Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 169 of 222
Found at i:54160159 original size:26 final size:26
Alignment explanation
Indices: 54160102--54160159 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
54160092 GAATATCAGA
*
54160102 CCTTGAGCCGGTGTTGATTTAGCATG
1 CCTTGAGCCGGTGTTGATTTAGCAAG
*
54160128 CCTTGAGCCTGTGCTT-ATTTAGCAAG
1 CCTTGAGCCGGTG-TTGATTTAGCAAG
*
54160154 CTTTGA
1 CCTTGA
54160160 ACTGATGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (26 bp):
CCTTGAGCCGGTGTTGATTTAGCAAG
Found at i:54161850 original size:12 final size:12
Alignment explanation
Indices: 54161833--54161875 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
54161823 TTTGAATACA
54161833 CACACGGTCTGG
1 CACACGGTCTGG
* *
54161845 CACACGGCCT-A
1 CACACGGTCTGG
54161856 CGACACGGTCTGG
1 C-ACACGGTCTGG
54161869 CACACGG
1 CACACGG
54161876 CCTACGACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.21, C:0.37, G:0.30, T:0.12
Consensus pattern (12 bp):
CACACGGTCTGG
Found at i:54161866 original size:24 final size:24
Alignment explanation
Indices: 54161834--54161886 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
54161824 TTGAATACAC
54161834 ACACGGTCTGGCACACGGCCTACG
1 ACACGGTCTGGCACACGGCCTACG
54161858 ACACGGTCTGGCACACGGCCTACG
1 ACACGGTCTGGCACACGGCCTACG
54161882 ACACG
1 ACACG
54161887 ATCGTGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.11
Consensus pattern (24 bp):
ACACGGTCTGGCACACGGCCTACG
Found at i:54180608 original size:25 final size:25
Alignment explanation
Indices: 54180574--54180625 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
54180564 TATTTCAGCC
54180574 TAAGTTCAGAGAAGAATTCGTTATT
1 TAAGTTCAGAGAAGAATTCGTTATT
*
54180599 TAAGTTCAGAGAAGATTTCGTTATT
1 TAAGTTCAGAGAAGAATTCGTTATT
54180624 TA
1 TA
54180626 CTTAATGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (25 bp):
TAAGTTCAGAGAAGAATTCGTTATT
Found at i:54194008 original size:50 final size:50
Alignment explanation
Indices: 54193902--54194135 Score: 308
Period size: 50 Copynumber: 4.7 Consensus size: 50
54193892 ATGCCAAAGA
** * * ***
54193902 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATAC-CAGTGCCCATGG
1 CATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGGTGCCAACAC
*** *
54193953 CATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACAC
* * *
54194003 CATGTCCCAAACATGGTCTTACATGGGACCTCTCATGTCGGTGCCAACTC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACAC
*
54194053 CATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACAC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACAC
54194103 CATGTCCCAGACATGGTCTTACATGGGACCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
54194136 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 136 0.84
51 25 0.15
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACAC
Found at i:54195582 original size:26 final size:26
Alignment explanation
Indices: 54195552--54195737 Score: 135
Period size: 26 Copynumber: 7.2 Consensus size: 26
54195542 ACTTGAATAT
*
54195552 CAGGCCATGAGCCGATGTTTATTTAG
1 CAGGCCTTGAGCCGATGTTTATTTAG
* *
54195578 CAGGCCTTGAGTC-AGTGTTTGTTTAG
1 CAGGCCTTGAGCCGA-TGTTTATTTAG
* * * *
54195604 CAGGCTTTGA-CCAGTTGATTACTTAG
1 CAGGCCTTGAGCC-GATGTTTATTTAG
* * * *
54195630 TAGGCTTTGAGCTGGTGTTTATTTAG
1 CAGGCCTTGAGCCGATGTTTATTTAG
* *
54195656 CAGGCTTTGAGCC-AGTGATTATTTAG
1 CAGGCCTTGAGCCGA-TGTTTATTTAG
* **
54195682 CAGGCCTTGAGCTGGCGTTTATTTAG
1 CAGGCCTTGAGCCGATGTTTATTTAG
* * * **
54195708 CAGGCTTTGAGTCGGTGAATATTTAG
1 CAGGCCTTGAGCCGATGTTTATTTAG
54195734 CAGG
1 CAGG
54195738 TACTATGTAC
Statistics
Matches: 125, Mismatches: 29, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
25 2 0.02
26 122 0.98
27 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (26 bp):
CAGGCCTTGAGCCGATGTTTATTTAG
Found at i:54195649 original size:52 final size:52
Alignment explanation
Indices: 54195574--54195737 Score: 206
Period size: 52 Copynumber: 3.2 Consensus size: 52
54195564 CGATGTTTAT
* *
54195574 TTAGCAGGCCTTGAG-TCAGTGTTTGTTTAGCAGGCTTTGA-CCAGTTGATTAC
1 TTAGCAGGCCTTGAGCT-GGTGTTTATTTAGCAGGCTTTGAGCCAG-TGATTAC
* * *
54195626 TTAGTAGGCTTTGAGCTGGTGTTTATTTAGCAGGCTTTGAGCCAGTGATTAT
1 TTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTTTGAGCCAGTGATTAC
* * * * *
54195678 TTAGCAGGCCTTGAGCTGGCGTTTATTTAGCAGGCTTTGAGTCGGTGAATAT
1 TTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTTTGAGCCAGTGATTAC
54195730 TTAGCAGG
1 TTAGCAGG
54195738 TACTATGTAC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
52 94 0.95
53 5 0.05
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.37
Consensus pattern (52 bp):
TTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTTTGAGCCAGTGATTAC
Found at i:54195713 original size:78 final size:78
Alignment explanation
Indices: 54195567--54195737 Score: 200
Period size: 78 Copynumber: 2.2 Consensus size: 78
54195557 CATGAGCCGA
* * * * ** *
54195567 TGTTTATTTAGCAGGCCTTGAGTCAGTGTTTGTTTAGCAGGCTTTGACCAGTTGATTACTTAGTA
1 TGTTTATTTAGCAGGCCTTGAGCCAGTGATTATTTAGCAGGCCTTGACCAGGCGATTACTTAGCA
54195632 GGCTTTGAG-CTGG
66 GGCTTTGAGTC-GG
* * * * *
54195645 TGTTTATTTAGCAGGCTTTGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGCGTTTATTTAGCA
1 TGTTTATTTAGCAGGCCTTGAGCCAGTGATTATTTAGCAGGCCTTGACCAGGCGATTACTTAGCA
54195710 GGCTTTGAGTCGG
66 GGCTTTGAGTCGG
**
54195723 TGAATATTTAGCAGG
1 TGTTTATTTAGCAGG
54195738 TACTATGTAC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 77 0.99
79 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (78 bp):
TGTTTATTTAGCAGGCCTTGAGCCAGTGATTATTTAGCAGGCCTTGACCAGGCGATTACTTAGCA
GGCTTTGAGTCGG
Found at i:54201554 original size:26 final size:26
Alignment explanation
Indices: 54201492--54201558 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
54201482 ATTATGTGAT
*
54201492 AAATGGTTTTATGAAATGACTATACG
1 AAATGGTTATATGAAATGACTATACG
* *
54201518 AAATGTTTATATAGAAATAGA-TATATG
1 AAATGGTTATAT-GAAAT-GACTATACG
54201545 -AATGGTTATATGAA
1 AAATGGTTATATGAA
54201559 GTATTTGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 3 0.09
26 20 0.57
27 10 0.29
28 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (26 bp):
AAATGGTTATATGAAATGACTATACG
Found at i:54204159 original size:102 final size:100
Alignment explanation
Indices: 54203983--54204318 Score: 426
Period size: 102 Copynumber: 3.3 Consensus size: 100
54203973 GATGAACACA
* * *
54203983 TGTGTAGTAC-AGTGTGAAGGCTACAACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTA-TGTGAAGGCTACTACGTGTACCGATAAAT-ATGATCACATGTGTAGTACTAA
* *
54204047 GTGATGGCTACTATGTGTACCGAGAAGTTTTGGTCACG
64 GTGAAGGCTACTATGTGTACCGA-AAGATTTGGTCACG
* *
54204085 TGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGATGAACACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGATCACATGTGTAGTACTAAG
*
54204150 TGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACG
65 TGAAGGCTACTATGTGTACCG-AAAGATTTGGTCACG
* * * *
54204187 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAATTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAATATGATCACATGTGTAGTACTAAG
* * * * *
54204251 TGAAGGCTACTACGTGAACCGTAAA-ACTTGATCATG
65 TGAAGGCTACTATGTGTACCG-AAAGATTTGGTCACG
*
54204287 TGTGTAGTACTATGTGAATGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
54204319 TCGAATGATA
Statistics
Matches: 208, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
100 37 0.18
101 42 0.20
102 128 0.62
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATGATCACATGTGTAGTACTAAGT
GAAGGCTACTATGTGTACCGAAAGATTTGGTCACG
Found at i:54204249 original size:50 final size:50
Alignment explanation
Indices: 54203983--54204318 Score: 365
Period size: 51 Copynumber: 6.6 Consensus size: 50
54203973 GATGAACACA
* * * * *
54203983 TGTGTAGTAC-AGTGTGAAGGCTACAACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTA-TGTGAAGGCTACTACGTGTACCGATAAAT-TTGATCACG
* * * * * *
54204034 TGTGTAGTACTAAGTGATGGCTACTATGTGTACCGAGAAGTTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATTTGATCACG
* * * *
54204085 TGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGATGAACACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGATCACG
* * *
54204136 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TTTGATCACG
*
54204187 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAATTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAATTTGATCACG
* * *
54204237 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAATTTGATCACG
*
54204287 TGTGTAGTACTATGTGAATGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
54204319 TCGAATGATA
Statistics
Matches: 244, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
50 91 0.37
51 147 0.60
52 6 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGATCACG
Found at i:54208451 original size:41 final size:42
Alignment explanation
Indices: 54208396--54208535 Score: 162
Period size: 41 Copynumber: 3.4 Consensus size: 42
54208386 TGTAAATAGC
*
54208396 GGCACGTATGTGCAATTCAGGGGTACT-AAAGTACAAAC-AG
1 GGCACGTATGTGCAATTTAGGGGTACTCAAAGTACAAACAAG
* * *
54208436 GGACATGTATATGCAATTTAGGGGTA-TCGAAGTACAAACAAG
1 GG-CACGTATGTGCAATTTAGGGGTACTCAAAGTACAAACAAG
** * * *
54208478 GGCACGTATGTGCAATTTAGGGGTAC-CGGAGCACAAATAGG
1 GGCACGTATGTGCAATTTAGGGGTACTCAAAGTACAAACAAG
54208519 GGCACGTATGTGCAATT
1 GGCACGTATGTGCAATT
54208536 CATAGAATAA
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.03
41 79 0.92
42 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (42 bp):
GGCACGTATGTGCAATTTAGGGGTACTCAAAGTACAAACAAG
Found at i:54211791 original size:19 final size:19
Alignment explanation
Indices: 54211767--54211820 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
54211757 AATCATATCT
54211767 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
54211786 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
54211805 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
54211821 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:54211816 original size:38 final size:40
Alignment explanation
Indices: 54211744--54211820 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
54211734 AAATTAAATC
54211744 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
