Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 378 of 410
Found at i:115072861 original size:12 final size:12
Alignment explanation
Indices: 115072844--115072868 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115072834 TTTTTTAGAA
115072844 AATATTTATTTT
1 AATATTTATTTT
115072856 AATATTTATTTT
1 AATATTTATTTT
115072868 A
1 A
115072869 TTTTTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:115073658 original size:16 final size:17
Alignment explanation
Indices: 115073626--115073658 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
115073616 AATTAAACTC
115073626 ATTCATTCAGAAAAAAT
1 ATTCATTCAGAAAAAAT
*
115073643 ATTCATT-AGGAAAAAT
1 ATTCATTCAGAAAAAAT
115073659 CTGGGTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (17 bp):
ATTCATTCAGAAAAAAT
Found at i:115077416 original size:50 final size:50
Alignment explanation
Indices: 115077341--115077439 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
115077331 ACTCTATTCG
* **
115077341 AATCAATGTCAAATAGAAGAAGAGTAGTTCTATATTGATTCTACTTGTGC
1 AATCAATGTCAAATAGAAAAAGAGTAGTTCTATACGGATTCTACTTGTGC
115077391 AATCAATGTCAAATAGAAAAAGAGTAGTTCTATACGGATTCTACTTGTG
1 AATCAATGTCAAATAGAAAAAGAGTAGTTCTATACGGATTCTACTTGTG
115077440 GTCGGCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (50 bp):
AATCAATGTCAAATAGAAAAAGAGTAGTTCTATACGGATTCTACTTGTGC
Found at i:115079354 original size:135 final size:136
Alignment explanation
Indices: 115079093--115079356 Score: 329
Period size: 135 Copynumber: 1.9 Consensus size: 136
115079083 ATATAATATT
* * * * *
115079093 TAAAATTATATATAATCTCTTTTTAACTTTAAAAAAGAAGATAAACGTATTTTAGTGTGCTTGAA
1 TAAAATTATATATAATCTCTTTTTAACTTTAAAAAAGAAGATAAACATACTCTAATGCGCTTGAA
* * * * * *
115079158 CTTACATCTTTTTGGACTTACAATAATACTAATATCAATTGAACTAAAATTTAACTCGTAAATTT
66 CTTA-ATCATTCTGAACTTACAATAATACTAATACCAATTCAAATAAAATTTAACTCGTAAATTT
115079223 GAATGTC
130 GAATGTC
* *
115079230 TAAAATTATATATAATCTCTTTTTAACTTTAAAATAATAGGATAAACATACTCTAATGCGCTTGA
1 TAAAATTATATATAATCTCTTTTTAACTTTAAAA-AAGAAGATAAACATACTCTAATGCGCTTGA
**
115079295 ACTT-AT-ATTCTGAACTTACAATAATGGTAATACCAA-TCAAATAAAAATTTAAC-CAGTAAAT
65 ACTTAATCATTCTGAACTTACAATAATACTAATACCAATTCAAAT-AAAATTTAACTC-GTAAAT
115079356 T
128 T
115079357 AGAGTAGAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
134 5 0.05
135 41 0.38
136 2 0.02
137 34 0.31
138 27 0.25
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (136 bp):
TAAAATTATATATAATCTCTTTTTAACTTTAAAAAAGAAGATAAACATACTCTAATGCGCTTGAA
CTTAATCATTCTGAACTTACAATAATACTAATACCAATTCAAATAAAATTTAACTCGTAAATTTG
AATGTC
Found at i:115084418 original size:33 final size:33
Alignment explanation
Indices: 115084338--115084435 Score: 162
Period size: 32 Copynumber: 3.0 Consensus size: 33
115084328 TTTCTTCTTG
*
115084338 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
115084371 ACATT-CAGCTCCTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
115084403 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
115084436 CAACTCAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 30 0.50
33 30 0.50
ACGTcount: A:0.32, C:0.41, G:0.10, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
Found at i:115092619 original size:6 final size:6
Alignment explanation
Indices: 115092608--115092689 Score: 69
Period size: 6 Copynumber: 13.2 Consensus size: 6
115092598 AAGGGAGACG
* *
115092608 AAGAGA AAGAGA AAGAGA AAGA-A AAGAAA AAGA-A GAAGAAGA AAGACA
1 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA -AAG-AGA AAGAGA
* *
115092656 AAGATGGGA AAGAGA AAGAGA AAAAGA AAAAGA A
1 AAGA---GA AAGAGA AAGAGA AAGAGA AAGAGA A
115092690 GAAAAAGGAT
Statistics
Matches: 66, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
5 6 0.09
6 50 0.76
7 4 0.06
8 1 0.02
9 5 0.08
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (6 bp):
AAGAGA
Found at i:115092633 original size:48 final size:48
Alignment explanation
Indices: 115092520--115092633 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
115092510 CAAAGAAGAG
* * *
115092520 GAGAAGGAGAAGGAGAAGGATAAAGAGGTTAAGGAAAAAGAAGAGAAG
1 GAGAAGGAGAAAGAAAAGGATAAAGAGGTTAAGGAAAAAGAAGAGAAA
* * *
115092568 GAGAAGGA-AAAGAAAAAGGATAAAGAGGTTAAGGGAGACGAAGAGAAA
1 GAGAAGGAGAAAG-AAAAGGATAAAGAGGTTAAGGAAAAAGAAGAGAAA
*
115092616 GAGAAAGAGAAAGAAAAG
1 GAGAAGGAGAAAGAAAAG
115092634 AAAAAGAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 3 0.05
48 50 0.88
49 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.37, T:0.05
Consensus pattern (48 bp):
GAGAAGGAGAAAGAAAAGGATAAAGAGGTTAAGGAAAAAGAAGAGAAA
Found at i:115092804 original size:9 final size:9
Alignment explanation
Indices: 115092790--115092815 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
115092780 TTCTTCTTCC
115092790 TCATCGTCG
1 TCATCGTCG
115092799 TCATCGTCG
1 TCATCGTCG
115092808 TCATCGTC
1 TCATCGTC
115092816 ATCTTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.19, T:0.35
Consensus pattern (9 bp):
TCATCGTCG
Found at i:115092832 original size:24 final size:24
Alignment explanation
Indices: 115092805--115092857 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
115092795 GTCGTCATCG
* *
115092805 TCGTCATCGTCATCTTCTTCTTCC
1 TCGTCATCATCATCATCTTCTTCC
* *
115092829 TCGTCATCATCTTCATCTTCTTCG
1 TCGTCATCATCATCATCTTCTTCC
115092853 TCGTC
1 TCGTC
115092858 TTCTGACTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.09, C:0.36, G:0.09, T:0.45
Consensus pattern (24 bp):
TCGTCATCATCATCATCTTCTTCC
Found at i:115092840 original size:21 final size:21
Alignment explanation
Indices: 115092814--115092854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
115092804 GTCGTCATCG
*
115092814 TCATCTTCTTCTTCCTCGTCA
1 TCATCTTCATCTTCCTCGTCA
*
115092835 TCATCTTCATCTTCTTCGTC
1 TCATCTTCATCTTCCTCGTC
115092855 GTCTTCTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.37, G:0.05, T:0.49
Consensus pattern (21 bp):
TCATCTTCATCTTCCTCGTCA
Found at i:115092888 original size:6 final size:6
Alignment explanation
Indices: 115092877--115092911 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
115092867 GGATTCAGAT
115092877 AAGAAA AAG-AA AAGAAA AGAGAAA AAGAAA AAGAA
1 AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA AAGAA
115092912 GCAAGAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:115092966 original size:24 final size:24
Alignment explanation
Indices: 115092939--115092994 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
115092929 ATAAAGAGCT
*
115092939 GAAAGAAGATGA-ACACAAAGAGAA
1 GAAAGAAGACGAGACA-AAAGAGAA
*
115092963 GAAAGATGACGAGACAAAAGAGAA
1 GAAAGAAGACGAGACAAAAGAGAA
115092987 -AAAGAAGA
1 GAAAGAAGA
115092995 AAAAGAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.62, C:0.07, G:0.27, T:0.04
Consensus pattern (24 bp):
GAAAGAAGACGAGACAAAAGAGAA
Found at i:115097873 original size:30 final size:31
Alignment explanation
Indices: 115097837--115097898 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
115097827 AATTTCAAAA
*
115097837 AGTTAAGTGA-CTAAAA-AGAAAAAAATTAAT
1 AGTTAAGTGATC-AAAATAGAAAAAAATAAAT
115097867 AGTTAAGTGATCAAAATAGAAAAAAATAAAT
1 AGTTAAGTGATCAAAATAGAAAAAAATAAAT
115097898 A
1 A
115097899 ATTAGATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (31 bp):
AGTTAAGTGATCAAAATAGAAAAAAATAAAT
Found at i:115097891 original size:31 final size:30
Alignment explanation
Indices: 115097837--115097898 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
115097827 AATTTCAAAA
*
115097837 AGTTAAGTGACTAAAAAGAAAAAAATTAAT
1 AGTTAAGTGACTAAAAAGAAAAAAATAAAT
115097867 AGTTAAGTGA-TCAAAATAGAAAAAAATAAAT
1 AGTTAAGTGACT-AAAA-AGAAAAAAATAAAT
115097898 A
1 A
115097899 ATTAGATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.03
30 14 0.48
31 14 0.48
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (30 bp):
AGTTAAGTGACTAAAAAGAAAAAAATAAAT
Found at i:115098491 original size:58 final size:59
Alignment explanation
Indices: 115098399--115098550 Score: 218
Period size: 58 Copynumber: 2.6 Consensus size: 59
115098389 TTTAAATAAC
* * *
115098399 TACTAAAAACTTAAGAAAAAGTATGGAAAATTATTAATAGTTATAAGAAATTATTAAAAG
1 TACT-AAAACTTAAGAAAAAGTATGAAAAATTATTAACAATTATAAGAAATTATTAAAAG
115098459 TACT-AAACTTAAGAAAAAGTATGAAAAATTATTAACAATTATAAGAAATTATTAAAAG
1 TACTAAAACTTAAGAAAAAGTATGAAAAATTATTAACAATTATAAGAAATTATTAAAAG
* * **
