACA
1 TT-A-AATA---CGATTATACA
95469672 TTAAATAC-ATTATACA
1 TTAAATACGATTATACA
*
95469688 TTAAATACGATTAAACA
1 TTAAATACGATTATACA
95469705 T
1 T
95469706 ATTATACATT
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
15 2 0.03
16 27 0.45
17 17 0.28
20 9 0.15
21 3 0.05
22 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAAATACGATTATACA
Found at i:95470554 original size:34 final size:34
Alignment explanation
Indices: 95470516--95470589 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
95470506 TATATCAAAG
*
95470516 TAATTAAGTCTTAGACATAAAAATGGTAAGTTTA
1 TAATTAAGTCTTACACATAAAAATGGTAAGTTTA
* * * *
95470550 TAATTTCATTTTTACACATAAAAATGGTATGTTTA
1 TAA-TTAAGTCTTACACATAAAAATGGTAAGTTTA
95470585 TAATT
1 TAATT
95470590 TTATTTTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 5 0.15
35 29 0.85
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.42
Consensus pattern (34 bp):
TAATTAAGTCTTACACATAAAAATGGTAAGTTTA
Found at i:95470569 original size:35 final size:35
Alignment explanation
Indices: 95470530--95470600 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
95470520 TAAGTCTTAG
95470530 ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
1 ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
* *
95470565 ACATAAAAATGGTATGTTTATAATTTTATTTTTAC
1 ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
95470600 A
1 A
95470601 TATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (35 bp):
ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
Found at i:95471470 original size:17 final size:17
Alignment explanation
Indices: 95471420--95471482 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
95471410 TTAATTATAT
*
95471420 TATATTTTTATTATTTA
1 TATATATTTATTATTTA
* *
95471437 TA-AAATTTATCACATTTA
1 TATATATTTAT--TATTTA
*
95471455 TATATTTTTATTATTTA
1 TATATATTTATTATTTA
*
95471472 TCTATATTTAT
1 TATATATTTAT
95471483 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 6 0.17
17 16 0.46
18 7 0.20
19 6 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATTTATTATTTA
Found at i:95472631 original size:19 final size:21
Alignment explanation
Indices: 95472595--95472634 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
95472585 ATAATAATTA
95472595 CATTTATTTTTAACTTCTTTT
1 CATTTATTTTTAACTTCTTTT
*
95472616 CATTT-TTTTT-ATTTCTTTT
1 CATTTATTTTTAACTTCTTTT
95472635 TAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (21 bp):
CATTTATTTTTAACTTCTTTT
Found at i:95473462 original size:4 final size:4
Alignment explanation
Indices: 95473453--95473479 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
95473443 ATTATTGGTT
95473453 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
95473480 TGTTACCGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:95474534 original size:69 final size:69
Alignment explanation
Indices: 95474423--95474557 Score: 234
Period size: 69 Copynumber: 2.0 Consensus size: 69
95474413 TTAATCTTAT
95474423 TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTGTTATAGT
1 TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTGTTATAGT
95474488 TTAC
66 TTAC
* * * *
95474492 TTCCTCCTAAACAAGTTTATTAGCCAATTCATTAGCATCTTACTTATTTTTAATGGTGTTATAGT
1 TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTGTTATAGT
95474557 T
66 T
95474558 AATTTGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (69 bp):
TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTGTTATAGT
TTAC
Found at i:95475622 original size:18 final size:17
Alignment explanation
Indices: 95475596--95475629 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
95475586 ATTTTAACTT
*
95475596 TTCTTTTTTTTCTCTCTC
1 TTCTATTTTTTC-CTCTC
95475614 TTCTATTTTTTCCTCT
1 TTCTATTTTTTCCTCT
95475630 ATTTTCCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTATTTTTTCCTCTC
Found at i:95491382 original size:18 final size:17
Alignment explanation
Indices: 95491361--95491395 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
95491351 TTATTATTTA
*
95491361 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
95491379 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
95491396 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:95491487 original size:147 final size:149
Alignment explanation
Indices: 95491280--95491554 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
95491270 ATGATTATTG
* *
95491280 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTATTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
95491345 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
95491410 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
95491429 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
95491492 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
95491555 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:95491529 original size:18 final size:17
Alignment explanation