54211786 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
54211821 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:54212427 original size:45 final size:45
Alignment explanation
Indices: 54212370--54212493 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
54212360 TTGTTTATTT
* *
54212370 AGTCTG-TCCCACTGCAATTTCAGGGGGATAAGACTTGA-TTTCTTG
1 AGTCTGCT-CCACTGCAATTTCAGGGAGATAAGAC-TCACTTTCTTG
*
54212415 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCACTTTCTTG
*
54212460 GGTCTGCTCCACTGCAACTTT-AGGGAGATAAGAC
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGAC
54212494 CCGATGCGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 2 0.03
45 66 0.93
46 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCACTTTCTTG
Found at i:54212563 original size:44 final size:43
Alignment explanation
Indices: 54212502--54212839 Score: 152
Period size: 44 Copynumber: 7.8 Consensus size: 43
54212492 ACCCGATGCG
*
54212502 ATCTACT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGAT-TGTGATTTTA
* * * **
54212545 ATCCACTCCACTGCAACTTCA-AGGAGATAGGATTATTGGCTTTA
1 ATCTACTCCACTGCAACTTCAGA-GAGATAAGATT-GTGATTTTA
* * ** * * ** *
54212589 GTCTACTTCGGTGTAACTTCAGGGAGATAAGATTCGCCATCTTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATT-GTGAT-TTTA
* * * * *
54212634 GTCTGC-CTCACTACAACTTCAG-GATGATAAGGTT-TGCTTACTTA
1 ATCTACTC-CACTGCAACTTCAGAGA-GATAAGATTGTGATT--TTA
* * * * * ***
54212678 GTCTACTCCACTGCAACTTCAAAGAGCTAAGACT-AGA-TGCG
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTGTGATTTTA
* *
54212719 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGAT-TGTGATTTTA
** * * * * **
54212762 ATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATT-GTGATTTTA
* * *
54212806 ATATGCTCCACTGTAACTTCAGAGAGATAAGATT
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATT
54212840 CGCCATCTTC
Statistics
Matches: 212, Mismatches: 67, Indels: 31
0.68 0.22 0.10
Matches are distributed among these distances:
40 21 0.10
41 6 0.03
42 3 0.01
43 18 0.08
44 135 0.64
45 29 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATTGTGATTTTA
Found at i:54212752 original size:217 final size:217
Alignment explanation
Indices: 54212461--54212854 Score: 626
Period size: 217 Copynumber: 1.8 Consensus size: 217
54212451 ACTTTCTTGG
* * ** *
54212461 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGATGCGATCTACTCTCTGCAACTTCAGAGA
1 GTCTACTCCACTGCAACTTCAAAGAGATAAGACCAGATGCGATCTACTCTCTGCAACTTCAGAGA
*
54212526 GATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAGT
66 GATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAAT
* * ** *
54212591 CTACTTCGGTGTAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAG
131 ATACTCCACTGTAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAG
54212656 GATGATAAGGTTTGCTTACTTA
196 GATGATAAGGTTTGCTTACTTA
* * *
54212678 GTCTACTCCACTGCAACTTCAAAGAGCTAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 GTCTACTCCACTGCAACTTCAAAGAGATAAGACCAGATGCGATCTACTCTCTGCAACTTCAGAGA
* * *
54212743 GATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAAT
66 GATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAAT
*
54212808 ATGCTCCACTGTAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCT
131 ATACTCCACTGTAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCT
54212855 TTTAAATTGC
Statistics
Matches: 159, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
217 159 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
GTCTACTCCACTGCAACTTCAAAGAGATAAGACCAGATGCGATCTACTCTCTGCAACTTCAGAGA
GATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAAT
ATACTCCACTGTAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAG
GATGATAAGGTTTGCTTACTTA
Found at i:54213253 original size:44 final size:44
Alignment explanation
Indices: 54213203--54213309 Score: 164
Period size: 44 Copynumber: 2.4 Consensus size: 44
54213193 ATCTGCTATT
* *
54213203 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATC
54213247 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
54213291 TTCAACCTATTCCACTGCT
1 TTCAACCTATTCCACTGCT
54213310 ATCTAGAGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 56 0.95
45 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:54213321 original size:44 final size:44
Alignment explanation
Indices: 54213203--54213324 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
54213193 ATCTGCTATT
*
54213203 TTCAACCTACTCCACTG-T-TGCTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTAT-CT-AGGGAGATAGGATTCACAATC
*
54213247 TTCAACCTATTCCACTGCTGA-CCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCT-ATCTAGGGAGATAGGA-TTCACAATC
*
54213291 TTCAACCTATTCCACTGCTATCTAGAGAGATAGG
1 TTCAACCTATTCCACTGCTATCTAGGGAGATAGG
54213325 GCTGGGGTCA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
43 1 0.01
44 64 0.93
45 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTATCTAGGGAGATAGGATTCACAATC
Found at i:54213454 original size:88 final size:88
Alignment explanation
Indices: 54213324--54213724 Score: 649
Period size: 88 Copynumber: 4.6 Consensus size: 88
54213314 AGAGAGATAG
* * **
54213324 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTATTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
54213389 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
54213412 GGCTGGTGTCTTCGATCTGCTTCGTTGTCCGTGTAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
54213477 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
54213500 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
54213565 TCTGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
54213588 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGTAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
54213653 TCCACTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
54213676 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
54213725 ATTATCTTCA
Statistics
Matches: 287, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 287 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:54213632 original size:44 final size:44
Alignment explanation
Indices: 54213324--54213720 Score: 124
Period size: 44 Copynumber: 9.0 Consensus size: 44
54213314 AGAGAGATAG
* *
54213324 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
* ** * * ** * * **** *
54213368 GATCTATTATTTTTAACCTGCTCCGCTG-CAACCCAGGGAGGCAA
1 G-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
* * *
54213412 GGCTGGTGTCTTCGATCTGCTTCGTTGTCCGTGTAGGAAGGCAA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
* * * ** * * *** *
54213456 GATCTGCTAT-TTTTAACTTGCTCCGCTG-C-AACCTAGGGAGGCAA
1 G-GCTGGTGTCTTCGATC-TGCTTCGCTGTCGGTGC-AGGAAGGCAA
* *
54213500 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGTAA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
* * * * ** * **** *
54213544 GATCTGCTATTTTTAACCTGC-TCTGCTG-CAACCCAGGGAGGCAA
1 G-GCTGGTGTCTTCGATCTGCTTC-GCTGTCGGTGCAGGAAGGCAA
*
54213588 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGTAAGGCAA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
* * * * ** * * * * **** *
54213632 GATCTGCTATTTTTAACCTGCTCCACT-ACAACCCAGGGAGGCAA
1 G-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
* *
54213676 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
54213720 G
1 G
54213721 ATCTATTATC
Statistics
Matches: 221, Mismatches: 118, Indels: 28
0.60 0.32 0.08
Matches are distributed among these distances:
43 60 0.27
44 101 0.46
45 60 0.27
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.28
Consensus pattern (44 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA
Found at i:54215942 original size:25 final size:26
Alignment explanation
Indices: 54215891--54215951 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
54215881 AAGAAAATCC
* **
54215891 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
54215917 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
54215942 AAAATGAATG
1 AAAA-GAATG
54215952 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:54231179 original size:19 final size:19
Alignment explanation
Indices: 54231155--54231208 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
54231145 AATCAAATCT
54231155 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
54231174 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
54231193 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
54231209 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:54236676 original size:25 final size:25
Alignment explanation
Indices: 54236638--54236695 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
54236628 GTAAACTCAA
* **
54236638 AAATTCTCTAGAAAGCCTTTGTGGC
1 AAATTCTCTAGAAACCCTTTAAGGC
* *
54236663 AAATTCTTTGGAAACCCTTTAAGGC
1 AAATTCTCTAGAAACCCTTTAAGGC
54236688 AAATTCTC
1 AAATTCTC
54236696 GAATTATTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (25 bp):
AAATTCTCTAGAAACCCTTTAAGGC
Found at i:54249031 original size:16 final size:18
Alignment explanation
Indices: 54248998--54249031 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
54248988 TAATATACAC
54248998 AAAAATTATCATAGTTTT
1 AAAAATTATCATAGTTTT
54249016 AAAAA-TATCA-AGTTTT
1 AAAAATTATCATAGTTTT
54249032 GTTGCCTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
AAAAATTATCATAGTTTT
Found at i:54250908 original size:15 final size:15
Alignment explanation
Indices: 54250884--54250914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54250874 GCTGTTGCAG
54250884 TTTTTATGGATTAGT
1 TTTTTATGGATTAGT
*
54250899 TTTTTCTGGATTAGT
1 TTTTTATGGATTAGT
54250914 T
1 T
54250915 GGCAGCTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.19, T:0.61
Consensus pattern (15 bp):
TTTTTATGGATTAGT
Found at i:54253717 original size:27 final size:27
Alignment explanation
Indices: 54253687--54253760 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
54253677 GTCCATTTAA
* *
54253687 AGTTCGCCTCAAAGGTTATTCTTTCAG
1 AGTTCACCACAAAGGTTATTCTTTCAG
* * *
54253714 AGTTCACCACAATGGCTATTCTTTTAG
1 AGTTCACCACAAAGGTTATTCTTTCAG
* *
54253741 AGTTCCCCACAAATGTTATT
1 AGTTCACCACAAAGGTTATT
54253761 GATCTATCGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (27 bp):