115098517 TACTAAAAATT-AGTAAAAGTATTTAAAATTATTA
1 TACTAAAACTTAAGAAAAAGTATGAAAAATTATTA
115098551 TAACATCACA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
58 75 0.89
59 5 0.06
60 4 0.05
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (59 bp):
TACTAAAACTTAAGAAAAAGTATGAAAAATTATTAACAATTATAAGAAATTATTAAAAG
Found at i:115099114 original size:44 final size:45
Alignment explanation
Indices: 115099039--115099140 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
115099029 AAGTGTAAGG
* * * * *
115099039 GACACATGCCCGTGTGACCAGGCCGTTTCTCTCACAC-GGCAAGA
1 GACACATGCTCGTGTGACCAAGCCATGTCTCTCACACAGCCAAGA
*
115099083 GACACATGCTCGTGTGGCCAAGCCATGTCTCTCACACAGCCAAGA
1 GACACATGCTCGTGTGACCAAGCCATGTCTCTCACACAGCCAAGA
115099128 GACAC--GCTCGTGT
1 GACACATGCTCGTGT
115099141 CACATGCCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 8 0.16
44 32 0.63
45 11 0.22
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.19
Consensus pattern (45 bp):
GACACATGCTCGTGTGACCAAGCCATGTCTCTCACACAGCCAAGA
Found at i:115102127 original size:21 final size:22
Alignment explanation
Indices: 115102101--115102150 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
115102091 TTGGAAATTT
115102101 AAAAAATAAATA-TAAAATTGA
1 AAAAAATAAATATTAAAATTGA
* *
115102122 AAAAAATAAATATTATAATTTA
1 AAAAAATAAATATTAAAATTGA
115102144 AAAAAAT
1 AAAAAAT
115102151 TAGATCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAAATAAATATTAAAATTGA
Found at i:115103376 original size:15 final size:15
Alignment explanation
Indices: 115103358--115103389 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
115103348 TTAGGGAAAA
115103358 TATGTTGAGAACAAC
1 TATGTTGAGAACAAC
*
115103373 TATGTTGAGAATAAC
1 TATGTTGAGAACAAC
115103388 TA
1 TA
115103390 ATATTTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (15 bp):
TATGTTGAGAACAAC
Found at i:115109336 original size:19 final size:20
Alignment explanation
Indices: 115109314--115109356 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
115109304 AAGTTAAAAA
115109314 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
* *
115109333 AAAATTTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTC
115109353 AAAA
1 AAAA
115109357 TTTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:115109344 original size:20 final size:20
Alignment explanation
Indices: 115109321--115109359 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
115109311 AAAAAAAATT
115109321 AAAATAATTTTCAAAATTTC
1 AAAATAATTTTCAAAATTTC
*
115109341 AAAATAATTTTTAAAATTT
1 AAAATAATTTTCAAAATTT
115109360 ATATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATAATTTTCAAAATTTC
Found at i:115113493 original size:14 final size:14
Alignment explanation
Indices: 115113474--115113502 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
115113464 CTTTCGTGTG
115113474 ATGGTAGCTCATTT
1 ATGGTAGCTCATTT
115113488 ATGGTAGCTCATTT
1 ATGGTAGCTCATTT
115113502 A
1 A
115113503 CAGCATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (14 bp):
ATGGTAGCTCATTT
Found at i:115116854 original size:44 final size:44
Alignment explanation
Indices: 115116806--115116892 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
115116796 GGTATAGGAT
*
115116806 TTGTAGCTTCAATATACTCCACTGTAACTTGAAGGAGATAAGAC
1 TTGTAGCTTCAATATACTCCACTGGAACTTGAAGGAGATAAGAC
* * * * *
115116850 TTGTAGCTTCAATTTGCTCTATTGGAACTTTAAGGAGATAAGA
1 TTGTAGCTTCAATATACTCCACTGGAACTTGAAGGAGATAAGA
115116893 TTTGCTATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATATACTCCACTGGAACTTGAAGGAGATAAGAC
Found at i:115116972 original size:137 final size:138
Alignment explanation
Indices: 115116801--115117123 Score: 450
Period size: 137 Copynumber: 2.3 Consensus size: 138
115116791 TCAGGGGTAT
* * *
115116801 AGGATTTGTAGCTTCAATATACTCCACTGTAACTTGAAGGAGATAAGACTTGTAGCTTCAATTTG
1 AGGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTCAATTTG
* ** * * * * *
115116866 CTCTATTGGAACTTTAAGGAGATAAGATTTGCTATGGTCAATTCGAT-CGTCCCATCACAACTTC
66 CTCTACTACAACTTCAAGGAGATAAGATTCGCTATGGTAAATTCAATCCGCCCCATCACAACTTC
115116930 AAAGTTGC
131 AAAGTTGC
* * *
115116938 AGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATTTG
1 AGGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTCAATTTG
* * *
115117003 CTCTACTACAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCCGCCCCATCATAACTTT
66 CTCTACTACAACTTCAAGGAGATAAGATTCGCTATGGTAAATTCAATCCGCCCCATCACAACTTC
**
115117068 AGGGTTGC
131 AAAGTTGC
* *
115117076 AGGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAAGAGATAAGA
1 AGGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGA
115117124 TTCGCTATGT
Statistics
Matches: 162, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
137 98 0.60
138 64 0.40
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (138 bp):
AGGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTCAATTTG
CTCTACTACAACTTCAAGGAGATAAGATTCGCTATGGTAAATTCAATCCGCCCCATCACAACTTC
AAAGTTGC
Found at i:115116973 original size:44 final size:43
Alignment explanation
Indices: 115116940--115117031 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 43
115116930 AAAGTTGCAG
* *
115116940 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCA-GAAGATAA
* * *
115116984 GATTTGTAGCTTCAATTTGCTCTACTACAACTTCAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCA-GAAGATAA
115117028 GATT
1 GATT
115117032 CGCTATGGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGAAGATAA
Found at i:115117122 original size:138 final size:138
Alignment explanation
Indices: 115116688--115117125 Score: 481
Period size: 138 Copynumber: 3.2 Consensus size: 138
115116678 TCATTCTAAC
* * * * * * * *
115116688 CCACTGCAACTT-TAGG-GGTAGGATTTTTAGCTTCAATCTACTCTACTACAATTTTAGGGATAT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATTTGCTCTACTACAACTTTAGGGAGAT
* * * * * * **
115116751 AAGATTTACTATGGTAGATTCAATCCAATCCA-CTGTAA-TTTCAGGGGTATAGGATTTGTAGCT
66 AAGATTTGCTATGGTAAATTCAATCCGACCCATC-ATAACTTT-AGGGTTGCAGGATTTGTAGCT
*
115116814 TCAATATACT
129 TCAATCTACT
* * * * ** *
115116824 CCACTGTAACTTGAAGGAGATAAGACTTGTAGCTTCAATTTGCTCTATTGGAACTTTAAGGAGAT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATTTGCTCTACTACAACTTTAGGGAGAT
* * * * * **
115116889 AAGATTTGCTATGGTCAATTCGAT-CGTCCCATCACAACTTCAAAGTTGCAGGATTTGTAGCTTC
66 AAGATTTGCTATGGTAAATTCAATCCGACCCATCATAACTTTAGGGTTGCAGGATTTGTAGCTTC
*
115116953 AATCTGCT
131 AATCTACT
* *
115116961 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATTTGCTCTACTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATTTGCTCTACTACAACTTTAGGGAGAT
* *
115117026 AAGATTCGCTATGGTAAATTCAATCCGCCCCATCATAACTTTAGGGTTGCAGGATTTGTAGCTTC
66 AAGATTTGCTATGGTAAATTCAATCCGACCCATCATAACTTTAGGGTTGCAGGATTTGTAGCTTC
*
115117091 AATCTATT
131 AATCTACT
*
115117099 CCACTGCAACTTCAAAGAGATAAGATT
1 CCACTGCAACTTCAAGGAGATAAGATT
115117126 CGCTATGTTG
Statistics
Matches: 245, Mismatches: 52, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
136 11 0.04
137 110 0.45
138 124 0.51
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (138 bp):
CCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATTTGCTCTACTACAACTTTAGGGAGAT
AAGATTTGCTATGGTAAATTCAATCCGACCCATCATAACTTTAGGGTTGCAGGATTTGTAGCTTC
AATCTACT
Found at i:115117174 original size:94 final size:93
Alignment explanation
Indices: 115116950--115117178 Score: 237
Period size: 94 Copynumber: 2.4 Consensus size: 93
115116940 GATTTGTAGC
* * * * *
115116950 TTCAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATTTGCTCTACTACAA
1 TTCAATCTGC-CCACTACAACTTCAGGG-GTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
**
115117014 CTTCAGGGAGATAAGATTCGCTATGGTAAA
64 CTTCAAAGAGATAAGATTCGCTATGGTAAA
* * * * ** * *
115117044 TTCAATCCGCCC-CATCATAACTTTAGGGTTGCAGGATTTGTAGCTTCAATCTATTCCACTGCAA
1 TTCAATCTGCCCAC-T-ACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
* * *
115117108 CTTCAAAGAGATAAGATTCGCTATGTTGAT
64 CTTCAAAGAGATAAGATTCGCTATGGTAAA
115117138 TTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGT
1 TTCAATCTG-CCCACTACAACTTCAGGGGTATAGGATTTGT
115117179 GGTTTCACTG
Statistics
Matches: 106, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
92 1 0.01
93 3 0.03
94 97 0.92
95 4 0.04
96 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (93 bp):
TTCAATCTGCCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAACT
TCAAAGAGATAAGATTCGCTATGGTAAA
Found at i:115119170 original size:30 final size:30
Alignment explanation
Indices: 115119104--115119160 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
115119094 TCTAAGACAA
*
115119104 AGTCATTAGCTAGTCTCCTTAGTGTCCCAT
1 AGTCATTAGCCAGTCTCCTTAGTGTCCCAT
*
115119134 AGTCATTAGCCAGTCTTCTTAGTGTCC
1 AGTCATTAGCCAGTCTCCTTAGTGTCC
115119161 TTTTATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (30 bp):
AGTCATTAGCCAGTCTCCTTAGTGTCCCAT
Found at i:115128788 original size:5 final size:5
Alignment explanation
Indices: 115128766--115128812 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
115128756 AATGAGAGGT
115128766 AAAT- AAAT- AAAT- AAATA AAATA AAATA AAATAA AAGATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A AA-ATA AAATA AAA
115128813 ATGCTATGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.30
5 20 0.50
6 6 0.15
7 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:115128791 original size:22 final size:22
Alignment explanation
Indices: 115128766--115128812 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
115128756 AATGAGAGGT
115128766 AAAT-AAATAAATAAATAAAATA
1 AAATAAAATAAA-AAATAAAATA
*
115128788 AAATAAAATAAAAGATAAAATA
1 AAATAAAATAAAAAATAAAATA
115128810 AAA
1 AAA
115128813 ATGCTATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAAAAATAAAATA
Found at i:115128904 original size:3 final size:3
Alignment explanation
Indices: 115128896--115128950 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
115128886 TAATCATGTT
115128896 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
115128944 ATA ATA A
1 ATA ATA A
115128951 CAAAAAATAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:115130495 original size:30 final size:28
Alignment explanation
Indices: 115130453--115130510 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
115130443 GAGGTGGGAT
*
115130453 GTGAAGGAAGTAAAAATTTTAGGGGGAAA
1 GTGAAGGAAGTAAAAATTTT-GGGAGAAA
*
115130482 GTGAGAGGGAGTAAAAATTTTGGGAGAAA
1 GTGA-AGGAAGTAAAAATTTTGGGAGAAA
115130511 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (28 bp):
GTGAAGGAAGTAAAAATTTTGGGAGAAA
Found at i:115130658 original size:29 final size:31
Alignment explanation
Indices: 115130616--115130673 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
115130606 GGTTGGAATG
**
115130616 GAAGGAGAGTAAAAGTTTTGGGGGAAAGTGA
1 GAAGGAGAGTAAAAGTTTTGAAGGAAAGTGA
115130647 GAAGG-GA-TAAAAGTTTTGAAGGAAAGT
1 GAAGGAGAGTAAAAGTTTTGAAGGAAAGT
115130674 AAAAATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.72
30 2 0.08
31 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (31 bp):
GAAGGAGAGTAAAAGTTTTGAAGGAAAGTGA
Found at i:115130824 original size:18 final size:18
Alignment explanation
Indices: 115130801--115130835 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
115130791 ATTCGAGTTG
115130801 ACTCGAATAACTTGATTA
1 ACTCGAATAACTTGATTA
115130819 ACTCGAATAACTTGATT
1 ACTCGAATAACTTGATT
115130836 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ACTCGAATAACTTGATTA
Found at i:115131932 original size:120 final size:118
Alignment explanation
Indices: 115131688--115131929 Score: 373
Period size: 117 Copynumber: 2.1 Consensus size: 118
115131678 ATTGGGCTAT
115131688 TATAATTATTATT-AAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATATTTTAACAT
1 TATAATTATTATTAAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATATTTTAACAT
* *
115131752 AGTTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATTCTTAA
66 A--TATTATTAAATATAATTTAATAAAATAAAACATAATTTAATAACATTCTTAA
* * *
115131807 TATAATTATTATTAAAATATGAA-TTAATAAAAATCATAATAAATGATTTAATCATATTTTAACA
1 TATAATTATTATTAAAATAT-AATTTAATAAAAATAAAAATAAATAATTTAATCATATTTTAACA
**
115131871 TA-ATTATTAAATATAATTTAATAAAATAAAACATAATTTAATAGGATTCTTAA
65 TATATTATTAAATATAATTTAATAAAATAAAACATAATTTAATAACATTCTTAA
115131924 TATAAT
1 TATAAT
115131930 AATAATTATT
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
117 53 0.46
119 13 0.11
120 46 0.40
121 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (118 bp):
TATAATTATTATTAAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATATTTTAACAT
ATATTATTAAATATAATTTAATAAAATAAAACATAATTTAATAACATTCTTAA
Found at i:115136739 original size:201 final size:202
Alignment explanation
Indices: 115136389--115136796 Score: 757
Period size: 201 Copynumber: 2.0 Consensus size: 202
115136379 AATATTTGTT
* *
115136389 TATG-CAAATTCGTGGTTTTTGTCAAGCTTTGCAGTATGAAAATAAAAAAACACATCCCAAAACC
1 TATGTCAAATTCGTGGTTTTTGTCAAACATTGCAGTATGAAAATAAAAAAACACATCCCAAAACC
115136453 AAAATTAAAATCAATAGTCCGGAGAGTCCAAGAATTACAAAACTTTCAGAAATAATCCATATTTT
66 AAAATTAAAATCAATAGTCCGGAGAGTCCAAGAATTACAAAACTTTCAGAAATAATCCATATTTT
*
115136518 AAATAAAAACCATTATTTAAGACAGTTCACGAACTAGTGGTCATCGCAGAGCCTCCGTCACACCG
131 AAATAAAAACCATTATTTAAGACAGTTCACGAACTAGTGGTCACCGCAGAGCCTCCGTCACACCG
*
115136583 ACTCGCC
196 ACTCACC
115136590 TATGTCAAATTCGTGGTTTTTGTCAAACATTGCAGTATGAAAAT-AAAAAACACATCCCAAAACC
1 TATGTCAAATTCGTGGTTTTTGTCAAACATTGCAGTATGAAAATAAAAAAACACATCCCAAAACC
115136654 AAAATTAAAATCAATAGTCCGGAGAGTCCAAGAATTACAAAACTTTCAGAAATAATCCATATTTT
66 AAAATTAAAATCAATAGTCCGGAGAGTCCAAGAATTACAAAACTTTCAGAAATAATCCATATTTT
*
115136719 AAATAAAAACCATTATTTAAGACAGTTCATGAACTAGTGGTCACCGCAGAGCCTCCGTCACACCG
131 AAATAAAAACCATTATTTAAGACAGTTCACGAACTAGTGGTCACCGCAGAGCCTCCGTCACACCG
115136784 ACTCACC
196 ACTCACC
115136791 TATGTC
1 TATGTC
115136797 TGAGGATTAC
Statistics
Matches: 201, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
201 164 0.82
202 37 0.18
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (202 bp):
TATGTCAAATTCGTGGTTTTTGTCAAACATTGCAGTATGAAAATAAAAAAACACATCCCAAAACC
AAAATTAAAATCAATAGTCCGGAGAGTCCAAGAATTACAAAACTTTCAGAAATAATCCATATTTT
AAATAAAAACCATTATTTAAGACAGTTCACGAACTAGTGGTCACCGCAGAGCCTCCGTCACACCG
ACTCACC
Found at i:115139219 original size:19 final size:19
Alignment explanation
Indices: 115139192--115139229 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
115139182 ATTAAATAAA
115139192 AATAATA-TTAATATATTTT
1 AATAATATTTAATA-ATTTT
*
115139211 AATATTATTTAATAATTTT
1 AATAATATTTAATAATTTT
115139230 TATTATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATAATATTTAATAATTTT
Found at i:115140308 original size:3 final size:3
Alignment explanation
Indices: 115140296--115140339 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
115140286 CCTTACACCC
115140296 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
115140340 ATATTAACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:115146706 original size:42 final size:42
Alignment explanation
Indices: 115146642--115146730 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
115146632 TCCTAATTGG
* *
115146642 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
115146684 GAAAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
115146726 TAAAA
1 GAAAA
115146731 ATATTCCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:115150574 original size:42 final size:42
Alignment explanation
Indices: 115150510--115150598 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
115150500 TCCTAATTGG
* *
115150510 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
115150552 GAAAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
115150594 TAAAA
1 GAAAA
115150599 ATATTCCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:115150645 original size:19 final size:18
Alignment explanation
Indices: 115150623--115150662 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
115150613 TGAATAAAAC
115150623 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
115150642 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
115150660 TTA
1 TTA
115150663 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:115154658 original size:28 final size:28
Alignment explanation
Indices: 115154602--115154671 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 28
115154592 AAAATAATGT
*
115154602 TAAAGATAATTATATAAAAATTTTCAATAAA
1 TAAA-ATAATT-TATAAAAATTTTAAAT-AA
*
115154633 TAAAA-AATTTAT-AAAATTATTAAATAT
1 TAAAATAATTTATAAAAATT-TTAAATAA
115154660 TAAAATAATTTA
1 TAAAATAATTTA
115154672 ATTTAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 12 0.34
28 14 0.40
29 4 0.11
30 1 0.03
31 4 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