Indices: 95491508--95491542 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
95491498 TTATTATTAA
*
95491508 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
95491526 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
95491543 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:95491586 original size:54 final size:54
Alignment explanation
Indices: 95491528--95491706 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
95491518 ATTAAAATAT
*
95491528 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
95491582 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
95491645 TAT
53 -AC
*
95491648 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
95491702 ATAAT
1 ATAAT
95491707 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:95491649 original size:18 final size:17
Alignment explanation
Indices: 95491628--95491662 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
95491618 TTATTATTAA
95491628 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
95491646 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
95491663 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:95491777 original size:18 final size:17
Alignment explanation
Indices: 95491738--95491769 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
95491728 TTTTAAATAA
95491738 TTAATATTAAATATATT
1 TTAATATTAAATATATT
95491755 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
95491770 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:95491794 original size:120 final size:120
Alignment explanation
Indices: 95491491--95491783 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
95491481 ATCATATTTA
95491491 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
95491556 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
95491611 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
95491676 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
95491732 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
95491784 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:95494465 original size:14 final size:14
Alignment explanation
Indices: 95494440--95494474 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
95494430 AAGAAGAAGC
*
95494440 AGAAATATGGAGGAA
1 AGAAA-ATGGAGAAA
95494455 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
95494469 AGAAAA
1 AGAAAA
95494475 GAAATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:95494477 original size:19 final size:18
Alignment explanation
Indices: 95494453--95494494 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
95494443 AATATGGAGG
95494453 AAAGAAAATG-GAGAAAAGA
1 AAAGAAAATGTGAG--AAGA
95494472 AAAG-AAATGTGAGAAGA
1 AAAGAAAATGTGAGAAGA
95494489 AAAGAA
1 AAAGAA
95494495 GCGTACCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (18 bp):
AAAGAAAATGTGAGAAGA
Found at i:95509754 original size:32 final size:33
Alignment explanation
Indices: 95509712--95509775 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
95509702 CACATTTACG
*
95509712 TGACAAAGTGAGGCGTGCCT-TAATCAGTTTCTC
1 TGACAAAGTGAGGCGTG-CTATAATCAATTTCTC
*
95509745 TGAC-AAGTGAGGTGTGCTATAATCAATTTCT
1 TGACAAAGTGAGGCGTGCTATAATCAATTTCT
95509776 GTTAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 22 0.79
33 4 0.14
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (33 bp):
TGACAAAGTGAGGCGTGCTATAATCAATTTCTC
Found at i:95512936 original size:36 final size:36
Alignment explanation
Indices: 95512869--95512951 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
95512859 AGGATAACCC
* * * * *
95512869 TGAGGGGGATATCCTCCATGTGGATGGTGTCCTACA
1 TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
* *
95512905 TGAGGGGGATACCCTCCGGGAGGAAGATGTCCTCCA
1 TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
* *
95512941 TGTGGTGGATA
1 TGAGGGGGATA
95512952 TCCTGGGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.24
Consensus pattern (36 bp):
TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
Found at i:95512955 original size:18 final size:18
Alignment explanation
Indices: 95512869--95512955 Score: 50
Period size: 18 Copynumber: 4.8 Consensus size: 18
95512859 AGGATAACCC
*
95512869 TGAGGGGGATATCCTCCA
1 TGAGGTGGATATCCTCCA
* * *
95512887 TGTGGATGG-TGTCCTACA
1 TGAGG-TGGATATCCTCCA
* * *
95512905 TGAGGGGGATACCCTCCG
1 TGAGGTGGATATCCTCCA
* ** *
95512923 GGAGGAAGATGTCCTCCA
1 TGAGGTGGATATCCTCCA
*
95512941 TGTGGTGGATATCCT
1 TGAGGTGGATATCCT
95512956 GGGTGTCCCC
Statistics
Matches: 46, Mismatches: 21, Indels: 4
0.65 0.30 0.06
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.34, T:0.25
Consensus pattern (18 bp):
TGAGGTGGATATCCTCCA
Found at i:95524158 original size:22 final size:22
Alignment explanation
Indices: 95524133--95524174 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95524123 AAAAATATAA
*
95524133 AATTCAAATGTAATTTTTATTT