AGTTCACCACAAAGGTTATTCTTTCAG
Found at i:54259342 original size:45 final size:45
Alignment explanation
Indices: 54259293--54259381 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
54259283 ACGCCAAGGA
* * *
54259293 AATAAGATTTGCTATCTTCAGTCTACTCCACCGCAACTTCAGGGG
1 AATAAGACTTGCTATCTTCAATCCACTCCACCGCAACTTCAGGGG
* *
54259338 AATAAGACTTGTTATCTTCAATCCACTCCACTGCAACTTCAGGG
1 AATAAGACTTGCTATCTTCAATCCACTCCACCGCAACTTCAGGG
54259382 AGATAGGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (45 bp):
AATAAGACTTGCTATCTTCAATCCACTCCACCGCAACTTCAGGGG
Found at i:54259420 original size:44 final size:44
Alignment explanation
Indices: 54259318--54259777 Score: 246
Period size: 44 Copynumber: 10.6 Consensus size: 44
54259308 CTTCAGTCTA
* * ** * **
54259318 CTCCACCGCAACTTCAGGG-GAATAAGACTTGTTATCTTCAATCCA
1 CTCCACTGCAACTTCAGGGAG-ATAAGA-TTATTGGCTTTAATCTG
*
54259363 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * ** *
54259407 CTCCACTGTAACTTCAAGGAGATAAGA--CCT-GC---CATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* *
54259445 C-CCTACT-CTAACTTCAAGGG-GATAGGATTATTGGCTTTAATCTA
1 CTCC-ACTGC-AACTTC-AGGGAGATAAGATTATTGGCTTTAATCTG
** * * *
54259489 CTCCACTAAAACTTCAGGGAGATAAGA-T-TCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTG
* * ** * **
54259534 CCCCACTGCAACTTCAGTGGA-ATAAGACTTGTTATCTTCAATCCA
1 CTCCACTGCAACTTCAG-GGAGATAAGA-TTATTGGCTTTAATCTG
* * * *
54259579 CTCTACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * *
54259623 CTCCACTGCAACTTCAGGGAGACAAGA-T-CT-GC---CATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * *
54259661 CCCCACTGCAACTTCAAGGG-GATAGGATTATTGGCTTTAATCTA
1 CTCCACTGCAACTTC-AGGGAGATAAGATTATTGGCTTTAATCTG
* * *
54259705 CTCCACTGCAACTTCAGGGA-ATTAAGA-T-TCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGA-TAAGATTATTGGC-T-TT-AATCTG
* *
54259750 CCCCACTGCAACTTCAGGGGGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
54259778 CTGTAGTTTC
Statistics
Matches: 311, Mismatches: 69, Indels: 69
0.69 0.15 0.15
Matches are distributed among these distances:
37 2 0.01
38 44 0.14
39 8 0.03
40 2 0.01
41 8 0.03
42 8 0.03
43 14 0.05
44 116 0.37
45 99 0.32
46 6 0.02
47 2 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
Found at i:54259547 original size:45 final size:43
Alignment explanation
Indices: 54259498--54259777 Score: 154
Period size: 45 Copynumber: 6.4 Consensus size: 43
54259488 ACTCCACTAA
54259498 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGC
1 AACTTCAGGGAGATAAGATT-GCC-TCTTCAGTCTGCCCCACTGC
** * ** * *
54259543 AACTTCAGTGGA-ATAAGACTTGTTATCTTCAATCCACTCTACTGC
1 AACTTCAG-GGAGATAAGA-TTG-CCTCTTCAGTCTGCCCCACTGC
* * * * *
54259588 AACTTCAGAGAGATAGGATTATTGGCT-TTAAG-CTGCTCCACTGC
1 AACTTCAGGGAGATA--A-GATTGCCTCTTCAGTCTGCCCCACTGC
*
54259632 AACTTCAGGGAGACAAGA-T--CTGC--CA-TCTGCCCCACTGC
1 AACTTCAGGGAGATAAGATTGCCT-CTTCAGTCTGCCCCACTGC
* * * * *
54259670 AACTTCAAGGG-GATAGGATTATTGGCT-TT-AATCTACTCCACTGC
1 AACTTC-AGGGAGATA--A-GATTGCCTCTTCAGTCTGCCCCACTGC
54259714 AACTTCAGGGA-ATTAAGATTCGCCATCTTCAGTCTGCCCCACTGC
1 AACTTCAGGGAGA-TAAGATT-GCC-TCTTCAGTCTGCCCCACTGC
*
54259759 AACTTCAGGGGGATAAGAT
1 AACTTCAGGGAGATAAGAT
54259778 CTGTAGTTTC
Statistics
Matches: 177, Mismatches: 31, Indels: 54
0.68 0.12 0.21
Matches are distributed among these distances:
38 23 0.13
39 4 0.02
40 2 0.01
41 5 0.03
42 5 0.03
43 7 0.04
44 47 0.27
45 72 0.41
46 7 0.04
47 4 0.02
48 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGATTGCCTCTTCAGTCTGCCCCACTGC
Found at i:54259657 original size:216 final size:215
Alignment explanation
Indices: 54259293--54259776 Score: 781
Period size: 216 Copynumber: 2.2 Consensus size: 215
54259283 ACGCCAAGGA
* * * * *
54259293 AATAAGATTTGCTATCTTCAGTCTACTCCACCGCAACTTCAGGGGAATAAGACTTGTTATCTTCA
1 AATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGAATAAGACTTGTTATCTTCA
* * *
54259358 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCA
66 ATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCA
* *
54259423 AGGAGATAAGACCTGCCATCTGCCCTACT-CTAACTTCAAGGGGATAGGATTATTGGCTTTAATC
131 AGGAGACAAGACCTGCCATCTGCCCCACTGC-AACTTCAAGGGGATAGGATTATTGGCTTTAATC
54259487 TACTCCACTAAAACTTCAGGG
195 TACTCCACTAAAACTTCAGGG
*
54259508 AGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGTTATCTTC
1 A-ATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGAATAAGACTTGTTATCTTC
*
54259573 AATCCACTCTACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTC
65 AATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTC
* *
54259638 AGGGAGACAAGATCTGCCATCTGCCCCACTGCAACTTCAAGGGGATAGGATTATTGGCTTTAATC
130 AAGGAGACAAGACCTGCCATCTGCCCCACTGCAACTTCAAGGGGATAGGATTATTGGCTTTAATC
**
54259703 TACTCCACTGCAACTTCAGGG
195 TACTCCACTAAAACTTCAGGG
*
54259724 AATTAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGA
1 AA-TAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGAATAAGA
54259777 TCTGTAGTTT
Statistics
Matches: 248, Mismatches: 18, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
215 2 0.01
216 245 0.99
217 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (215 bp):
AATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGAATAAGACTTGTTATCTTCA
ATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCA
AGGAGACAAGACCTGCCATCTGCCCCACTGCAACTTCAAGGGGATAGGATTATTGGCTTTAATCT
ACTCCACTAAAACTTCAGGG
Found at i:54259732 original size:82 final size:82
Alignment explanation
Indices: 54259583--54259741 Score: 234
Period size: 82 Copynumber: 1.9 Consensus size: 82
54259573 AATCCACTCT
*
54259583 ACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAGGGAGACAA
1 ACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGACAA
54259648 GA-TCTGCCATCTGCCCC
66 GATTC-GCCATCTGCCCC
* * *
54259665 ACTGCAACTTCA-AGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGA-ATT
1 ACTGCAACTTCAGA-GAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGA-C
54259728 AAGATTCGCCATCT
64 AAGATTCGCCATCT
54259742 TCAGTCTGCC
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
81 2 0.03
82 66 0.94
83 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (82 bp):
ACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGACAA
GATTCGCCATCTGCCCC
Found at i:54272265 original size:16 final size:18
Alignment explanation
Indices: 54272234--54272276 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
54272224 CAAGATAAAA
*
54272234 ATAATTAAACATAAATTGT
1 ATAA-TAAACATAAATAGT
54272253 AT-ATAAACA-AAATAGT
1 ATAATAAACATAAATAGT
54272269 ATAATAAA
1 ATAATAAA
54272277 AATATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 1 0.05
19 2 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAATAAACATAAATAGT
Found at i:54273865 original size:18 final size:18
Alignment explanation
Indices: 54273842--54273877 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54273832 ATGTTACACT
54273842 ATGTTATTATGCGAACCC
1 ATGTTATTATGCGAACCC
*
54273860 ATGTTATTATGTGAACCC
1 ATGTTATTATGCGAACCC
54273878 CTGCTGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (18 bp):
ATGTTATTATGCGAACCC
Found at i:54288651 original size:5 final size:5
Alignment explanation
Indices: 54288641--54288669 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
54288631 TTTATGAGCT
54288641 ACCAA ACCAA ACCAA ACCAA ACCAA ACCA
1 ACCAA ACCAA ACCAA ACCAA ACCAA ACCA
54288670 TCTCTTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCAA
Found at i:54291737 original size:7 final size:7
Alignment explanation
Indices: 54291727--54291810 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 7
54291717 AGAGTTTTGA
54291727 GTTTAGG
1 GTTTAGG
*
54291734 GTTTATG
1 GTTTAGG
* *
54291741 ATGTA-G
1 GTTTAGG
*
54291747 GTTTAGT
1 GTTTAGG
*
54291754 GTTTTGG
1 GTTTAGG
54291761 GTTTAGG
1 GTTTAGG
54291768 GTTTAGG
1 GTTTAGG
54291775 AGTTT-GAG
1 -GTTTAG-G
*
54291783 GTTTAAG
1 GTTTAGG
*
54291790 GTTTGGG
1 GTTTAGG
*
54291797 GTTTGGG
1 GTTTAGG
54291804 GTTTAGG
1 GTTTAGG
54291811 CCGCTTTAGT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 4 0.07
7 51 0.85
8 5 0.08
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:54291750 original size:27 final size:27
Alignment explanation
Indices: 54291712--54291765 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
54291702 TATTATTTTG
*
54291712 TGATTAGAGTTTTGAGTTTAGGGTTTA
1 TGATTAGAGTTTAGAGTTTAGGGTTTA
* *
54291739 TGATGTAG-GTTTAGTGTTTTGGGTTTA
1 TGAT-TAGAGTTTAGAGTTTAGGGTTTA
54291766 GGGTTTAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (27 bp):
TGATTAGAGTTTAGAGTTTAGGGTTTA
Found at i:54291792 original size:161 final size:162
Alignment explanation
Indices: 54291488--54291780 Score: 441
Period size: 161 Copynumber: 1.8 Consensus size: 162
54291478 ATATATATTT
* * *
54291488 AGTTTATCATATATGGTTTAGGTTTAGGGTATTAGGATTTATTATATAATTTTTATTATTTTTGG
1 AGTTTATCATATATGGTTTAGGTTTAGGG-ATTA-GATTCATCATATAATGTTTATTATTTTTGG
* *
54291553 ATTAGATTTTTGAGTTTAGGGTTTACGATGTAGGTTTAGTGTTTTTGGTTTAGGGTTTAAGAGTT
64 ATTAGAGTTTTGAGTTTAGGGTTTACGATGTAGGTTTAGTGTTTTGGGTTTAGGGTTTAAGAGTT
54291618 TGGTGATTAAGGTTCAGTGATTATTATAAGTTAA
129 TGGTGATTAAGGTTCAGTGATTATTATAAGTTAA
*
54291652 AGTTTATCGTATATGGTTTAGGGTTTTAGGG-TTA-A-TCATCATATAATGTTTATTA-TTTTGT
1 AGTTTATCATATATGGTTTA-GG-TTTAGGGATTAGATTCATCATATAATGTTTATTATTTTTG-
* *
54291713 GATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGGTTTAGGAGT
63 GATTAGAGTTTTGAGTTTAGGGTTTACGATGTAGGTTTAGTGTTTTGGGTTTAGGGTTTAAGAGT
54291778 TTG
128 TTG
54291781 AGGTTTAAGG
Statistics
Matches: 118, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
160 5 0.04
161 81 0.69
162 1 0.01
164 22 0.19
165 2 0.02
166 7 0.06
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (162 bp):
AGTTTATCATATATGGTTTAGGTTTAGGGATTAGATTCATCATATAATGTTTATTATTTTTGGAT
TAGAGTTTTGAGTTTAGGGTTTACGATGTAGGTTTAGTGTTTTGGGTTTAGGGTTTAAGAGTTTG
GTGATTAAGGTTCAGTGATTATTATAAGTTAA
Found at i:54291799 original size:36 final size:34
Alignment explanation
Indices: 54291727--54291810 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 34
54291717 AGAGTTTTGA
* *
54291727 GTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGG
1 GTTTAGGGTTTAGGATGTAGGTTTAGTGTTTGGG
*
54291761 GTTTAGGGTTTAGGAGTTTGAGGTTTAAG-GTTTGGG