TAAAATAATTTATAAAAATTTTAAATAA
Found at i:115156022 original size:3 final size:3
Alignment explanation
Indices: 115155890--115156003 Score: 72
Period size: 3 Copynumber: 38.0 Consensus size: 3
115155880 AAGGGAAAAT
* * *
115155890 ATA ATA ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
115155936 GAGA TATT ATA AT- ATA ATA ATA ATA GTG ATA TTA ATA GTG ATA TTA
1 -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
115155982 ATA ATA ATA ATA GAAA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA
115156004 CATTAAATTA
Statistics
Matches: 82, Mismatches: 24, Indels: 10
0.71 0.21 0.09
Matches are distributed among these distances:
2 4 0.05
3 74 0.90
4 4 0.05
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:115156139 original size:15 final size:14
Alignment explanation
Indices: 115156108--115156157 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
115156098 AATACCTGAA
115156108 ATATAAATATAATT
1 ATATAAATATAATT
115156122 ATATGAAATAT-A-T
1 ATAT-AAATATAATT
* *
115156135 ATATATATATAAAT
1 ATATAAATATAATT
*
115156149 AGATAAATA
1 ATATAAATA
115156158 AAAAAGATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.17
13 6 0.20
14 13 0.43
15 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATAAATATAATT
Found at i:115156278 original size:3 final size:3
Alignment explanation
Indices: 115156270--115156457 Score: 66
Period size: 3 Copynumber: 62.3 Consensus size: 3
115156260 AGCAAAAAGG
* * * * *
115156270 TAA TAA TAA TAA -AA AAGA TAA TAG TAA TAA AAA TAA AAA TAA TAG
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * **
115156315 TAA TAA TAA TAAA TAG TAG TAT TAA TACCT TAA TAA TAA TAA T-A TGT
1 TAA TAA TAA T-AA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA
* * **
115156362 TAA TAA TAG TAA -AT TAA TGAA TTAA TAA TAA -AA CCA TAAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA -TAA TAA TAA TAA TAA T-AA T-AA TAA
* * * * * *
115156409 AAA TAA -AG T-A TAA TTA TAA TAT TAA TAT TAA CAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
115156454 TAA T
1 TAA T
115156458 GACATATTAA
Statistics
Matches: 136, Mismatches: 35, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
2 11 0.08
3 107 0.79
4 15 0.11
5 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:115156286 original size:18 final size:18
Alignment explanation
Indices: 115156263--115156302 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
115156253 ATTAAATAGC
*
115156263 AAAAAGGTAATAATAATA
1 AAAAAGATAATAATAATA
*
115156281 AAAAAGATAATAGTAATA
1 AAAAAGATAATAATAATA
115156299 AAAA
1 AAAA
115156303 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (18 bp):
AAAAAGATAATAATAATA
Found at i:115156299 original size:21 final size:22
Alignment explanation
Indices: 115156273--115156327 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
115156263 AAAAAGGTAA
*
115156273 TAATAATAAA-AAAGATAATAG
1 TAATAATAAATAAAAATAATAG
115156294 TAATAA-AAATAAAAATAATAG
1 TAATAATAAATAAAAATAATAG
115156315 TAATAAT-AATAAA
1 TAATAATAAATAAA
115156328 TAGTAGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (22 bp):
TAATAATAAATAAAAATAATAG
Found at i:115156386 original size:47 final size:45
Alignment explanation
Indices: 115156301--115156388 Score: 106
Period size: 47 Copynumber: 1.9 Consensus size: 45
115156291 TAGTAATAAA
* *
115156301 AATAAAAATAATAGTAATAATAATAAATAGTAGTATTAATACCTT
1 AATAAAAATAATAGTAATAATAATAAATAATAGAATTAATACCTT
* *
115156346 AATAATAATAATATGTTAATAATAGTAAATTAAT-GAATTAATA
1 AATAAAAATAATA-G-TAATAATAATAAA-TAATAGAATTAATA
115156389 ATAAAACCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 12 0.33
46 1 0.03
47 20 0.56
48 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (45 bp):
AATAAAAATAATAGTAATAATAATAAATAATAGAATTAATACCTT
Found at i:115158137 original size:3 final size:3
Alignment explanation
Indices: 115158129--115158311 Score: 60
Period size: 3 Copynumber: 61.3 Consensus size: 3
115158119 TTAATATGTC
* * * * *
115158129 ATT ATT ATT ATT -TT GTT AAT ATT AAT ATT ATA ATT A-T ACT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
115158174 TTT ATTT ATTT ATG GTT -TT ATT ATT AATT CATT AAT -TT ACT ATT ATT
1 ATT A-TT A-TT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT
** * * * *
115158221 AAC A-T ATT ATT ATT ATT AAGGT ATT AAT ACT ACT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
115158268 ACT ATT ATT -TT ATT TTT ATT ACT ATT ATCT -TT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
115158311 A
1 A
115158312 CCTTTTTGCT
Statistics
Matches: 134, Mismatches: 32, Indels: 28
0.69 0.16 0.14
Matches are distributed among these distances:
2 14 0.10
3 101 0.75
4 18 0.13
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:115158281 original size:20 final size:20
Alignment explanation
Indices: 115158189--115158308 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
115158179 TTATTTATGG
115158189 TTTTATTATTAATT-C-ATTA
1 TTTTATTATT-ATTACTATTA
* *
115158208 ATTTACTATTATTAACATATTA
1 TTTTATTATTATT-AC-TATTA
* * *
115158230 TTATTATTAAGGTATTAATACTA
1 TT-TTATT-A-TTATTACTATTA
115158253 CTATTTATTATTATTACTATTA
1 -T-TTTATTATTATTACTATTA
*
115158275 TTTTATTTTTATTACTATTA
1 TTTTATTATTATTACTATTA
115158295 TCTTT-TTATTATTA
1 T-TTTATTATTATTA
115158309 TTACCTTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.04
19 8 0.10
20 28 0.35
21 4 0.05
22 14 0.18
23 9 0.11
24 8 0.10
25 5 0.06
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTATTATTATTACTATTA
Found at i:115158311 original size:17 final size:17
Alignment explanation
Indices: 115158270--115158318 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
115158260 TTATTATTAC
* *
115158270 TATTATTTTATTTTTAT
1 TATTATTATCTTTTTAT
*
115158287 TACTATTATCTTTTTAT
1 TATTATTATCTTTTTAT
*
115158304 TATTATTACCTTTTT
1 TATTATTATCTTTTT
115158319 GCTATTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTATCTTTTTAT
Found at i:115158403 original size:21 final size:21
Alignment explanation
Indices: 115158357--115158404 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
115158347 TTTATTTATC
115158357 TATTT-ATATATATATATATA
1 TATTTCATATATATATATATA
* *
115158377 TTTTTCATATA-ATTATATTTA
1 TATTTCATATATA-TATATATA
115158398 TATTTCA
1 TATTTCA
115158405 GGTATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTCATATATATATATATA
Found at i:115158421 original size:26 final size:26
Alignment explanation
Indices: 115158392--115158441 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
115158382 CATATAATTA
*
115158392 TATTTATATTTCAGGTATT-ATATCTC
1 TATTTACATTT-AGGTATTAATATCTC
*
115158418 TATTTACATTTATGTATTAATATC
1 TATTTACATTTAGGTATTAATATC
115158442 ATCATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (26 bp):
TATTTACATTTAGGTATTAATATCTC
Found at i:115158511 original size:3 final size:3
Alignment explanation
Indices: 115158505--115158615 Score: 59
Period size: 3 Copynumber: 37.0 Consensus size: 3
115158495 TAATTTAATG
* * * * * * *
115158505 TAT TAT TTT CTAT TAT TAT TAT TAA TAT CAC TAT TAA TAT CAC TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
115158551 TAT TAT TA- TAT TA- TAA TACCT CT-T TAT TAT TAT TAC TAT T-G TAT
1 TAT TAT TAT TAT TAT TAT TA--T -TAT TAT TAT TAT TAT TAT TAT TAT
*
115158595 TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
115158616 ATTTTCCCCT
Statistics
Matches: 79, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
2 6 0.08
3 70 0.89
4 2 0.03
6 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:115158597 original size:14 final size:15
Alignment explanation
Indices: 115158578--115158618 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
115158568 ACCTCTTTAT
115158578 TATTATTACTATT-G
1 TATTATTACTATTAG
*
115158592 TATTATTACTATTAT
1 TATTATTACTATTAG
115158607 TATTATTA-TATT
1 TATTATTACTATT
115158619 TTCCCCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAG
Found at i:115170829 original size:43 final size:44
Alignment explanation
Indices: 115170718--115170834 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 44
115170708 TTCAAGCCAC
* * *
115170718 CAAGCCTCAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGAGCCAAGATGA
* * * *
115170762 TAGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGAGCCAAGA-TGA
115170805 CAAGCCTTAACCCCCTAAGCAGTAGGGTAA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAA
115170835 TAGGTTGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 33 0.53
44 28 0.45
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (44 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGAGCCAAGATGA
Found at i:115170915 original size:89 final size:89
Alignment explanation
Indices: 115170805--115170973 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
115170795 GCCAAATTTA
* *
115170805 CAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGTTGAAAATTACAGATCTTGCCTCCCT-GAAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTGCCTCCCTGGAA-
115170869 TTGCAGTGAAGCAGATTCAAGCCAC
65 TTGCAGTGAAGCAGATTCAAGCCAC
*
115170894 CAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTGCCTCTCTGGAAT
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTGCCTCCCTGGAAT
* *
115170959 TGTAGTGGAGCAGAT
66 TGCAGTGAAGCAGAT
115170974 CAAATTAGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 71 0.96
90 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (89 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTGCCTCCCTGGAAT
TGCAGTGAAGCAGATTCAAGCCAC
Found at i:115171014 original size:44 final size:44
Alignment explanation
Indices: 115170948--115171112 Score: 129
Period size: 44 Copynumber: 3.6 Consensus size: 44
115170938 CAGATCTTGC
* * *
115170948 CTCTCTGGAA-TTGTAGTGGAGCAGATCAAATTAGCGAATCTTAT
1 CTCTCT-GAAGTTGCAGTAGAGCAGATCAAATTAGCAAATCTTAT
* * * * *
115170992 CTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTA-TAAATCCTAT
1 CTCTCTGAAGTTGCAGTAGAGCAGATCAAA-TTAGCAAATCTTAT
* *
115171036 AC-CTCTGAAGTTGCAGTAGGGTCGGATCAAATCTACCATGGCAAATCTTAT
1 -CTCTCTGAAGTTGCAGTAGAG-CAGATCAAAT-T---A--GCAAATCTTAT
115171087 CTCTCTGAAGTTGCAGTAGAGCAGAT
1 CTCTCTGAAGTTGCAGTAGAGCAGAT
115171113 TAAAGCCATT
Statistics
Matches: 92, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
43 3 0.03
44 46 0.50
45 11 0.12
48 1 0.01
50 5 0.05
51 26 0.28
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCTCTGAAGTTGCAGTAGAGCAGATCAAATTAGCAAATCTTAT
Found at i:115174011 original size:26 final size:26
Alignment explanation
Indices: 115173975--115174109 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
115173965 CATGAAATTC
*
115173975 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
115174001 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
115174027 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
115174053 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
115174079 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
115174104 TTATCA
1 TTATCA
115174110 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:115174982 original size:13 final size:13
Alignment explanation
Indices: 115174964--115174988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115174954 GTTGATTTGA
115174964 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
115174977 TTTCTTTTTTTC
1 TTTCTTTTTTTC
115174989 GCCTTTCGAT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:115176187 original size:20 final size:20
Alignment explanation
Indices: 115176162--115176205 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
115176152 TTTCATTGCT
*
115176162 TTTAATTATTAATGTTAATA
1 TTTAATTATTAACGTTAATA
* *
115176182 TTTAATTGTTAGCGTTAATA
1 TTTAATTATTAACGTTAATA
115176202 TTTA
1 TTTA
115176206 TACATTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTAATTATTAACGTTAATA
Found at i:115180771 original size:29 final size:29
Alignment explanation
Indices: 115180720--115180798 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
115180710 CGGGCTATCC
*
115180720 GCCACATTGGCTTA-TACTTTTGGCTTG-CAT
1 GCCACTTTGGCTTACT-C-TTTGGCTTGTC-T
115180750 GCCACTTTGGCTTACTCTTTGGCTTGTCT
1 GCCACTTTGGCTTACTCTTTGGCTTGTCT
* *
115180779 GCCACTTTGACTCACTCTTT
1 GCCACTTTGGCTTACTCTTT
115180799 ACACTGTCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 28 0.64
30 15 0.34
31 1 0.02
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.42
Consensus pattern (29 bp):
GCCACTTTGGCTTACTCTTTGGCTTGTCT
Found at i:115182327 original size:20 final size:19
Alignment explanation
Indices: 115182280--115182328 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
115182270 CTGTTGTTTT
115182280 AAGAATTAAATGCAAGAAA
1 AAGAATTAAATGCAAGAAA
* *
115182299 AATATATTAAATGTAAGAAA
1 AAGA-ATTAAATGCAAGAAA
115182319 AAGACATTAA
1 AAGA-ATTAA
115182329 GACATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.22
Consensus pattern (19 bp):
AAGAATTAAATGCAAGAAA
Found at i:115182336 original size:28 final size:29
Alignment explanation
Indices: 115182304--115182378 Score: 109
Period size: 28 Copynumber: 2.6 Consensus size: 29
115182294 AGAAAAATAT
115182304 ATTAAATGTAAGAAAAAGAC-ATTAAGAC
1 ATTAAATGTAAGAAAAAGACTATTAAGAC
* *
115182332 ATTAAATGCATGAAAAA-ACTATTAAGAC
1 ATTAAATGTAAGAAAAAGACTATTAAGAC
115182360 ATTAAATGTAAGCAAAAAG
1 ATTAAATGTAAG-AAAAAG
115182379 TTGTTGCTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 33 0.82
29 5 0.12
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (29 bp):
ATTAAATGTAAGAAAAAGACTATTAAGAC
Found at i:115182665 original size:2 final size:2
Alignment explanation
Indices: 115182658--115182682 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
115182648 TAAGCATAGG
115182658 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
115182683 AAGATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115184783 original size:87 final size:86
Alignment explanation
Indices: 115184661--115184823 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 86
115184651 AAATTTAAGT
115184661 TCGGTGAATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAGA
1 TCGGTGAATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAGA
115184726 GTAATAAACTCAACCTCTCACG
66 GTAA-AAACTCAACCTCTCACG
* * * * * * * *
115184748 TCGGTGAATTCATTAAGTCCGTTTCAGT-AGAACCACCCAAATTTTAGGCTATGAATTCATTAAG
1 TCGGTGAATTCATCAAGTCCATCTCAATAAG-ACCACCCAAACTCTAGGATATGAACTCATTAAG
115184812 AGTAAAAACTCA
65 AGTAAAAACTCA
115184824 TCCTTACACA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 9 0.13
87 58 0.87
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAGA
GTAAAAACTCAACCTCTCACG
Found at i:115191975 original size:27 final size:27
Alignment explanation
Indices: 115191932--115191989 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
115191922 GTTATTAGAA
*
115191932 TTAT-ATCTCTACTTCTTTTATACTTC
1 TTATGATCTCTACTTCTTATATACTTC
115191958 TTATGATCTCTAAC-TCTTATATACTTC
1 TTATGATCTCT-ACTTCTTATATACTTC
115191985 TTATG
1 TTATG
115191990 CCTATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 4 0.14
27 23 0.79
28 2 0.07
ACGTcount: A:0.22, C:0.21, G:0.03, T:0.53
Consensus pattern (27 bp):
TTATGATCTCTACTTCTTATATACTTC
Found at i:115194681 original size:29 final size:30
Alignment explanation
Indices: 115194634--115194701 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
115194624 TGGCCCAAGA
* * *
115194634 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
115194664 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
115194694 GAAAATAT
1 GTAAATAT
115194702 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:115197974 original size:45 final size:45
Alignment explanation
Indices: 115197859--115197964 Score: 167
Period size: 45 Copynumber: 2.4 Consensus size: 45
115197849 ATCATACCAG
115197859 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
* * * *
115197904 AGACGAGTAAGGCCATAGCTGAAAGACGCTATGGCATCGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
*
115197949 AAATGTGTAAGACCAT
1 AAATGAGTAAGACCAT
115197965 GATTGAAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
Found at i:115198008 original size:46 final size:46
Alignment explanation
Indices: 115197956--115198251 Score: 457
Period size: 46 Copynumber: 6.4 Consensus size: 46
115197946 TTCAAATGTG
* * * *
115197956 TAAGACCATGATTGAAAGATACCATGGCAACATGATATGAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
*
115198002 TAAGACCATGGTTGAAAGATATCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
* * *
115198048 TAGGACCATGGTTTAAAGATACCATGGCAACGTGACATGAAAGGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
115198094 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
*
115198140 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