1 AATTCAAATATAATTTTTATTT
* *
95524155 AATTCCAATATATTTTTTAT
1 AATTCAAATATAATTTTTAT
95524175 ATTTCATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTCAAATATAATTTTTATTT
Found at i:95525504 original size:3 final size:3
Alignment explanation
Indices: 95525496--95525525 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
95525486 GTCTCAAAGG
95525496 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
95525526 CAAAACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:95533903 original size:16 final size:16
Alignment explanation
Indices: 95533882--95533912 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95533872 TCTAGTTGTC
95533882 CATATATATGTATATA
1 CATATATATGTATATA
95533898 CATATATATGTATAT
1 CATATATATGTATAT
95533913 GTTATCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
CATATATATGTATATA
Found at i:95536936 original size:167 final size:167
Alignment explanation
Indices: 95536660--95536992 Score: 639
Period size: 167 Copynumber: 2.0 Consensus size: 167
95536650 GCTATGAGTA
95536660 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
1 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
*
95536725 TTGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGATGATATGATG
66 TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGATGATATGATG
95536790 TTGATGATAAACGCTAAGTTATATGTGTGTATTTATT
131 TTGATGATAAACGCTAAGTTATATGTGTGTATTTATT
*
95536827 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTGAAAAGT
1 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
95536892 TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGATGATATGATG
66 TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGATGATATGATG
*
95536957 TTGATGATAAATGCTAAGTTATATGTGTGTATTTAT
131 TTGATGATAAACGCTAAGTTATATGTGTGTATTTAT
95536993 GAGAACTCAG
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 163 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (167 bp):
AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGATGATATGATG
TTGATGATAAACGCTAAGTTATATGTGTGTATTTATT
Found at i:95538259 original size:32 final size:30
Alignment explanation
Indices: 95538184--95538281 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 30
95538174 AAAGTTAATG
*
95538184 CACGTGAATAATGCTTAAATGAATAAGTATC
1 CACGTGAATTATGCTTAAATGAA-AAGTATC
** *
95538215 CACAAGAATTATGCTTAACCATGAAAAGTATT
1 CACGTGAATTATGCTTAA--ATGAAAAGTATC
*
95538247 CACGTGATTTATGCTTAATAGTGAAAAGTATC
1 CACGTGAATTATGCTTAA-A-TGAAAAGTATC
95538279 CAC
1 CAC
95538282 ATGTTAGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 16 0.29
32 34 0.62
33 5 0.09
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (30 bp):
CACGTGAATTATGCTTAAATGAAAAGTATC
Found at i:95540104 original size:17 final size:18
Alignment explanation
Indices: 95540082--95540120 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95540072 CAATATTCAA
*
95540082 TTCACAATTC-ACACATT
1 TTCACAACTCAACACATT
*
95540099 TTCACAACTCAATACATT
1 TTCACAACTCAACACATT
95540117 TTCA
1 TTCA
95540121 TTCAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (18 bp):
TTCACAACTCAACACATT
Found at i:95542051 original size:15 final size:15
Alignment explanation
Indices: 95542031--95542064 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
95542021 TTTCAAAAAA
95542031 TTTAAAATTAATATT
1 TTTAAAATTAATATT
95542046 TTTAAAATTAATATT
1 TTTAAAATTAATATT
95542061 TTTA
1 TTTA
95542065 GAATATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATTAATATT
Found at i:95542334 original size:19 final size:19
Alignment explanation
Indices: 95542312--95542372 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
95542302 CTCTAACTTA
95542312 AATATTTTATTCTATATAT
1 AATATTTTATTCTATATAT
**
95542331 AATAATTTTA-AGTA-ATACT
1 AAT-ATTTTATTCTATATA-T
95542350 ATATATTTTATTCTATATGAT
1 A-ATATTTTATTCTATAT-AT
95542371 AA
1 AA
95542373 AATAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 11 0.34
21 4 0.12
22 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
AATATTTTATTCTATATAT
Found at i:95548864 original size:19 final size:18
Alignment explanation
Indices: 95548832--95548883 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
95548822 AATTTTAATA
95548832 TTATAAAT-TCAATTAATTAT
1 TTATAAATAT-AATT-ATT-T
95548852 TT-TAAATATAATTATTT
1 TTATAAATATAATTATTT
95548869 TTAATAAATATAATT
1 TT-ATAAATATAATT
95548884 TCTATATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 20 0.69
20 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATAAATATAATTATTT
Found at i:95548865 original size:15 final size:15
Alignment explanation
Indices: 95548845--95548874 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95548835 TAAATTCAAT
95548845 TAATTATTTTAAATA
1 TAATTATTTTAAATA
*
95548860 TAATTATTTTTAATA
1 TAATTATTTTAAATA
95548875 AATATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTATTTTAAATA
Found at i:95550017 original size:14 final size:14