1 GTTTAGGGTTTAGGA-TGT-AGGTTT-AGTGTTTGGG
*
54291797 GTTTGGGGTTTAGG
1 GTTTAGGGTTTAGG
54291811 CCGCTTTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 14 0.33
35 2 0.05
36 25 0.58
37 2 0.05
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.45
Consensus pattern (34 bp):
GTTTAGGGTTTAGGATGTAGGTTTAGTGTTTGGG
Found at i:54294306 original size:14 final size:14
Alignment explanation
Indices: 54294287--54294330 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
54294277 AGCATATTTA
54294287 ATATTATTGATATT
1 ATATTATTGATATT
*
54294301 ATATTATT--T-TA
1 ATATTATTGATATT
54294312 ATATTATTGATATT
1 ATATTATTGATATT
54294326 ATATT
1 ATATT
54294331 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 9 0.36
12 1 0.04
13 1 0.04
14 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
ATATTATTGATATT
Found at i:54294340 original size:22 final size:25
Alignment explanation
Indices: 54294283--54294335 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
54294273 TTTCAGCATA
54294283 TTTAATATTATTGATATTATATTAT
1 TTTAATATTATTGATATTATATTAT
54294308 TTTAATATTATTGATATTATATT-T
1 TTTAATATTATTGATATTATATTAT
54294332 TTTA
1 TTTA
54294336 TTTATGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTAATATTATTGATATTATATTAT
Found at i:54295214 original size:25 final size:25
Alignment explanation
Indices: 54295179--54295514 Score: 125
Period size: 25 Copynumber: 13.4 Consensus size: 25
54295169 TAATTATACT
*
54295179 TAACTTACATTATAAACAACTTACA
1 TAACTTACATAATAAACAACTTACA
* * *
54295204 TAACTTTCAT--TATAC-ACATACA
1 TAACTTACATAATAAACAACTTACA
* * *
54295226 TAACTTAAATATAATACACAACATACA
1 TAACTT--ACATAATAAACAACTTACA
* *** *
54295253 TAACTTGCATAATTTTCATA-GTACA
1 TAACTTACATAATAAACA-ACTTACA
***
54295278 TAACTTACATAATATTGAACTTACA
1 TAACTTACATAATAAACAACTTACA
* * * * *
54295303 TAATTTTCATAATAAATAAGTTACT
1 TAACTTACATAATAAACAACTTACA
* * *
54295328 TAATTTTCATAATAAAAAACTTACA
1 TAACTTACATAATAAACAACTTACA
* *
54295353 TAACTTACATAATTTATAC-A-GTACA
1 TAACTTACATAA--TAAACAACTTACA
* * *** *
54295378 CAGCTTACATAATTTTCATA-ATACA
1 TAACTTACATAATAAACA-ACTTACA
* * *
54295403 TAACTTACATAATTGATCATA-ATACA
1 TAACTTACATAA-TAAACA-ACTTACA
**
54295429 -ACACTTACATAATTCACAACTTACA
1 TA-ACTTACATAATAAACAACTTACA
* * *
54295454 TAA-TATTCATAATACATAACTTACA
1 TAACT-TACATAATAAACAACTTACA
* * * *
54295479 TAATTTTCATAATAAATAACTTATA
1 TAACTTACATAATAAACAACTTACA
54295504 TAACTTACATA
1 TAACTTACATA
54295515 GCTTAATTAT
Statistics
Matches: 243, Mismatches: 51, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
22 12 0.05
23 7 0.03
24 5 0.02
25 174 0.72
26 29 0.12
27 16 0.07
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (25 bp):
TAACTTACATAATAAACAACTTACA
Found at i:54295305 original size:41 final size:41
Alignment explanation
Indices: 54295254--54295331 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
54295244 CAACATACAT
* * *
54295254 AACTTGCATAATTTTCATAGTACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAATAAATAACTTACATAATATTG
* *
54295295 AACTTACATAATTTTCATAATAAATAAGTTACTTAAT
1 AACTTACATAATTTTCATAATAAATAACTTACATAAT
54295332 TTTCATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (41 bp):
AACTTACATAATTTTCATAATAAATAACTTACATAATATTG
Found at i:54295357 original size:9 final size:9
Alignment explanation
Indices: 54295345--54295519 Score: 76
Period size: 9 Copynumber: 20.7 Consensus size: 9
54295335 CATAATAAAA
54295345 AACTTACAT
1 AACTTACAT
54295354 AACTTACAT
1 AACTTACAT
*
54295363 AA-TT-TAT
1 AACTTACAT
* *
54295370 -ACAGTACAC
1 AAC-TTACAT
*
54295379 AGCTTACAT
1 AACTTACAT
* *
54295388 AATTTTCAT
1 AACTTACAT
54295397 AA--TACAT
1 AACTTACAT
54295404 AACTTACAT
1 AACTTACAT
54295413 AA-TTGATCAT
1 AACTT-A-CAT
54295423 AA--TACA-
1 AACTTACAT
54295429 ACACTTACAT
1 A-ACTTACAT
*
54295439 AA-TT-CAC
1 AACTTACAT
54295446 AACTTACAT
1 AACTTACAT
*
54295455 AA-TATTCAT
1 AACT-TACAT
54295464 AA--TACAT
1 AACTTACAT
54295471 AACTTACAT
1 AACTTACAT
* *
54295480 AATTTTCAT
1 AACTTACAT
*
54295489 AA--TAAAT
1 AACTTACAT
*
54295496 AACTTATAT
1 AACTTACAT
54295505 AACTTACAT
1 AACTTACAT
*
54295514 AGCTTA
1 AACTTA
54295520 ATTATACTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 38
0.68 0.12 0.21
Matches are distributed among these distances:
6 2 0.02
7 26 0.21
8 11 0.09
9 79 0.63
10 7 0.06
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:54295362 original size:59 final size:59
Alignment explanation
Indices: 54295295--54295414 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 59
54295285 CATAATATTG
*
54295295 AACTTACATAATTTTCATA-A-TAAATAAG-TTACTTAATTTTCATAATAAAAAACTTACAT
1 AACTTACATAA-TTT-ATACAGTAAA-AAGCTTACATAATTTTCATAATAAAAAACTTACAT
* * * *
54295354 AACTTACATAATTTATACAGTACACAGCTTACATAATTTTCATAATACATAACTTACAT
1 AACTTACATAATTTATACAGTAAAAAGCTTACATAATTTTCATAATAAAAAACTTACAT
54295413 AA
1 AA
54295415 TTGATCATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 3 0.06
58 6 0.11
59 44 0.83
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (59 bp):
AACTTACATAATTTATACAGTAAAAAGCTTACATAATTTTCATAATAAAAAACTTACAT
Found at i:54295404 original size:16 final size:16
Alignment explanation
Indices: 54295383--54295506 Score: 59
Period size: 16 Copynumber: 8.0 Consensus size: 16
54295373 GTACACAGCT
* *
54295383 TACATAATTTTCATAA
1 TACATAACTTACATAA
54295399 TACATAACTTACATAA
1 TACATAACTTACATAA
*
54295415 T---TGA--T-CATAA
1 TACATAACTTACATAA
54295425 TACA-ACACTTACATAA
1 TACATA-ACTTACATAA
* *
54295441 TTCACAACTTACATAA
1 TACATAACTTACATAA
54295457 TATTCATAA--TACATAA
1 TA--CATAACTTACATAA
* *
54295473 CTTACATAATTTTCATAA
1 --TACATAACTTACATAA
* *
54295491 TAAATAACTTATATAA
1 TACATAACTTACATAA
54295507 CTTACATAGC
Statistics
Matches: 82, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
10 6 0.07
11 1 0.01
13 3 0.04
15 1 0.01
16 58 0.71
17 1 0.01
18 12 0.15
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:54300908 original size:21 final size:20
Alignment explanation
Indices: 54300884--54300931 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
54300874 AACTTAAAGA
*
54300884 AGAGGTGGCAGCGAGGGAAGC
1 AGAGGT-GCAGCGAGAGAAGC
54300905 AGAGGCTGCAGCGAGAGAAGC
1 AGAGG-TGCAGCGAGAGAAGC
54300926 AGAGGT
1 AGAGGT
54300932 TCAAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.48, T:0.06
Consensus pattern (20 bp):
AGAGGTGCAGCGAGAGAAGC
Found at i:54301440 original size:44 final size:45
Alignment explanation
Indices: 54301341--54301442 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 45
54301331 TCATGTTCTA
* * *
54301341 TAGCGGCGTTTGTGGAAAAAAATCGTCGCTAAAGAACATGACTTT
1 TAGCGACGTTTGTGGAAAAAAATCGCCACTAAAGAACATGACTTT
* * * * *
54301386 TGGCGGCGTTTGTGGAAAAAAAT-GCCACTAAAGAATATTATTTT
1 TAGCGACGTTTGTGGAAAAAAATCGCCACTAAAGAACATGACTTT
*
54301430 TAGCTACGTTTGT
1 TAGCGACGTTTGT
54301443 AGAGAAAGCG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
44 26 0.54
45 22 0.46
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (45 bp):
TAGCGACGTTTGTGGAAAAAAATCGCCACTAAAGAACATGACTTT
Found at i:54301517 original size:43 final size:44
Alignment explanation
Indices: 54301341--54301518 Score: 135
Period size: 43 Copynumber: 4.1 Consensus size: 44
54301331 TCATGTTCTA
* * *
54301341 TAGCGGCGTTTGTGGAAAAAAATCGTCGCTAAAGAACATGACTTT
1 TAGCGGCGTTTGTGG-AAAAAAGCGCCGCTAAAGAACATGACCTT
* ** * * * **
54301386 TGGCGGCGTTTGTGGAAAAAAATGCCACTAAAGAATATTATTTT
1 TAGCGGCGTTTGTGGAAAAAAGCGCCGCTAAAGAACATGACCTT
** * * ** **
54301430 TAGCTACGTTTGTAG-AGAAAGCGCCGCTAAAGGTCATGTTCTT
1 TAGCGGCGTTTGTGGAAAAAAGCGCCGCTAAAGAACATGACCTT
* * *
54301473 TAGCGGCGTTTGTTG-TAAAAGCGTCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAAGCGCCGCTAAAGAACATGACCTT
54301516 TAG
1 TAG
54301519 TGGCATTTAT
Statistics
Matches: 101, Mismatches: 32, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
43 54 0.53
44 33 0.33
45 14 0.14
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
TAGCGGCGTTTGTGGAAAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:54303750 original size:15 final size:16
Alignment explanation
Indices: 54303732--54303764 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54303722 AATTTTATAG
54303732 ATTTTA-ATAATTATT
1 ATTTTACATAATTATT
*
54303747 ATTTTACATATTTATT
1 ATTTTACATAATTATT
54303763 AT
1 AT
54303765 ACATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTACATAATTATT
Found at i:54303910 original size:47 final size:47
Alignment explanation
Indices: 54303851--54303943 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
54303841 ACATACAAAA
* *
54303851 ATTATTATTTACTTTTCCTGTTAATAAAATTTTAATATAAATATGCT
1 ATTATTAATTACTTTTCCTATTAATAAAATTTTAATATAAATATGCT
54303898 ATTATTAATTACTTTTCCTATTAATAAAATTTTAATATAAATATGC
1 ATTATTAATTACTTTTCCTATTAATAAAATTTTAATATAAATATGC
54303944 AAGACTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (47 bp):
ATTATTAATTACTTTTCCTATTAATAAAATTTTAATATAAATATGCT
Found at i:54307985 original size:5 final size:5
Alignment explanation
Indices: 54307977--54308017 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
54307967 TGAGCCTATT
54307977 CAACC CAACC CAATTACC CAACC CAACC CAACC CAACC CAA
1 CAACC CAACC C-A--ACC CAACC CAACC CAACC CAACC CAA
54308018 TCATAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 27 0.82
6 1 0.03
7 1 0.03
8 4 0.12
ACGTcount: A:0.41, C:0.54, G:0.00, T:0.05
Consensus pattern (5 bp):
CAACC
Found at i:54308181 original size:9 final size:9
Alignment explanation
Indices: 54308169--54308218 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
54308159 TCAATTCAGT
54308169 TAATTCGGG
1 TAATTCGGG
*
54308178 TAATTCGAG
1 TAATTCGGG
* *
54308187 TAATTCAGT
1 TAATTCGGG
54308196 TAATTCGGG
1 TAATTCGGG
*
54308205 TAATTCGGT
1 TAATTCGGG
54308214 TAATT
1 TAATT
54308219 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:54308190 original size:18 final size:18
Alignment explanation
Indices: 54308169--54308218 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
54308159 TCAATTCAGT
*
54308169 TAATTCGGGTAATTCGAG
1 TAATTCGGTTAATTCGAG
* *
54308187 TAATTCAGTTAATTCGGG
1 TAATTCGGTTAATTCGAG
54308205 TAATTCGGTTAATT
1 TAATTCGGTTAATT
54308219 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAG
Found at i:54311021 original size:62 final size:59
Alignment explanation
Indices: 54310917--54311108 Score: 210
Period size: 62 Copynumber: 3.1 Consensus size: 59
54310907 ATCACTTTAA
* *
54310917 TATTAAATTAGTATAATACTTA-TAAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAGTAAAATA-TTATTAAAGATAAATATTAAATTAAATTTAATATTAAATCT
* *
54310976 TATTAAATTAGTAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTATAATCACT
1 TATTAAATTAGTAAAATA-TTAT-TA-AAGATAAATATTAAATTAAATTTAATATTA-AAT--C-
54311041 TT
59 -T
* *
54311043 AATATTAAATTAATAAAATATTATT-AAGATAAATATTAAATTTAATTTAATATTAAATC-
1 --TATTAAATTAGTAAAATATTATTAAAGATAAATATTAAATTAAATTTAATATTAAATCT
54311102 TATTAAA
1 TATTAAA
54311109 ATAATATTAT
Statistics
Matches: 115, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
57 7 0.06
59 20 0.17
61 2 0.02
62 29 0.25
63 3 0.03
64 3 0.03
65 29 0.25
67 2 0.02
68 4 0.03
69 16 0.14
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAATTAGTAAAATATTATTAAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:54311090 original size:65 final size:67
Alignment explanation
Indices: 54310898--54311101 Score: 216
Period size: 65 Copynumber: 3.2 Consensus size: 67
54310888 TCAATTATGA
* * * * * *
54310898 TTAATGTT-AATCACTTTAATATTAAATTAGTATAATACTTA--TAAAGATAAATATTAGATTAA
1 TTAATATTAAATCACTTTAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTAA
54310960 AT
66 AT
* *
54310962 TTAATATTAAAT--C--T--TATTAAATTAGTAGAATATTTATCTACAAGATAAACATTAAATTA
1 TTAATATTAAATCACTTTAATATTAAATTAATAAAATATTTATCTA-AAGATAAACATTAAATTA
54311021 AAT
65 AAT
* *
54311024 TTAATATTATAATCACTTTAATATTAAATTAATAAAATA-TTAT-T-AAGATAAATATTAAATTT
1 TTAATATTA-AATCACTTTAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTA
54311086 AAT
65 AAT
54311089 TTAATATTAAATC
1 TTAATATTAAATC
54311102 TATTAAAATA
Statistics
Matches: 120, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
59 20 0.17
61 3 0.03
62 28 0.23
63 4 0.03
64 11 0.09
65 32 0.27
67 2 0.02
68 4 0.03
69 16 0.13
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (67 bp):
TTAATATTAAATCACTTTAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTAA
AT
Found at i:54311111 original size:17 final size:17
Alignment explanation
Indices: 54311007--54311108 Score: 56
Period size: 17 Copynumber: 6.2 Consensus size: 17
54310997 ATCTACAAGA
*
54311007 TAAACATTAAAT-TAAAT
1 TAAATATTAAATCT-AAT
* *
54311024 TTAATATTATAATC-ACT
1 TAAATATTA-AATCTAAT
*
54311041 TTAATATTAAAT-TAAT
1 TAAATATTAAATCTAAT
* *
54311057 AAAATATT--AT-TAAGA
1 TAAATATTAAATCTAA-T
*
54311072 TAAATATTAAATTTAAT
1 TAAATATTAAATCTAAT
*
54311089 TTAATATTAAATCT-AT
1 TAAATATTAAATCTAAT
54311105 TAAA
1 TAAA
54311109 ATAATATTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 5 0.08
15 7 0.11
16 16 0.24
17 32 0.48
18 6 0.09
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (17 bp):
TAAATATTAAATCTAAT
Found at i:54314726 original size:11 final size:11
Alignment explanation
Indices: 54314710--54314769 Score: 66
Period size: 11 Copynumber: 5.0 Consensus size: 11
54314700 CTTAAAATTA
54314710 CATATAATTTT
1 CATATAATTTT
54314721 CATATAAATTTGAT
1 CATAT-AATTT--T
*
54314735 ATATATAATTTT
1 -CATATAATTTT
54314747 CATATAATTTT
1 CATATAATTTT
54314758 CATATAAATTTT
1 CATAT-AATTTT
54314770 AATTCAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 20 0.48
12 12 0.29
14 6 0.14
15 4 0.10
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (11 bp):
CATATAATTTT
Found at i:54314740 original size:26 final size:26
Alignment explanation
Indices: 54314711--54314763 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
54314701 TTAAAATTAC
*
54314711 ATATAATTTTCATATAAATTTGATAT
1 ATATAATTTTCATATAAATTTCATAT
*
54314737 ATATAATTTTCATATAATTTTCATAT
1 ATATAATTTTCATATAAATTTCATAT
54314763 A
1 A
54314764 AATTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
ATATAATTTTCATATAAATTTCATAT
Found at i:54315300 original size:3 final size:3
Alignment explanation
Indices: 54315292--54315316 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54315282 GTAGACAGGG
54315292 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
54315317 GTAGGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:54316001 original size:22 final size:23
Alignment explanation
Indices: 54315991--54316046 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
54315981 TTAAAAACAA
*
54315991 TTAATTTTAATAACAAT-TAATT
1 TTAATTTTAATAAAAATATAATT
54316013 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
54316036 TTAATTTTAAT
1 TTAATTTTAAT
54316047 TTTAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 16 0.50
23 16 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:54316016 original size:6 final size:6
Alignment explanation
Indices: 54316007--54316053 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
54315997 TTAATAACAA
** * *
54316007 TTAATT TTAATT TTAA-T AAAAAT ATAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
54316054 AAAAAATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 3 0.09
6 32 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TTAATT
Found at i:54316017 original size:16 final size:16
Alignment explanation
Indices: 54315976--54316017 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
54315966 TAATTTGATA
*
54315976 TAATTTTAAAAACAAT
1 TAATTTTAATAACAAT
54315992 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
54316008 TAATTTTAAT
1 TAATTTTAAT
54316018 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:54321141 original size:19 final size:20
Alignment explanation
Indices: 54321119--54321156 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
54321109 GGGCAAACTT
*
54321119 TTAATTAAAT-AAATAAAAC
1 TTAAATAAATAAAATAAAAC
54321138 TTAAATAAATAAAATAAAA
1 TTAAATAAATAAAATAAAA
54321157 ATAAGGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAATAAATAAAATAAAAC
Found at i:54321143 original size:15 final size:15
Alignment explanation
Indices: 54321123--54321151 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54321113 AAACTTTTAA
54321123 TTAAATAAATAAAAC
1 TTAAATAAATAAAAC
54321138 TTAAATAAATAAAA
1 TTAAATAAATAAAA
54321152 TAAAAATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAATAAATAAAAC
Found at i:54321652 original size:28 final size:30
Alignment explanation
Indices: 54321594--54321652 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
54321584 GGAATTTAAG
*
54321594 GTTTAGGGACTAAATTGTGATAAATGTAAAA
1 GTTTAGGGAC-AAATTGTGATAAATATAAAA
54321625 GTTTAGGGA-AAA-TGTG-TAAATAATAAAA
1 GTTTAGGGACAAATTGTGATAAAT-ATAAAA
54321653 ATTAAGGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 3 0.12
31 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (30 bp):
GTTTAGGGACAAATTGTGATAAATATAAAA
Found at i:54322109 original size:40 final size:40
Alignment explanation
Indices: 54322052--54322276 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
54322042 GAAAATGTCT
*
54322052 CTGAATGCACATACGTGCCCCTGTTTTTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
54322092 CTGAATGCAAATGCGTGCCCCTGTTTGTACTTCGGTATCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
54322132 CTGAATGCACATGCATGCCCCTGTTTGTACTTTGATACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
** *
54322172 CCAAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
54322212 CTGAATGCACATATGTTCCCCTATTTGTACTTCGGCACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
54322252 TTAAATGCACATGCGTGCCCCTGTT
1 CTGAATGCACATACGTGCCCCTGTT
54322277 CTACATCTAT
Statistics
Matches: 156, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:54322271 original size:120 final size:120
Alignment explanation
Indices: 54322055--54322276 Score: 338
Period size: 120 Copynumber: 1.9 Consensus size: 120
54322045 AATGTCTCTG
* * *
54322055 AATGCACATACGTGCCCCTGTTTTTACTTCGGTACCCCTGAATGCAAATGCGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
* *
54322120 ACTTCGGTATCCCTGAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCCA
66 ACTTCGGCATCCCTAAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCCA
* * * *
54322175 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCACATATGTTCCCCTATTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
*
54322240 ACTTCGGCA-CCCTTAAATGCACATGCGTGCCCCTGTT
66 ACTTCGGCATCCC-TAAATGCACATGCATGCCCCTGTT
54322277 CTACATCTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
119 3 0.03
120 88 0.97
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (120 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
ACTTCGGCATCCCTAAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCCA
Found at i:54326209 original size:20 final size:20
Alignment explanation
Indices: 54326178--54326240 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
54326168 AATTGCCGGA
*
54326178 AATGTGGACAAGCCACCAAT
1 AATGTAGACAAGCCACCAAT
* ** *
54326198 ATTGTAGACAAGCTGCCAGT
1 AATGTAGACAAGCCACCAAT
* *
54326218 AATGTGGACAAGTCACCAAT
1 AATGTAGACAAGCCACCAAT
54326238 AAT
1 AAT
54326241 ACATATAAAC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
AATGTAGACAAGCCACCAAT
Found at i:54327880 original size:16 final size:16
Alignment explanation
Indices: 54327825--54327873 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
54327815 CGTTTGGTTC
54327825 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
54327841 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
54327857 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
54327873 G
1 G
54327874 GCGTAATAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:54327952 original size:44 final size:44
Alignment explanation
Indices: 54327892--54327998 Score: 214
Period size: 44 Copynumber: 2.4 Consensus size: 44
54327882 GTAATTCAAT
54327892 TGTTTGGTTGAATGGAATGGAATAGAACTGTAATAATATTCTTG
1 TGTTTGGTTGAATGGAATGGAATAGAACTGTAATAATATTCTTG
54327936 TGTTTGGTTGAATGGAATGGAATAGAACTGTAATAATATTCTTG
1 TGTTTGGTTGAATGGAATGGAATAGAACTGTAATAATATTCTTG
54327980 TGTTTGGTTGAATGGAATG
1 TGTTTGGTTGAATGGAATG
54327999 ATGTTGTAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.30, C:0.04, G:0.27, T:0.39
Consensus pattern (44 bp):
TGTTTGGTTGAATGGAATGGAATAGAACTGTAATAATATTCTTG