* * **
115198186 TAAGACCATGGTTGAAAGATACCATGGTAACATGACGGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGAC-ATGAAATGAA
*
115198233 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
115198252 CGCTATGGCA
Statistics
Matches: 230, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
46 204 0.89
47 26 0.11
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
Found at i:115199626 original size:44 final size:44
Alignment explanation
Indices: 115199577--115199666 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
115199567 AAATTGTATT
115199577 AACTAATGAATAATGTGTAACTAAAAGAACAAATTAGTTGGAAC
1 AACTAATGAATAATGTGTAACTAAAAGAACAAATTAGTTGGAAC
115199621 AACTAATGAATAATGTGTAACTAAAAGAACAAATTAGTTGGAAC
1 AACTAATGAATAATGTGTAACTAAAAGAACAAATTAGTTGGAAC
115199665 AA
1 AA
115199667 TGATTTGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (44 bp):
AACTAATGAATAATGTGTAACTAAAAGAACAAATTAGTTGGAAC
Found at i:115199861 original size:53 final size:52
Alignment explanation
Indices: 115199717--115199907 Score: 189
Period size: 52 Copynumber: 3.8 Consensus size: 52
115199707 GGAAAAGATA
* ** * **
115199717 TGATATATGATTCCGCGTAAGACCATAGCCGGGCTATGGCATCGGTACCATG
1 TGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATG
* *
115199769 TGATTTGT-ATTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATG
1 TGATATGTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATG
* **
115199821 TGATAATGTGATTCCGTATAAGACCATATCTGGTATATGGCATCGG--T-A--
1 TGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATG
* * *
115199869 TGATATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGC
1 TGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGC
115199908 TTCGATGTGT
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
46 23 0.19
47 6 0.05
48 4 0.03
50 1 0.01
51 4 0.03
52 44 0.37
53 33 0.28
54 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (52 bp):
TGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATG
Found at i:115200684 original size:20 final size:20
Alignment explanation
Indices: 115200659--115200710 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
115200649 CACATAGGCT
115200659 GGCCACACGGGCATGTTCCA
1 GGCCACACGGGCATGTTCCA
*
115200679 GGCCACACAGGCATGTTCCA
1 GGCCACACGGGCATGTTCCA
115200699 GGCCACACGGGC
1 GGCCACACGGGC
115200711 GTGTGCCCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.37, G:0.31, T:0.12
Consensus pattern (20 bp):
GGCCACACGGGCATGTTCCA
Found at i:115207216 original size:52 final size:53
Alignment explanation
Indices: 115207107--115207266 Score: 175
Period size: 52 Copynumber: 3.1 Consensus size: 53
115207097 TGATGGAAAA
* * *
115207107 GATGTGAT-ATATGATTCCGTATAAGACCGTAG-TCGGGCTATGGCATCGGTAC
1 GATGTGATAATGTGATTCCGTATAAGACCATAGCT-GGGCTATGGCATCGGTAT
* * *
115207159 CATGTGAT-TTGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATAATGTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * **
115207211 GATGTGATAATGTGATTCTGTATAAGACCATATCTAGTATATGGCATCGGTAT
1 GATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
115207264 GAT
1 GAT
115207267 ATGTAATCCG
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
51 2 0.02
52 48 0.53
53 38 0.42
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (53 bp):
GATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:115208084 original size:20 final size:20
Alignment explanation
Indices: 115208059--115208109 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
115208049 CACATAGGCT
115208059 GGCCACACGGGCATGTTCCA
1 GGCCACACGGGCATGTTCCA
115208079 GGCCACACGGGCATGTTCCA
1 GGCCACACGGGCATGTTCCA
115208099 GGCCACACGGG
1 GGCCACACGGG
115208110 TGTGTGCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.33, T:0.12
Consensus pattern (20 bp):
GGCCACACGGGCATGTTCCA
Found at i:115208766 original size:24 final size:23
Alignment explanation
Indices: 115208735--115208779 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
115208725 ATTACATGAT
*
115208735 TATTCTGGTGTGTTTTGGTTGTA
1 TATTCTGGTGTGTTTGGGTTGTA
115208758 TATTACTGGTGTGTTTGGGTTG
1 TATT-CTGGTGTGTTTGGGTTG
115208780 GGATCCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.09, C:0.04, G:0.33, T:0.53
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGTA
Found at i:115209101 original size:18 final size:19
Alignment explanation
Indices: 115209078--115209116 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
115209068 TGGAATTAAG
*
115209078 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
115209096 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
115209115 AA
1 AA
115209117 GCTTGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:115210282 original size:29 final size:30
Alignment explanation
Indices: 115210226--115210293 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
115210216 TGGCCCAATA
* * *
115210226 GTAAATACTCAAAATTTGAGGGA-TTAAAGT
1 GTAAATA-TCAAAAATTGAAGGACTAAAAGT
*
115210256 GTAAATATGAAAAATTGAAGGACTAAAAGT
1 GTAAATATCAAAAATTGAAGGACTAAAAGT
*
115210286 GCAAATAT
1 GTAAATAT
115210294 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (30 bp):
GTAAATATCAAAAATTGAAGGACTAAAAGT
Found at i:115214321 original size:172 final size:170
Alignment explanation
Indices: 115214012--115214347 Score: 435
Period size: 172 Copynumber: 2.0 Consensus size: 170
115214002 AATATTTTAA
*
115214012 AATGTAAATAATACCCAAAACTCAGCTATAGTAATTTAGTCTTTGACAAATCTTAATTATGGAAT
1 AATGTAAATAATACCCAAAACTCAGCTATAGTAATTTAGTCTTGGACAAATCTTAATTATGGAAT
** * * * *
115214077 TGGAATTATTGGAAGGGTTTTATTTGAATATTACTCCAGTTCGAACAAGATTAAACTCGGAGTGT
66 CAGAATTATTGGAAGGGTTTTATTTGAATATCACTCCAGTTCAAACAAGATTAAACTCAGAGTAT
*
115214142 TAAATGAATAAAGACA-TCTGTGATTATAAAAAAATTGAAT
131 AAAATGAATAAAGACACT-TGTGATTATAAAAAAATTGAAT
* * * * * * *
115214182 AATGTAAATAATACCTAACACTCTGTTATAGTAATTTAGTCTTGGACCAAGTTTTTAATT-TTGA
1 AATGTAAATAATACCCAAAACTCAGCTATAGTAATTTAGTCTTGGA-CAA-ATCTTAATTATGGA
* * * *
115214246 AGTCAGCATTATTGGAAGGGTTTTATTTGAATATCACTCTAGTTCAAACATAG-TTAAATTCATA
64 A-TCAGAATTATTGGAAGGGTTTTATTTGAATATCACTCCAGTTCAAACA-AGATTAAACTCAGA
115214310 GTATAAAATGAATAAAGACACTTGTGATTATAAAAAAA
127 GTATAAAATGAATAAAGACACTTGTGATTATAAAAAAA
115214348 AAGTTGAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
170 41 0.29
171 7 0.05
172 91 0.64
173 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (170 bp):
AATGTAAATAATACCCAAAACTCAGCTATAGTAATTTAGTCTTGGACAAATCTTAATTATGGAAT
CAGAATTATTGGAAGGGTTTTATTTGAATATCACTCCAGTTCAAACAAGATTAAACTCAGAGTAT
AAAATGAATAAAGACACTTGTGATTATAAAAAAATTGAAT
Found at i:115214849 original size:10 final size:10
Alignment explanation
Indices: 115214834--115214882 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
115214824 AATTTTAGCT
115214834 TTTATCTTTA
1 TTTATCTTTA
*
115214844 TTTATCCTTA
1 TTTATCTTTA
115214854 TTTATCTTTA
1 TTTATCTTTA
115214864 TTTAT-TTGTA
1 TTTATCTT-TA
115214874 TTTATCTTT
1 TTTATCTTT
115214883 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:115216479 original size:72 final size:71
Alignment explanation
Indices: 115216394--115216532 Score: 163
Period size: 71 Copynumber: 1.9 Consensus size: 71
115216384 AGACACGACC
** * *
115216394 GTGTGATGTCTGGAGTGTGGCCATGTAGGCCT-CATAGACTAGACCGAATTGGGCTTATGGGCCC
1 GTGTGATAACTGGAGTG-GGCCATGT-GACCTACATAGACTAGACCGAATTGGGCGTATGGGCCC
115216458 ACACGGGT
64 ACACGGGT
* * * * * *
115216466 GTGTGATAACTGGATTGGGTCGTGTGATCTACATAGACTAGACTGAATTGGGCGTGTGGGCCCAC
1 GTGTGATAACTGGAGTGGGCCATGTGACCTACATAGACTAGACCGAATTGGGCGTATGGGCCCAC
115216531 AC
66 AC
115216533 ATTGTACTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
70 3 0.05
71 39 0.70
72 14 0.25
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (71 bp):
GTGTGATAACTGGAGTGGGCCATGTGACCTACATAGACTAGACCGAATTGGGCGTATGGGCCCAC
ACGGGT
Found at i:115217829 original size:24 final size:24
Alignment explanation
Indices: 115217802--115217849 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
115217792 TTGAGATAGT
115217802 TAGAAAACTAAAACTTCTGAAAAC
1 TAGAAAACTAAAACTTCTGAAAAC
*
115217826 TAGAAAACTGAAACTTCTGAAAAC
1 TAGAAAACTAAAACTTCTGAAAAC
115217850 AGCTCTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (24 bp):
TAGAAAACTAAAACTTCTGAAAAC
Found at i:115218588 original size:196 final size:194
Alignment explanation
Indices: 115218245--115218611 Score: 590