Alignment explanation
Indices: 95550000--95550028 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95549990 TATTTGTTTT
95550000 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
95550014 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
95550028 T
1 T
95550029 ATAGTCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:95564107 original size:11 final size:11
Alignment explanation
Indices: 95564091--95564115 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
95564081 GTGGATCAGC
95564091 TATACTAGAGT
1 TATACTAGAGT
95564102 TATACTAGAGT
1 TATACTAGAGT
95564113 TAT
1 TAT
95564116 GTGCCAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (11 bp):
TATACTAGAGT
Found at i:95565345 original size:2 final size:2
Alignment explanation
Indices: 95565338--95565368 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95565328 GCTGCGTGGC
95565338 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
95565369 CTGCATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:95578286 original size:52 final size:52
Alignment explanation
Indices: 95578210--95578408 Score: 239
Period size: 52 Copynumber: 3.9 Consensus size: 52
95578200 CCATGGCAGC
* *
95578210 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
95578263 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * * *
95578315 ATGTGATATGTGCTACTGTGTAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * *
95578363 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
95578409 TATGTGATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
46 25 0.20
47 11 0.09
50 2 0.02
52 78 0.62
53 10 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:95585246 original size:53 final size:52
Alignment explanation
Indices: 95585143--95585247 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 52
95585133 GATCATAGAC
* *
95585143 ATGTAATCTACTCTAATAATATGTTAACGAATTTTAAAACTATTGGATAATT
1 ATGTAATCTAATCTAATAATATGTTAACGAATTTTAAAACTAGTGGATAATT
* * * *
95585195 ATGTAATCTAATTTAATATTATGTTTGACTAATTTTAAAACTAGTGGATAATT
1 ATGTAATCTAATCTAATAATATG-TTAACGAATTTTAAAACTAGTGGATAATT
95585248 CAAAATCTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 20 0.43
53 26 0.57
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (52 bp):
ATGTAATCTAATCTAATAATATGTTAACGAATTTTAAAACTAGTGGATAATT
Found at i:95606493 original size:46 final size:46
Alignment explanation
Indices: 95606392--95606479 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
95606382 TGTAACCCGC
* * * *
95606392 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
95606438 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGCTC
95606480 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:95609905 original size:209 final size:209
Alignment explanation
Indices: 95609545--95609958 Score: 810
Period size: 209 Copynumber: 2.0 Consensus size: 209
95609535 CATAACTACC
95609545 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
1 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
95609610 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
66 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
*
95609675 TACTCGTGAAAAAGGAAAAATTGCAGAATAGTCCCTGAACTACTGCAATTATTACAACTCAATTC
131 TACTCGTGAAAAAGGAAAAATTGCAGAATAGTCACTGAACTACTGCAATTATTACAACTCAATTC
95609740 AGGTAAGTTTAACT
196 AGGTAAGTTTAACT
*
95609754 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTCGAATATCAAGTTAGATTCAAGAAATAGAA
1 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
95609819 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
66 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
95609884 TACTCGTGAAAAAGGAAAAATTGCAGAATAGTCACTGAACTACTGCAATTATTACAACTCAATTC
131 TACTCGTGAAAAAGGAAAAATTGCAGAATAGTCACTGAACTACTGCAATTATTACAACTCAATTC
95609949 AGGTAAGTTT
196 AGGTAAGTTT
95609959 GTATGGTTAA
Statistics
Matches: 203, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 203 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (209 bp):
AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
TACTCGTGAAAAAGGAAAAATTGCAGAATAGTCACTGAACTACTGCAATTATTACAACTCAATTC
AGGTAAGTTTAACT
Found at i:95612191 original size:40 final size:39
Alignment explanation
Indices: 95612112--95612192 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 39
95612102 AAAAAATCAA
* * * *
95612112 ATTTATATTAATATAATATAATTAAAATTTACTAGACTTT
1 ATTTATATTAATAAAATAAAATAAAAATTTAC-AAACTTT
95612152 ATTTATATTAATAAAATAAAAGTAAATAATTTA-AAACTTT
1 ATTTATATTAATAAAATAAAA-TAAA-AATTTACAAACTTT
95612192 A
1 A
95612193 GAAAATAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 26 0.74
41 3 0.09
42 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (39 bp):
ATTTATATTAATAAAATAAAATAAAAATTTACAAACTTT
Found at i:95613052 original size:17 final size:18
Alignment explanation
Indices: 95613023--95613065 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