Found at i:54328178 original size:17 final size:17
Alignment explanation
Indices: 54328156--54328189 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
54328146 TTATTATTAA
54328156 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54328173 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54328190 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:54328196 original size:17 final size:17
Alignment explanation
Indices: 54328159--54328210 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
54328149 TTATTAAATA
*
54328159 TAATTTAATAAAATAT-A
1 TAATTTAATAAAAT-TCT
54328176 TAATTTAATAAAATTCT
1 TAATTTAATAAAATTCT
54328193 TAATATT-A-AAAATTCT
1 TAAT-TTAATAAAATTCT
54328209 TA
1 TA
54328211 TATGAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 11 0.34
17 19 0.59
18 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTTAATAAAATTCT
Found at i:54343272 original size:26 final size:26
Alignment explanation
Indices: 54343243--54343298 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
54343233 TCGATATATA
54343243 GCTCTTTGTGAGCTTCCTGATTAAAG
1 GCTCTTTGTGAGCTTCCTGATTAAAG
* *
54343269 GCTCTTTGTGAGTTTCCTGATTAATG
1 GCTCTTTGTGAGCTTCCTGATTAAAG
54343295 GCTC
1 GCTC
54343299 ACCGAAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCTGATTAAAG
Found at i:54353990 original size:27 final size:26
Alignment explanation
Indices: 54353960--54354026 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
54353950 GTCAACTATC
* *
54353960 CTGTGTTTACTGTTCCGATGAACTACA
1 CTGTGTTTACTGTCCCGACGAACT-CA
* *
54353987 CTGTGTTTATTGTCCCGACGAACTCC
1 CTGTGTTTACTGTCCCGACGAACTCA
*
54354013 CTATGTTTACTGTC
1 CTGTGTTTACTGTC
54354027 TTAACGGGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (26 bp):
CTGTGTTTACTGTCCCGACGAACTCA
Found at i:54357214 original size:56 final size:55
Alignment explanation
Indices: 54357135--54357246 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
54357125 TTGTCTTAAT
* * * *
54357135 TGTTGGAATACTGCTTCTTTTGAATATATTTTTTTTTATGTTTAAATCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATAGA-TTATTTATATGTTTAAATCGACTGTTA
* *
54357191 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGACTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATAGATTATTTATATGTTTAAATCGACTGTTA
54357246 T
1 T
54357247 ATAGCACTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
55 25 0.50
56 25 0.50
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATAGATTATTTATATGTTTAAATCGACTGTTA
Found at i:54362600 original size:9 final size:9
Alignment explanation
Indices: 54362578--54362623 Score: 85
Period size: 9 Copynumber: 5.2 Consensus size: 9
54362568 TGGTTAAAAA
54362578 TTAACCGA-
1 TTAACCGAT
54362586 TTAACCGAT
1 TTAACCGAT
54362595 TTAACCGAT
1 TTAACCGAT
54362604 TTAACCGAT
1 TTAACCGAT
54362613 TTAACCGAT
1 TTAACCGAT
54362622 TT
1 TT
54362624 GCTATATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 8 0.22
9 29 0.78
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (9 bp):
TTAACCGAT
Found at i:54363363 original size:44 final size:44
Alignment explanation
Indices: 54363295--54363457 Score: 227
Period size: 44 Copynumber: 3.5 Consensus size: 44
54363285 TCTTTAGTTT
* *
54363295 TAGACTTTAGTTTTATTGGATTGGTAATTGGTAATTGGGTTTGGG
1 TAGACTTTAG-TTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
*
54363340 TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTAGGTTTGGG
1 TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
54363384 TAGACTTTAGTTTATTGGGTTGGTACTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTATT--G--GG---TTGGTAAATGGTAATTGGGTTTGGG
54363435 TAGACTTTAGTTTATTGGGTTGG
1 TAGACTTTAGTTTATTGGGTTGG
54363458 GTAATTGGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
44 51 0.48
45 10 0.09
46 1 0.01
47 2 0.02
48 2 0.02
49 1 0.01
51 40 0.37
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.45
Consensus pattern (44 bp):
TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
Found at i:54363414 original size:51 final size:51
Alignment explanation
Indices: 54363359--54363457 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
54363349 GTTTATTGGG
54363359 TTGGTAAATGGTAATTAGGTTTGGGTAGACTTTAGTTTATTGGGTTGGTAC
1 TTGGTAAATGGTAATTAGGTTTGGGTAGACTTTAGTTTATTGGGTTGGTAC
*
54363410 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGGTTGG
1 TTGGTAAATGGTAATTAGGTTTGGGTAGACTTTAGTTTATTGGGTTGG
54363458 GTAATTGGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (51 bp):
TTGGTAAATGGTAATTAGGTTTGGGTAGACTTTAGTTTATTGGGTTGGTAC
Found at i:54365460 original size:42 final size:42
Alignment explanation
Indices: 54365347--54365510 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
54365337 CAAAAAGCTC
* * * *
54365347 ATACAATGCCAATGTCTCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA
* * * * *
54365389 ATAACGATGCCACTGTCTCGGACAAGGTCTTACACGTAATCAT
1 AT-ACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA
* *
54365432 ATACGATGCCAATGTCCCAAACATGGTCTTATACGTAAATGACAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACGT-AAT--CAA
* * *
54365477 AT-CGATGCCAACGTCCCACACGTGGTCTTACACG
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACG
54365511 ATATCACATA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
42 30 0.30
43 38 0.38
44 28 0.28
45 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:54366599 original size:13 final size:13
Alignment explanation
Indices: 54366581--54366605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54366571 ACAAACGATA
54366581 AAATTTTCACACG
1 AAATTTTCACACG
54366594 AAATTTTCACAC
1 AAATTTTCACAC
54366606 ATATAAATTA
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:54374256 original size:48 final size:48
Alignment explanation
Indices: 54374191--54374289 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
54374181 TAAAAATTCT
*
54374191 AAAAAAATCACTCTAATGGAGGGTACGAGAAAATTACTAAAAAACAAC
1 AAAAAAATCACTCTAATGGAGGGTACGAGAAAAGTACTAAAAAACAAC
* * * * *
54374239 AAAAAAATCATTTTAATGGAGGGTATGAGAAAAGTACTTAAACACAAC
1 AAAAAAATCACTCTAATGGAGGGTACGAGAAAAGTACTAAAAAACAAC
54374287 AAA
1 AAA
54374290 TAATTCAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (48 bp):
AAAAAAATCACTCTAATGGAGGGTACGAGAAAAGTACTAAAAAACAAC
Found at i:54382388 original size:7 final size:7
Alignment explanation
Indices: 54382357--54382390 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
54382347 AATATAAAAA
54382357 TTAAATT
1 TTAAATT
*
54382364 TTAGATT
1 TTAAATT
*
54382371 TTAGATT
1 TTAAATT
54382378 TTAAATT
1 TTAAATT
54382385 TTAAAT
1 TTAAAT
54382391 ATATACATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:54386433 original size:92 final size:91
Alignment explanation
Indices: 54386238--54386494 Score: 412
Period size: 92 Copynumber: 2.8 Consensus size: 91
54386228 CAATTGGGAA
* * * *
54386238 ATAAAAACAATTGAATGAAACAGTAGATTGAATCAAATATATGCTTCAATTATTAAAGAG---AA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGATAAA
54386300 AGTTTTCATCTTATAATCCCAACCCT
66 AGTTTTCATCTTATAATCCCAACCCT
54386326 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAG-ATAA
*
54386391 AATTTTTCATCTTATAATCCCAACCCT
65 AAGTTTTCATCTTATAATCCCAACCCT
* *
54386418 ATAAAAATAATTGAATGAAATAGTAGATTAAATTAAATATATGCTTCAATCATTAAAGAGATTAA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGA-TAA
54386483 AAGTTTTCATCT
65 AAGTTTTCATCT
54386495 ATGGTGGTTG
Statistics
Matches: 156, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
88 56 0.36
91 1 0.01
92 99 0.63
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (91 bp):
ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGATAAA
AGTTTTCATCTTATAATCCCAACCCT
Found at i:54392472 original size:14 final size:14
Alignment explanation
Indices: 54392453--54392479 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54392443 AAGTACTAAA
54392453 AATTAAAGTAAAGC
1 AATTAAAGTAAAGC
54392467 AATTAAAGTAAAG
1 AATTAAAGTAAAG
54392480 AAAGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (14 bp):
AATTAAAGTAAAGC
Found at i:54397430 original size:60 final size:60
Alignment explanation
Indices: 54397335--54397452 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
54397325 CGGTCATCTA
* * *
54397335 TCACCCTATGAACATGAGGATTAGCACCCTAACCATT-GAAATTATCATTGATACCAGGTT
1 TCACCCTATGAACAAGAGGATTACCACCCTAACCATTCG-AATTATCATTGAGACCAGGTT
* * * *
54397395 TCACCCTATGAACAAGAGGATTACCATCTTGACCATTCGGATTATCATTGAGACCAGG
1 TCACCCTATGAACAAGAGGATTACCACCCTAACCATTCGAATTATCATTGAGACCAGG
54397453 ATTATTCCCG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (60 bp):
TCACCCTATGAACAAGAGGATTACCACCCTAACCATTCGAATTATCATTGAGACCAGGTT
Found at i:54411300 original size:20 final size:19
Alignment explanation
Indices: 54411247--54411341 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 19
54411237 TGTAAAACAA
*
54411247 GGGCACCAAAGTGAAATCAG
1 GGGCACC-AAGTGCAATCAG
*
54411267 GAGCA-CAAGTGTGCAATCAG
1 GGGCACCAA--GTGCAATCAG
* *
54411287 GGGCACCGAAGTGCAGTTAG
1 GGGCACC-AAGTGCAATCAG
* * *
54411307 GGGCACAAATATGCTATCAG
1 GGGCACCAA-GTGCAATCAG
54411327 GGGCACCAGAGTGCA
1 GGGCACCA-AGTGCA
54411342 TTTAGGGACA
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
18 2 0.04
19 3 0.05
20 47 0.84
21 2 0.04
22 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.14
Consensus pattern (19 bp):
GGGCACCAAGTGCAATCAG
Found at i:54411313 original size:40 final size:39
Alignment explanation
Indices: 54411269--54411372 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 39
54411259 GAAATCAGGA
54411269 GCACAAGTGTGCAATCAGGGGCACC-GAAGTGCAGTTAGGG
1 GCACAA-TGTGCAATCAGGGGCACCAG-AGTGCAGTTAGGG
* * *
54411309 GCACAAATATGCTATCAGGGGCACCAGAGTGCATTTAGGG
1 GCAC-AATGTGCAATCAGGGGCACCAGAGTGCAGTTAGGG
* * *
54411349 ACACGAATGTGTAAACAGGGGCAC
1 GCAC-AATGTGCAATCAGGGGCAC
54411373 AGTTGTGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 50 0.94
41 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.33, T:0.16
Consensus pattern (39 bp):
GCACAATGTGCAATCAGGGGCACCAGAGTGCAGTTAGGG
Found at i:54413170 original size:16 final size:16
Alignment explanation
Indices: 54413149--54413213 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
54413139 TTCACTGTAT
* *
54413149 TGGAATAAAAGCGTAA