Period size: 196 Copynumber: 1.9 Consensus size: 194
115218235 GGTGTCACAT
* * *
115218245 GAGTCGCCCCTAATGTGGCCAAGTACTATTGAGGCCTCCGAGAGGATTATGGATAGTCTGGACTA
1 GAGTCACCCCTAATGTGGCCAAGTACTATTGAGGCCACCGAGAGGATTATGGATAATCTGGACTA
* * * ** *
115218310 TACCGCTGAGTAGAAATTAAAGGGTTTAATCTCTTTTCTTCGTGACGAAGCATATCAGTGGTGGT
66 TACCACTGAGCAGAAATTAAAGAGTGCAATCTCTTTTCTTCGCGACGAAGCATATCAGTGGTGGT
*
115218375 TGACAGTTAATGAGGGCACTCAGCCTGACCGTTTGACTTGGGAGTTCTTGAAGACTACATTTCA
131 TGACAGTTAAGGAGGGCACTCAGCCTGACCGTTTGACTTGGGAGTTCTTGAAGACTACATTTCA
** *
115218439 GAGTCACCCCTAATGTGGCTGAGTACTAGTTGTAGGCCACTGAGAGGATTATGGATAATCTGGAC
1 GAGTCACCCCTAATGTGGCCAAGTACTA-TTG-AGGCCACCGAGAGGATTATGGATAATCTGGAC
*
115218504 TGTACCACTGAGCAGAAATTAAAGAGTGCAATCTCTTTTCTTCGCGACGAAGCATATCAGTGGTG
64 TATACCACTGAGCAGAAATTAAAGAGTGCAATCTCTTTTCTTCGCGACGAAGCATATCAGTGGTG
115218569 GTTGACAGTTAAGGAGGGCACTCAGCCTGACCGTTTGACTTGG
129 GTTGACAGTTAAGGAGGGCACTCAGCCTGACCGTTTGACTTGG
115218612 AAGCCAACTA
Statistics
Matches: 157, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
194 25 0.16
195 3 0.02
196 129 0.82
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (194 bp):
GAGTCACCCCTAATGTGGCCAAGTACTATTGAGGCCACCGAGAGGATTATGGATAATCTGGACTA
TACCACTGAGCAGAAATTAAAGAGTGCAATCTCTTTTCTTCGCGACGAAGCATATCAGTGGTGGT
TGACAGTTAAGGAGGGCACTCAGCCTGACCGTTTGACTTGGGAGTTCTTGAAGACTACATTTCA
Found at i:115227374 original size:43 final size:43
Alignment explanation
Indices: 115227327--115227442 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
115227317 TGTGATTACA
** * *
115227327 TGTAAGACCATGTCTGGGACATTGGTATTG-TATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGACATCGTTAAT-AGATTATG
* * *
115227370 TGTAAGACCATGTCTAGGACATTGACATCGTTAATCGATTTTG
1 TGTAAGACCATGTCTGGGACATTGACATCGTTAATAGATTATG
* * *
115227413 TGTAAGACCCTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGACATCG
115227443 ATATGTGATA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 58 0.95
44 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGACATCGTTAATAGATTATG
Found at i:115231789 original size:19 final size:20
Alignment explanation
Indices: 115231765--115231806 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
115231755 TAAACACCAA
115231765 AAAAGTAAATC-GTTTCCAG
1 AAAAGTAAATCAGTTTCCAG
*
115231784 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCAGTTTCCAG
115231804 AAA
1 AAA
115231807 TCATTTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (20 bp):
AAAAGTAAATCAGTTTCCAG
Found at i:115232279 original size:40 final size:40
Alignment explanation
Indices: 115232221--115232301 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
115232211 TGTGTGGCAT
*
115232221 ACTGGCTGCCACATGGGCGTGTGGTCAGCCGTGTGACCTA
1 ACTGGCTGCCACAAGGGCGTGTGGTCAGCCGTGTGACCTA
* *
115232261 ACTGGCTGGCACAAGGGCGTGTGGTCGGCCGTGTGACCTA
1 ACTGGCTGCCACAAGGGCGTGTGGTCAGCCGTGTGACCTA
115232301 A
1 A
115232302 GTCAATAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (40 bp):
ACTGGCTGCCACAAGGGCGTGTGGTCAGCCGTGTGACCTA
Found at i:115234615 original size:93 final size:93
Alignment explanation
Indices: 115234502--115234673 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
115234492 GCCCATAAGT
* *
115234502 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115234567 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
115234595 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115234660 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
115234674 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:115234669 original size:46 final size:46
Alignment explanation
Indices: 115234494--115234669 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
115234484 TGTAACCCGC
* * * *
115234494 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
115234540 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
115234590 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
115234633 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115234670 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:115234688 original size:46 final size:45
Alignment explanation
Indices: 115234545--115234688 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
115234535 CGCATCCATA
* *
115234545 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
115234593 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
115234638 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
115234684 AGTGA
1 AGTGA
115234689 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:115239695 original size:15 final size:15
Alignment explanation
Indices: 115239671--115239704 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
115239661 TTTAATGTTT
* *
115239671 CAAACGAAATAGAAG
1 CAAACCAAATACAAG
115239686 CAAACCAAATACAAG
1 CAAACCAAATACAAG
115239701 CAAA
1 CAAA
115239705 GTTCTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.06
Consensus pattern (15 bp):
CAAACCAAATACAAG
Found at i:115240029 original size:2 final size:2
Alignment explanation
Indices: 115240017--115240065 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
115240007 GATATTGGAA
115240017 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115240058 AT AT AT AT
1 AT AT AT AT
115240066 GCATTTATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115242828 original size:3 final size:3
Alignment explanation
Indices: 115242820--115242884 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
115242810 TATTAGTTTG
115242820 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
115242868 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
115242885 ATCGGTCTAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:115243958 original size:31 final size:31
Alignment explanation
Indices: 115243923--115244005 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 31
115243913 ATGTAATTTG
115243923 ATATATGAATTTTAATTT-AGTG-TAATTATAC
1 ATATA-GAATTTTAATTTGA-TGATAATTATAC
* *
115243954 ATATAAAAATTTT-ATTTGATGATTAATTATAT
1 ATAT-AGAATTTTAATTTGATGA-TAATTATAC
*
115243986 ATATAGAATTTTATTTTGAT
1 ATATAGAATTTTAATTTGAT
115244006 TCAATTGTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
30 6 0.14
31 18 0.42
32 19 0.44
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (31 bp):
ATATAGAATTTTAATTTGATGATAATTATAC
Found at i:115244567 original size:20 final size:20
Alignment explanation
Indices: 115244544--115244631 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 20
115244534 CGATGAAAAC
*
115244544 AAGAAACAATCGATTGAAGT
1 AAGAAACAATCGATTGAAAT
115244564 AAGAAAGCAATC-ATTGAAAT
1 AAGAAA-CAATCGATTGAAAT
*
115244584 GAGAGAACAATCGATT-AACCA-
1 AAGA-AACAATCGATTGAA--AT
*
115244605 AAGAGAACAATCAATTGAAAT
1 AAGA-AACAATCGATTGAAAT
*
115244626 AGGAAA
1 AAGAAA
115244632 AGAAACGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
20 26 0.46
21 27 0.48
22 3 0.05
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.17
Consensus pattern (20 bp):
AAGAAACAATCGATTGAAAT
Found at i:115249736 original size:27 final size:27
Alignment explanation
Indices: 115249598--115249754 Score: 163
Period size: 27 Copynumber: 5.8 Consensus size: 27
115249588 ATTACCAAAG
* * *
115249598 TACCCCTGATTTACATAATTA-TCGTTT
1 TACCCTTGATTTACAGAATTACT-ATTT
* *
115249625 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTATTT
* *
115249652 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTATTT
* *
115249679 TACCCTTGATTTACAGAATTACTGTGT
1 TACCCTTGATTTACAGAATTACTATTT
* ***
115249706 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTATTT
* *
115249733 TACCCTTGGTTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
115249755 CAAGTTTCTA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 113 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTATTT
Found at i:115249753 original size:81 final size:81
Alignment explanation
Indices: 115249598--115249754 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
115249588 ATTACCAAAG
* * * ****
115249598 TACCCCTGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCCTGATTTACAGAATTATCGTGTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
* *
115249663 TATAGAATTACTATTT
66 TACAAAATTACTATTT
* * * *
115249679 TACCCTTGATTTACAGAATTA-CTGTGTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGT
1 TACCCCTGATTTACAGAATTATC-GTGTTACCCTCGATTTACAAAATTACTAAAATACCCTCGAT