95613013 AATTTCATAT
*
95613023 TTTTATTTTTTTTTATAA
1 TTTTATATTTTTTTATAA
*
95613041 TTTT-TA-TTTTTTGTAA
1 TTTTATATTTTTTTATAA
95613057 TTTTATATT
1 TTTTATATT
95613066 ATTATTGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 13 0.62
17 3 0.14
18 5 0.24
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTATATTTTTTTATAA
Found at i:95613104 original size:10 final size:10
Alignment explanation
Indices: 95613079--95613181 Score: 50
Period size: 10 Copynumber: 10.3 Consensus size: 10
95613069 ATTGACGTAC
*
95613079 TTTTTAATAA
1 TTTTTTATAA
*
95613089 TATTTTATAA
1 TTTTTTATAA
** *
95613099 TTTTTTGCAC
1 TTTTTTATAA
*
95613109 TTTATTATATA
1 TTTTTTATA-A
*
95613120 TTTTTAAT-A
1 TTTTTTATAA
*
95613129 TTTTTTATTA
1 TTTTTTATAA
* *
95613139 -TGTTAATAA
1 TTTTTTATAA
95613148 TTTTTTAT-A
1 TTTTTTATAA
*
95613157 TTTTTCTACAAA
1 TTTTT-TA-TAA
*
95613169 GTTTTTATAA
1 TTTTTTATAA
95613179 TTT
1 TTT
95613182 GTTTTTTCAT
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
9 20 0.31
10 32 0.49
11 8 0.12
12 5 0.08
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:95619711 original size:14 final size:15
Alignment explanation
Indices: 95619692--95619720 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95619682 CTACTAATTA
95619692 TCTTATTTT-TTTTC
1 TCTTATTTTATTTTC
95619706 TCTTATTTTATTTTC
1 TCTTATTTTATTTTC
95619721 AAATGTTTTT
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:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTATTTTATTTTC
Found at i:95626296 original size:25 final size:26
Alignment explanation
Indices: 95626264--95626318 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
95626254 TTATTAAATT
*
95626264 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
95626289 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
95626314 A-ATAT
1 ATATAT
95626319 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:95626505 original size:44 final size:45
Alignment explanation
Indices: 95626456--95626550 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
95626446 TTACACCTCT
* *
95626456 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
95626500 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
95626545 ATTACA
1 ATTACA
95626551 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:95626550 original size:16 final size:16
Alignment explanation
Indices: 95626531--95626582 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
95626521 GATTTGCTAT
* *
95626531 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
95626547 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
95626563 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
95626579 TACA
1 TACA
95626583 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:95626643 original size:19 final size:20
Alignment explanation
Indices: 95626607--95626644 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
95626597 CTCTTAGTTT
* *
95626607 TAAAAAGTTGAATGATTAAA
1 TAAAAAATTGAATAATTAAA
95626627 TAAAAAATT-AATAATTAA
1 TAAAAAATTGAATAATTAA
95626645 GTGATCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAAAATTGAATAATTAAA
Found at i:95630037 original size:25 final size:25
Alignment explanation
Indices: 95630009--95630061 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
95629999 CATATGATTT
95630009 AATATAAAATACTA-TTTAAATATTA
1 AATAT-AAATACTATTTTAAATATTA
* * *
95630034 AATATTAATATTATTTTTAATATTA
1 AATATAAATACTATTTTAAATATTA
95630059 AAT
1 AAT
95630062 TGATGTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATAAATACTATTTTAAATATTA
Found at i:95630331 original size:20 final size:20
Alignment explanation
Indices: 95630303--95630343 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
95630293 TAGTTGAGAG
* * *
95630303 AATTGAAAAAATATGATTTA
1 AATTAAAAAAAAATGACTTA
95630323 AATTAAAAAAAAATGACTTA
1 AATTAAAAAAAAATGACTTA
95630343 A
1 A
95630344 GTTTATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AATTAAAAAAAAATGACTTA
Found at i:95635743 original size:55 final size:55
Alignment explanation
Indices: 95635654--95635764 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
95635644 TAGGAGCTGC
*
95635654 TTCTGGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
1 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
95635709 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
1 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
95635764 T
1 T
95635765 CTTCAAAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.50
Consensus pattern (55 bp):
TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
Found at i:95637435 original size:14 final size:14
Alignment explanation
Indices: 95637416--95637451 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
95637406 TGGTTCAAGA
95637416 GCTGAAAGGCAGCG
1 GCTGAAAGGCAGCG
*
95637430 GCTGAAA-GCAGTG
1 GCTGAAAGGCAGCG
95637443 GCTGAAAGG