1 TGGAATAGAGGCGTAA
*
54413165 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
54413181 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
54413197 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
54413213 T
1 T
54413214 AGCAATTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:54413443 original size:27 final size:27
Alignment explanation
Indices: 54413406--54413475 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
54413396 TAATATCAAT
*
54413406 AATAAATAATTTAATCATATTTTAACAT-
1 AATATATAATTTAAT-ATATTTTAA-ATA
* *
54413434 AAT-TATAATTAAATATATTTTAATTA
1 AATATATAATTTAATATATTTTAAATA
54413460 AATATATAATTTAATA
1 AATATATAATTTAATA
54413476 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.03
26 12 0.33
27 20 0.56
28 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
AATATATAATTTAATATATTTTAAATA
Found at i:54413472 original size:17 final size:17
Alignment explanation
Indices: 54413432--54413479 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
54413422 ATATTTTAAC
54413432 ATAATTATAATTAAATAT
1 ATAATT-TAATTAAATAT
54413450 AT--TTTAATTAAATAT
1 ATAATTTAATTAAATAT
*
54413465 ATAATTTAATAAAAT
1 ATAATTTAATTAAAT
54413480 TCTTAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.48
16 2 0.07
17 10 0.37
18 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTAATTAAATAT
Found at i:54413527 original size:61 final size:61
Alignment explanation
Indices: 54413460--54413650 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
54413450 ATTTTAATTA
54413460 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** * * *
54413521 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTATTAAA
1 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
54413580 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
54413641 AATATATAAT
1 AATATATAAT
54413651 ACTATAAAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.34
60 16 0.16
61 44 0.44
62 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:54413612 original size:120 final size:120
Alignment explanation
Indices: 54413426--54413710 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
54413416 TTAATCATAT
* * *
54413426 TTTAACATAATTATAATTAAATATATTTTAATT--AAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAATATAATTT-ATTAAAAATATATAATTTAATAAAATTCTTAATAT
54413489 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
54413545 TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
54413610 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
54413665 TTTAAAATAATTATTATTAAATATAATTTACTAAATATATATAATT
1 TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATT
54413711 CCCCTCACTT
Statistics
Matches: 159, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
118 3 0.02
119 26 0.16
120 130 0.82
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:54426529 original size:27 final size:27
Alignment explanation
Indices: 54426484--54426592 Score: 150
Period size: 27 Copynumber: 4.0 Consensus size: 27
54426474 TCGTTAACTG
*
54426484 TACCGAAATATCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
* *
54426511 TATC-AGAATACCCTTGATGGGTAAAAT
1 TACCGA-AATACCCTCGATGGGTAAAAT
*
54426538 TACCGAAATACCCTCGACGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
54426565 TACCGAAATACGCC-CGATGGGTAAAAT
1 TACCGAAATAC-CCTCGATGGGTAAAAT
54426592 T
1 T
54426593 GACTATTGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.01
27 68 0.94
28 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTCGATGGGTAAAAT
Found at i:54438396 original size:21 final size:21
Alignment explanation
Indices: 54438338--54438396 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
54438328 CAGGGCTAAT
*
54438338 TTAAAAATGATTTAAAGATCCA
1 TTAAAAAT-ATTTAAAAATCCA
**
54438360 TTAAAAATATGGAAAAATACC-
1 TTAAAAATATTTAAAAAT-CCA
*
54438381 TTTAAAATATTTAAAA
1 TTAAAAATATTTAAAA
54438397 TTCCCCTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (21 bp):
TTAAAAATATTTAAAAATCCA
Found at i:54441971 original size:42 final size:42
Alignment explanation
Indices: 54441866--54441985 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 42
54441856 CACATAAGTG
* * * * * *
54441866 CTAAACAGAAACCCATAAAGGTTGAACGGAAGCTCAACAGAG
1 CTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
* *
54441908 CTGAACGGAAACCCATAAGGGTTAAATTGAAGCTCAAAAGAA
1 CTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
* *
54441950 CTAAACTGAAACCCA-ATAGGGTTAAACTGAAACTCA
1 CTAAACGGAAACCCATA-AGGGTTAAACTGAAGCTCA
54441986 TATGAGTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (42 bp):
CTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
Found at i:54441994 original size:21 final size:22
Alignment explanation
Indices: 54441951--54442006 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
54441941 TCAAAAGAAC
* *
54441951 TAAACTGAAACCCA-ATAGGGT
1 TAAACTGAAACTCATATAGAGT
54441972 TAAACTGAAACTCATAT-GAGT
1 TAAACTGAAACTCATATAGAGT
*
54441993 T-AACTGAAGCTCAT
1 TAAACTGAAACTCAT
54442007 GAGAGCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.39
21 17 0.55
22 2 0.06
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (22 bp):
TAAACTGAAACTCATATAGAGT
Found at i:54444367 original size:34 final size:35
Alignment explanation
Indices: 54444329--54444405 Score: 113
Period size: 34 Copynumber: 2.2 Consensus size: 35
54444319 TAATAGAGTT
*
54444329 TTGTGCCCTGCACTAATCGAATAA-C-AAACAATAG
1 TTGTGCCCTGCACTAATCGAATAATCGAAA-AATAA
*
54444363 TTGTGCCCTGCACTAGTCGAATAATCGAAAAATAA
1 TTGTGCCCTGCACTAATCGAATAATCGAAAAATAA
54444398 TTGTGCCC
1 TTGTGCCC
54444406 AACTCTAGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
34 23 0.59
35 13 0.33
36 3 0.08
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (35 bp):
TTGTGCCCTGCACTAATCGAATAATCGAAAAATAA
Found at i:54444414 original size:35 final size:33
Alignment explanation
Indices: 54444329--54444430 Score: 96
Period size: 34 Copynumber: 3.0 Consensus size: 33
54444319 TAATAGAGTT
** * *
54444329 TTGTGCCCTGCACTAATCGAATAACAAACAATAG
1 TTGTGCCCAACACTAGTCGAATAACAAA-AATAA
**
54444363 TTGTGCCCTGCACTAGTCGAATAATCGAAAAATAA
1 TTGTGCCCAACACTAGTCGAATAA-C-AAAAATAA
* *
54444398 TTGTGCCCAACTCTAGTCGGATAACCAAAAATA
1 TTGTGCCCAACACTAGTCGAATAA-CAAAAATA
54444431 TCAATTACAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 30 0.51
35 26 0.44
36 3 0.05
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (33 bp):
TTGTGCCCAACACTAGTCGAATAACAAAAATAA
Found at i:54473382 original size:13 final size:13
Alignment explanation
Indices: 54473364--54473388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54473354 TAATGGTATA
54473364 TTGAATCCATGAC
1 TTGAATCCATGAC
54473377 TTGAATCCATGA
1 TTGAATCCATGA
54473389 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:54475162 original size:47 final size:48
Alignment explanation
Indices: 54475070--54475433 Score: 484
Period size: 47 Copynumber: 7.6 Consensus size: 48
54475060 TATTTGAATA
* *
54475070 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54475119 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475166 AATGTGAAAGTGTATATATATGTAATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475215 AATATGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475264 AATGTGAAAGTG-TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475311 AATGTGAAAGTG-TATATATGTGATAAGGCCTAGTGGCTGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
54475358 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475407 GATGTGAAAGTG-TATAAATGTGATAAG
1 AATGTGAAAGTGATATATATGTGATAAG
54475434 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
47 142 0.51
49 139 0.49
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (48 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54475184 original size:49 final size:49
Alignment explanation
Indices: 54475070--54475433 Score: 501
Period size: 49 Copynumber: 7.6 Consensus size: 49
54475060 TATTTGAATA
* *
54475070 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54475119 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475166 AATGTGAAAGTGTATATATATGTAATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475215 AATATGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475264 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54475311 AATGTGAAAGTG--TATATATGTGATAAGGCCTAGTGGCTGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
54475358 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54475407 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
54475434 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
47 138 0.49
48 1 0.00
49 143 0.51
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54475203 original size:96 final size:96
Alignment explanation
Indices: 54475070--54475433 Score: 534
Period size: 96 Copynumber: 3.8 Consensus size: 96
54475060 TATTTGAATA
*
54475070 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
54475135 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
54475166 AATGTGAAAGTGTATATATATGTAATAGGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
*
54475231 TATATGTGATAAGGCCTAATGGTCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
54475264 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
54475327 TATGTGATAAGGCCTAGTGGCTGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
54475358 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
54475423 AATGTGATAAG
66 TATGTGATAAG
54475434 TCCCGAAGGG
Statistics
Matches: 242, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
94 43 0.18
96 154 0.64
98 45 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54475608 original size:37 final size:37
Alignment explanation
Indices: 54475552--54475630 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
54475542 CCGAGCTCTA
* * * * *
54475552 AAGACCCGGTGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
*
54475589 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
54475626 AAGAC
1 AAGAC
54475631 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:54477491 original size:40 final size:40
Alignment explanation
Indices: 54477446--54477874 Score: 666
Period size: 40 Copynumber: 10.8 Consensus size: 40