1 GCTGAAAGG
95637452 GAGAAGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.17, G:0.42, T:0.11
Consensus pattern (14 bp):
GCTGAAAGGCAGCG
Found at i:95641160 original size:15 final size:17
Alignment explanation
Indices: 95641121--95641157 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
95641111 ATCACAAATA
95641121 ATTAATTAA-AATATATT
1 ATTAA-TAATAATATATT
95641138 ATTAATAATAATAT-TT
1 ATTAATAATAATATATT
95641154 ATTA
1 ATTA
95641158 TAAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATAATAATATATT
Found at i:95649451 original size:22 final size:22
Alignment explanation
Indices: 95649426--95649471 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
95649416 TTTAAATATT
95649426 ATAATCTTATTTTAATTAACAC
1 ATAATCTTATTTTAATTAACAC
95649448 ATAATCTTATTTTAATTAACAC
1 ATAATCTTATTTTAATTAACAC
95649470 AT
1 AT
95649472 GATTACACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATCTTATTTTAATTAACAC
Found at i:95650325 original size:16 final size:15
Alignment explanation
Indices: 95650286--95650332 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
95650276 AGATCTGACA
*
95650286 CCTTCTCTTCTTTTT
1 CCTTCTTTTCTTTTT
95650301 CCTTCTTTTCTTTTT
1 CCTTCTTTTCTTTTT
95650316 -CTCTCTTTTTCTTTTT
1 CCT-TC-TTTTCTTTTT
95650332 C
1 C
95650333 GTGTTTAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 16 0.57
16 10 0.36
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
CCTTCTTTTCTTTTT
Found at i:95660473 original size:2 final size:2
Alignment explanation
Indices: 95660466--95660491 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95660456 CTCTAATTCA
95660466 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
95660492 TTCTAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:95664081 original size:4 final size:4
Alignment explanation
Indices: 95664072--95664098 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
95664062 AGCATATCAG
95664072 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
95664099 CCCCTATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:95669204 original size:27 final size:24
Alignment explanation
Indices: 95669153--95669211 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
95669143 GTAAAATGGG
95669153 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
95669177 TTTTAAAATAA-GTAATATATAAGTTAA
1 -TTTAAAATAAGGT-ATATA-AA-ATAA
95669204 TTTAAAAT
1 TTTAAAAT
95669212 GATATATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.50
26 10 0.33
27 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:95669238 original size:22 final size:22
Alignment explanation
Indices: 95669213--95669255 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
95669203 ATTTAAAATG
*
95669213 ATATATAACAAG-TTTAAAAAAA
1 ATATATAA-AAGAATTAAAAAAA
*
95669235 ATATGTAAAAGAATTAAAAAA
1 ATATATAAAAGAATTAAAAAA
95669256 GAGACAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (22 bp):
ATATATAAAAGAATTAAAAAAA
Found at i:95671628 original size:44 final size:44
Alignment explanation
Indices: 95671427--95671631 Score: 126
Period size: 44 Copynumber: 4.6 Consensus size: 44
95671417 GTCTGCCCCA
* * * * * * *
95671427 CTGCAATTTCAGTGAGATAAGACTT-GTAACTTTAACCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGA-TTCGCAACTTTAATCTACTCCG
* * * * ** * *
95671471 CTGTAACTTCAGGGGGATAAGGTTCGCTATTCTTCGATCTATTCCA
1 CTGCAACTTCAGGGAGATAAGATTCGC-A-ACTTTAATCTACTCCG
* *
95671517 CTGCAACTTCAGGGAGATAAGA-TCTGCAACTTTAATCTATTCCT
1 CTGCAACTTCAGGGAGATAAGATTC-GCAACTTTAATCTACTCCG
** * * * * * *
95671561 CTGTGACTTCAAGAAGATGAGATTCGCGATTTTAATCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGATTCGCAACTTTAATCTACTCCG
*
95671605 CTGCAACTTCAGGGAGACAAGATTCGC
1 CTGCAACTTCAGGGAGATAAGATTCGC
95671632 CATGGTGATT
Statistics
Matches: 120, Mismatches: 36, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
43 2 0.02
44 82 0.68
45 6 0.05
46 30 0.25
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTCGCAACTTTAATCTACTCCG
Found at i:95676143 original size:53 final size:53
Alignment explanation
Indices: 95676062--95676227 Score: 230
Period size: 53 Copynumber: 3.1 Consensus size: 53
95676052 GACGAAAAAT
*
95676062 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGA-A
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT-ATA
95676114 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * * *
95676167 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-A
95676221 TATGTGA
1 -ATGTGA
95676228 ACCGTGTAAG
Statistics
Matches: 104, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 82 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:95680802 original size:3 final size:3
Alignment explanation
Indices: 95680787--95680836 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
95680777 AAGCATAAAC
* * *
95680787 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95680835 TA