54477436 GAGAATTGAG
54477446 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
54477486 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
54477526 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
54477566 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
54477606 AGTGATGTATCCGGACTAAG-TCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
54477645 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
54477685 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
54477725 AGTGATGTATCCGGGCTAAG-TCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGTGCT
*
54477765 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *** *
54477805 AGTGATATATCCGTG-CTAAACCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
54477845 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAG
54477875 TAATCATGCT
Statistics
Matches: 364, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
39 40 0.11
40 321 0.88
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:54477793 original size:199 final size:200
Alignment explanation
Indices: 54477446--54477874 Score: 675
Period size: 199 Copynumber: 2.1 Consensus size: 200
54477436 GAGAATTGAG
*
54477446 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
54477511 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * **
54477576 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACT-AAGTCCGAAGAGCATT
131 CCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCCCGAAGAGCATT
54477639 CGTGCT
195 CGTGCT
*
54477645 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
*
54477710 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCTCGAAGAGCATTCGTGCTAGTGATGTA
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTA
*
54477774 TCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
130 TCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
*
54477839 TGTGCT
195 CGTGCT
* * * * * *
54477845 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAG
54477875 TAATCATGCT
Statistics
Matches: 211, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
198 2 0.01
199 165 0.78
200 44 0.21
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (200 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
CCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTC
GTGCT
Found at i:54480361 original size:13 final size:13
Alignment explanation
Indices: 54480343--54480367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54480333 TAATGGTATA
54480343 TTGAATCCATGAC
1 TTGAATCCATGAC
54480356 TTGAATCCATGA
1 TTGAATCCATGA
54480368 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:54482165 original size:49 final size:49
Alignment explanation
Indices: 54482051--54482413 Score: 537
Period size: 49 Copynumber: 7.6 Consensus size: 49
54482041 TATTTGAATA
* *
54482051 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54482100 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54482147 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
54482196 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54482245 AATGTGAAAGTG--TATATACGTGAT-AGGGCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
54482291 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
54482338 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54482387 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
54482414 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 21, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
46 44 0.15
47 95 0.33
48 1 0.00
49 148 0.51
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54482394 original size:191 final size:191
Alignment explanation
Indices: 54482051--54482413 Score: 577
Period size: 191 Copynumber: 1.9 Consensus size: 191
54482041 TATTTGAATA
*
54482051 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
54482116 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTA
65 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGA
* *
54482181 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
130 ATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
54482245 AATGTGAAAGTG-TATATACGTGAT-AGGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * *
54482308 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAA
*
54482373 TGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 TGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
54482414 TCCCGAAGGG
Statistics
Matches: 157, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
189 10 0.06
190 1 0.01
191 123 0.78
192 11 0.07
194 12 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (191 bp):
AATGTGAAAGTGATATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAA
TGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54482588 original size:37 final size:37
Alignment explanation
Indices: 54482532--54482610 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
54482522 CCGAGCTCTA
* * * *
54482532 AAGACCCGGTGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
54482569 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54482606 AAGAC
1 AAGAC
54482611 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54487715 original size:45 final size:45
Alignment explanation
Indices: 54487666--54487754 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
54487656 GCCATTGGGT
* *
54487666 TGTGGATATACAACGAAAAT-TCACAGATGAAACTTGCCACTAGGC
1 TGTGGATACACAAC-AAAATGTCACAGATAAAACTTGCCACTAGGC
* * * *
54487711 TGTGGGTGCACAGCAAAATGTCACAGATAAAATTTGCCACTAGG
1 TGTGGATACACAACAAAATGTCACAGATAAAACTTGCCACTAGG
54487755 TTGTAAATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 5 0.14
45 32 0.86
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (45 bp):
TGTGGATACACAACAAAATGTCACAGATAAAACTTGCCACTAGGC
Found at i:54487766 original size:45 final size:44
Alignment explanation
Indices: 54487681--54487767 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 44
54487671 ATATACAACG
* ***
54487681 AAAATTCACAGATGAAACTTGCCACTAGGCTGTGGGTGCACAGC
1 AAAATTCACAGATAAAACTTGCCACTAGGCTGTAAATGCACAGC
* *
54487725 AAAATGTCACAGATAAAATTTGCCACTAGGTTGTAAATGCACA
1 AAAAT-TCACAGATAAAACTTGCCACTAGGCTGTAAATGCACA
54487768 ACATATTTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 5 0.14
45 31 0.86
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (44 bp):
AAAATTCACAGATAAAACTTGCCACTAGGCTGTAAATGCACAGC
Found at i:54489617 original size:20 final size:20
Alignment explanation
Indices: 54489576--54489625 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
54489566 AATTAGATTT
*
54489576 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATGAA
*
54489596 ATTTAAATTAAAAA-ATAGAA
1 ATTTAAAATAAAAATAT-GAA
*
54489616 ATTTATAATA
1 ATTTAAAATA
54489626 TTAAATACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTTAAAATAAAAATATGAA
Found at i:54489992 original size:11 final size:11
Alignment explanation
Indices: 54489978--54490028 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
54489968 CTTTTTAAAT
54489978 ATTTTTTTACA
1 ATTTTTTTACA
*
54489989 ATTTTTTTATA
1 ATTTTTTTACA
54490000 A--TTTTTACA
1 ATTTTTTTACA
54490009 ATTTTCTTTTACA
1 A-TTT-TTTTACA
54490022 ATTTTTT
1 ATTTTTT
54490029 GTAATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 8 0.24
11 14 0.41
12 4 0.12
13 8 0.24
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTTTACA
Found at i:54489995 original size:13 final size:12
Alignment explanation
Indices: 54489969--54490028 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 12
54489959 ATTTTTATAC
54489969 TTTTTA-AATATT
1 TTTTTACAAT-TT
54489981 TTTTTACAA-TT
1 TTTTTACAATTT
*
54489992 TTTTTATAA---
1 TTTTTACAATTT
54490001 TTTTTACAATTT
1 TTTTTACAATTT
54490013 TCTTTTACAATTT
1 T-TTTTACAATTT
54490026 TTT
1 TTT
54490029 GTAATAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 8 0.20
11 10 0.24
12 9 0.22
13 14 0.34
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTTACAATTT
Found at i:54489999 original size:32 final size:33
Alignment explanation
Indices: 54489960--54490028 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 33
54489950 AAAAAAATCA
*
54489960 TTTTTATACTTTTTA-AATATTT-TTTTACAATT
1 TTTTTATAATTTTTACAAT-TTTCTTTTACAATT
54489992 TTTTTATAATTTTTACAATTTTCTTTTACAATT
1 TTTTTATAATTTTTACAATTTTCTTTTACAATT
54490025 TTTT
1 TTTT
54490029 GTAATAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 17 0.50
33 17 0.50
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (33 bp):
TTTTTATAATTTTTACAATTTTCTTTTACAATT
Found at i:54490004 original size:20 final size:22
Alignment explanation
Indices: 54489981--54490027 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
54489971 TTTAAATATT
*
54489981 TTTTTACAA-TTT-TTTTATAA
1 TTTTTACAATTTTCTTTTACAA
54490001 TTTTTACAATTTTCTTTTACAA
1 TTTTTACAATTTTCTTTTACAA
54490023 TTTTT
1 TTTTT
54490028 TGTAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 12 0.50
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTACAATTTTCTTTTACAA
Found at i:54491375 original size:24 final size:25
Alignment explanation
Indices: 54491330--54491376 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
54491320 ATACAAATTA
*
54491330 TTTAAAAAAGAAAGATAAATTTTTT
1 TTTAAAAAAGAAACATAAATTTTTT
* *
54491355 TTTAAAAAA-ATACATAGATTTT
1 TTTAAAAAAGAAACATAAATTTT
54491377 GAATCAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
TTTAAAAAAGAAACATAAATTTTTT
Found at i:54499434 original size:27 final size:27
Alignment explanation
Indices: 54499381--54499435 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
54499371 TTAAAAAATT
* *
54499381 TAATTAATTAATGACAAATAAATTAAA
1 TAATTAATTAAAGACAAATAAAATAAA
*
54499408 TAATTAGTTAAAGA-AAATAAAAATAAA
1 TAATTAATTAAAGACAAAT-AAAATAAA
54499435 T
1 T
54499436 GTGTGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
TAATTAATTAAAGACAAATAAAATAAA
Found at i:54505252 original size:3 final size:3
Alignment explanation
Indices: 54505240--54505283 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
54505230 TGTGCTTTTA
*
54505240 TAT T-T TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
54505284 GCATATTAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Done.