1 TA
95680837 GTAAAATCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:95681742 original size:26 final size:27
Alignment explanation
Indices: 95681712--95681775 Score: 121
Period size: 26 Copynumber: 2.4 Consensus size: 27
95681702 CAAAAAATTT
95681712 CCTTTTTTATTCCATTACCAACTTT-C
1 CCTTTTTTATTCCATTACCAACTTTCC
95681738 CCTTTTTTATTCCATTACCAACTTTCC
1 CCTTTTTTATTCCATTACCAACTTTCC
95681765 CCTTTTTTATT
1 CCTTTTTTATT
95681776 TTTTATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 25 0.68
27 12 0.32
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (27 bp):
CCTTTTTTATTCCATTACCAACTTTCC
Found at i:95682462 original size:35 final size:35
Alignment explanation
Indices: 95682411--95682506 Score: 156
Period size: 35 Copynumber: 2.7 Consensus size: 35
95682401 AGAGGTGGAA
* *
95682411 GTGGTAGACAGCATGGGAGAGTGGGAGTGGCGCTG
1 GTGGCAGACAGCATGGGAGAATGGGAGTGGCGCTG
* *
95682446 GTGGCAGACAACATGGGAGAATGGGAGTGGTGCTG
1 GTGGCAGACAGCATGGGAGAATGGGAGTGGCGCTG
95682481 GTGGCAGACAGCATGGGAGAATGGGA
1 GTGGCAGACAGCATGGGAGAATGGGA
95682507 AGAGGCAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.25, C:0.11, G:0.48, T:0.16
Consensus pattern (35 bp):
GTGGCAGACAGCATGGGAGAATGGGAGTGGCGCTG
Found at i:95682965 original size:25 final size:25
Alignment explanation
Indices: 95682931--95682984 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
95682921 TCGACTGAAT
*
95682931 TTTGAATAGGTTTTCTTTCTTGTC-A
1 TTTGAATAGGTTCTCTTT-TTGTCGA
*
95682956 TTTGATTAGGTTCTCTTTTTGTCGA
1 TTTGAATAGGTTCTCTTTTTGTCGA
95682981 TTTG
1 TTTG
95682985 TTTCTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.13, C:0.11, G:0.19, T:0.57
Consensus pattern (25 bp):
TTTGAATAGGTTCTCTTTTTGTCGA
Found at i:95687725 original size:32 final size:32
Alignment explanation
Indices: 95687663--95687725 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
95687653 GATCAATAAT
* *
95687663 ATTGATAGTATATATTGATATTTATTCAATAC
1 ATTGATAGTATATATTGATAATTATACAATAC
*
95687695 ATTGATAGTATATATTTATACATTA-ACAATA
1 ATTGATAGTATATATTGATA-ATTATACAATA
95687726 AATTATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.44
Consensus pattern (32 bp):
ATTGATAGTATATATTGATAATTATACAATAC
Found at i:95694789 original size:51 final size:51
Alignment explanation
Indices: 95694673--95694809 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
95694663 CTACCATCAA
* *
95694673 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
* * ** * * * **
95694724 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
*
95694775 ATCTCTAAGATTATAATATCATATCCTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
95694810 AGTTACCATA
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
Found at i:95697801 original size:51 final size:51
Alignment explanation
Indices: 95697685--95697821 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
95697675 CTACCATCAA
* *
95697685 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
* * ** * * * **
95697736 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
*
95697787 ATCTCTAAGATTATAATATCATATCCTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
95697822 AGTTACCATA
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
Found at i:95699733 original size:21 final size:21
Alignment explanation
Indices: 95699707--95699750 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
95699697 TAAATCAATT
95699707 TTATCATATTAAAATATATTA
1 TTATCATATTAAAATATATTA
95699728 TTATCATATTAAAATATATTA
1 TTATCATATTAAAATATATTA
95699749 TT
1 TT
95699751 TATCTCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATCATATTAAAATATATTA
Found at i:95704261 original size:21 final size:21
Alignment explanation
Indices: 95704237--95704298 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
95704227 CTTGTGGAAT
*
95704237 GAGGCAGAGGAAACTGAGGAG
1 GAGGTAGAGGAAACTGAGGAG
95704258 GAGGTAGAGGAAACTGAGGAG
1 GAGGTAGAGGAAACTGAGGAG
* *
95704279 GTGGTAGAGGAAATTGAGGA
1 GAGGTAGAGGAAACTGAGGA
95704299 TACACTTCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.47, T:0.11
Consensus pattern (21 bp):
GAGGTAGAGGAAACTGAGGAG
Found at i:95708139 original size:29 final size:30
Alignment explanation
Indices: 95708080--95708137 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
95708070 TCCGAGCCTT
*
95708080 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
95708110 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
95708138 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:95708367 original size:13 final size:13
Alignment explanation
Indices: 95708349--95708380 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
95708339 TTTCCAGCAA
95708349 TTATGAATTTATT
1 TTATGAATTTATT
95708362 TTATGAATTTATT
1 TTATGAATTTATT
*
95708375 TGATGA
1 TTATGA
95708381 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:95708595 original size:50 final size:50
Alignment explanation
Indices: 95708475--95708716 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
95708465 ATTTGGGTAA
* * *
95708475 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
95708531 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
95708581 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
95708631 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
95708681 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
95708717 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:95708662 original size:100 final size:104
Alignment explanation
Indices: 95708479--95708724 Score: 349
Period size: 100 Copynumber: 2.4 Consensus size: 104
95708469 GGGTAAAGAG
*
95708479 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* *
95708544 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
* * * *
95708585 GTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
95708647 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
*
95708686 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
95708725 GTTATTATCA
Statistics
Matches: 127, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.40
101 38 0.30
105 2 0.02
106 35 0.28
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:95714103 original size:30 final size:30
Alignment explanation
Indices: 95714067--95714146 Score: 160
Period size: 30 Copynumber: 2.7 Consensus size: 30
95714057 TTTGTTGGTC
95714067 CCATCTTGCTCATTTCCAGTACGGTTAGAG
1 CCATCTTGCTCATTTCCAGTACGGTTAGAG
95714097 CCATCTTGCTCATTTCCAGTACGGTTAGAG
1 CCATCTTGCTCATTTCCAGTACGGTTAGAG
95714127 CCATCTTGCTCATTTCCAGT
1 CCATCTTGCTCATTTCCAGT
95714147 CGGGCTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (30 bp):
CCATCTTGCTCATTTCCAGTACGGTTAGAG
Found at i:95719249 original size:15 final size:15
Alignment explanation
Indices: 95719224--95719256 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
95719214 AATTGTTTCA
95719224 ATTTTATTTTAT-TT
1 ATTTTATTTTATATT
95719238 ATTTTAATTTTATATT
1 ATTTT-ATTTTATATT
95719254 ATT
1 ATT
95719257 CTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTATATT
Found at i:95719277 original size:12 final size:12
Alignment explanation
Indices: 95719260--95719284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95719250 TATTATTCTA
95719260 TAAAATTTAATT
1 TAAAATTTAATT
95719272 TAAAATTTAATT
1 TAAAATTTAATT
95719284 T
1 T
95719285 TTTATTTAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATTTAATT
Found at i:95720825 original size:39 final size:40
Alignment explanation
Indices: 95720778--95720882 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
95720768 GCTCTCCCAT
* *
95720778 CCCTCTCCCTCTTCCCCACCATCCCT-CCCCCTATTCCGA
1 CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
** *
95720817 TTCTCTCCCTCTCCCCCACCGTCCCTCCCCCCTACTCCGA
1 CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
95720857 CCCTCTCCCTCTCCCCCACCATCCCT
1 CCCTCTCCCTCTCCCCCACCATCCCT
95720883 TTCCCTCTGC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 22 0.39
40 35 0.61
ACGTcount: A:0.09, C:0.64, G:0.03, T:0.25
Consensus pattern (40 bp):
CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
Found at i:95724988 original size:8 final size:9
Alignment explanation
Indices: 95724957--95724996 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
95724947 TCAGAAATAG
95724957 TTTTTATAAA
1 TTTTTA-AAA
**
95724967 TTTTTTGAA
1 TTTTTAAAA
95724976 TTTTTAAAA
1 TTTTTAAAA
95724985 TTTTTAAAA
1 TTTTTAAAA
95724994 TTT
1 TTT
95724997 AATTAAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:95744270 original size:20 final size:20
Alignment explanation
Indices: 95744245--95744283 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95744235 TTGAACAGTC
95744245 ACAGAAACAGAGAA-AAAGAA
1 ACAG-AACAGAGAAGAAAGAA
*
95744265 ACAGAATAGAGAAGAAAGA
1 ACAGAACAGAGAAGAAAGA
95744284 CAAGGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.08, G:0.23, T:0.03
Consensus pattern (20 bp):
ACAGAACAGAGAAGAAAGAA
Found at i:95749841 original size:18 final size:18
Alignment explanation
Indices: 95749818--95749874 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
95749808 TATTTTTTAT
95749818 TTTTAATAAAATTATATA
1 TTTTAATAAAATTATATA
* *
95749836 TTTTAAAAAAATTA-AGA
1 TTTTAATAAAATTATATA
*
95749853 TTTTATTAAAA-TATGATA
1 TTTTAATAAAATTAT-ATA
95749871 TTTT
1 TTTT
95749875 TAATTTTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 2 0.06
17 11 0.34
18 19 0.59
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TTTTAATAAAATTATATA
Found at i:95750948 original size:6 final size:6
Alignment explanation
Indices: 95750937--95750964 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95750927 CCATCAACTT
95750937 TGCTCA TGCTCA TGCTCA TGCTCA TGCT
1 TGCTCA TGCTCA TGCTCA TGCTCA TGCT
95750965 GTCGCTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (6 bp):
TGCTCA
Done.