115249743 TTACAAAATTAC
65 TTACAAAATTAC
115249755 CAAGTTTCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCCTGATTTACAGAATTATCGTGTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
TACAAAATTACTATTT
Found at i:115251818 original size:38 final size:38
Alignment explanation
Indices: 115251776--115251865 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
115251766 AGACCCCCAT
*
115251776 GCTTCGTGCTGGTAAAATATCCA-GGTTAAATCCCGCAG
1 GCTTCGTGCTGGTAAAATAT-CAGGGATAAATCCCGCAG
**
115251814 GCTTCGTGCTGGTATTATATCAGGGATAAATCCCGCAG
1 GCTTCGTGCTGGTAAAATATCAGGGATAAATCCCGCAG
* *
115251852 GCCTAGTGCTGGTA
1 GCTTCGTGCTGGTA
115251866 TTATATTCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.04
38 44 0.96
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (38 bp):
GCTTCGTGCTGGTAAAATATCAGGGATAAATCCCGCAG
Found at i:115251866 original size:38 final size:39
Alignment explanation
Indices: 115251802--115251876 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 39
115251792 ATATCCAGGT
* *
115251802 TAAATCCCGCAGGCTTCGTGCTGGTATTATA-TCAGGGA
1 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCAGGGA
115251840 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCAGG
1 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCAGG
115251877 CCTTCGTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 29 0.85
39 5 0.15
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (39 bp):
TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCAGGGA
Found at i:115251922 original size:43 final size:43
Alignment explanation
Indices: 115251869--115252150 Score: 469
Period size: 43 Copynumber: 6.6 Consensus size: 43
115251859 GCTGGTATTA
*
115251869 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
115251912 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTG-CTGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
115251954 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
115251997 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCAGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
115252040 TATTCGGGCCTTCGTG-CTAGCAGGCTTCGTGCCCGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
115252082 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
115252125 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
115252151 GTAATGCCAG
Statistics
Matches: 223, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
42 79 0.35
43 144 0.65
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:115251967 original size:85 final size:86
Alignment explanation
Indices: 115251869--115252150 Score: 496
Period size: 85 Copynumber: 3.3 Consensus size: 86
115251859 GCTGGTATTA
*
115251869 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* * *
115251934 AGGCTTTGTG-CTGTGATGTG
66 AGGCTTCGTGTCAGCGATGTG
115251954 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
115252019 AGGCTTCGTGTCAGCGATGTG
66 AGGCTTCGTGTCAGCGATGTG
*
115252040 TATTCGGGCCTTCGTG-CTAGCAGGCTTCGTGCCCGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
*
115252104 AGGCTTCGTGTCGGCGATGTG
66 AGGCTTCGTGTCAGCGATGTG
115252125 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
115252151 GTAATGCCAG
Statistics
Matches: 189, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
85 156 0.83
86 33 0.17
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (86 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
AGGCTTCGTGTCAGCGATGTG
Found at i:115252038 original size:128 final size:128
Alignment explanation
Indices: 115251869--115252150 Score: 476
Period size: 128 Copynumber: 2.2 Consensus size: 128
115251859 GCTGGTATTA
* * *
115251869 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGCGATGTGTATTCGGGCCTTCGTG-CTAGC
* * *
115251934 AGGCTTTGTG-CTGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
65 AGGCTTCGTGCCCGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
*
115251997 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCAGCGATGTGTATTCGGGCCTTCGTGCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGCGATGTGTATTCGGGCCTTCGTGCTAGCA
*
115252062 GGCTTCGTGCCCGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGCGATGTG
66 GGCTTCGTGCCCGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
115252125 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
115252151 GTAATGCCAG
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 14 0.10
128 131 0.90
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (128 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGCGATGTGTATTCGGGCCTTCGTGCTAGCA
GGCTTCGTGCCCGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
Found at i:115254972 original size:2 final size:2
Alignment explanation
Indices: 115254965--115255010 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
115254955 CTTGGAGTAG
*
115254965 AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
115255007 AC AC
1 AC AC
115255011 TATTTTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:115262081 original size:15 final size:15
Alignment explanation
Indices: 115262039--115262082 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
115262029 GTGGCCGGTG
*
115262039 CTCTCCCCT-CTC-C
1 CTCTCCCCTCCTCTT
115262052 CTCTCCCCTCTCTCTT
1 CTCTCCCCTC-CTCTT
115262068 CTCTCCCCTCCTCTT
1 CTCTCCCCTCCTCTT
115262083 TTTCTCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
15 8 0.30
16 10 0.37
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (15 bp):
CTCTCCCCTCCTCTT
Found at i:115262090 original size:18 final size:16
Alignment explanation
Indices: 115262039--115262082 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 16
115262029 GTGGCCGGTG
115262039 CTCTCCCCTCTC-C--
1 CTCTCCCCTCTCTCTT
115262052 CTCTCCCCTCTCTCTT
1 CTCTCCCCTCTCTCTT
115262068 CTCTCCCCTC-CTCTT
1 CTCTCCCCTCTCTCTT
115262083 TTTCTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 5 0.18
16 10 0.36
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (16 bp):
CTCTCCCCTCTCTCTT
Found at i:115275473 original size:69 final size:70
Alignment explanation
Indices: 115275214--115275509 Score: 330
Period size: 72 Copynumber: 4.2 Consensus size: 70
115275204 TTTGGGTACT
* * **
115275214 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG--TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
115275279 GGTCACACG
64 GG--ACACG
* * ** **
115275288 CTGAGGTATTTTTAGTTTATTTTCAAAAATTGACTCATATTGCGAGA-GTGAGTCAAGCCTCAGG
1 CTGAGGTATTTTTAATTTATGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
115275352 TCACG
66 ACACG
* *
115275357 CTGAGGT-TTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATG-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
115275421 CAAGACACG
62 CAGGACACG
* * *
115275430 TTGAGGTAATTTCAATTTATGTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG
1 CTGAGGTATTTTTAATTTATGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
115275493 GCACG
66 ACACG
115275498 CTGAGGTATTTT
1 CTGAGGTATTTT
115275510 AANTGTAAGT
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
68 23 0.12
69 47 0.25
70 4 0.02
71 17 0.09
72 48 0.26
73 24 0.13
74 24 0.13
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (70 bp):
CTGAGGTATTTTTAATTTATGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACG
Found at i:115275489 original size:142 final size:140
Alignment explanation
Indices: 115275214--115275511 Score: 375
Period size: 142 Copynumber: 2.1 Consensus size: 140
115275204 TTTGGGTACT
*
115275214 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGT-TTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * * * * **
115275279 GGTCACACGCTGAGGTATTTTTAGTTTATTTTCAAAAATTGACTCATATTGCGAGAGTGAGTCAA
65 AG-CACACGCTGAGGTAATTTCAATTTATGTTCAAAAATCAACTCATATTGCGAGAGTGAGTCAA
*
115275344 GCCTCAGGTCACG
129 GCCTC-GGGCACG
* * **
115275357 CTGAGGTTTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTTTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* **
115275422 AAG-ACACGTTGAGGTAATTTCAATTTATGTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTG
64 AAGCACACGCTGAGGTAATTTCAATTTATGTTCAAAAATCAACTCATATTGCGAGA-GTGAGTCA
115275485 AGCCTCGGGCACG
128 AGCCTCGGGCACG
*
115275498 CTGAGGTATTTTAA
1 CTGAGGTTTTTTAA
115275512 NTGTAAGTGA
Statistics
Matches: 135, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
141 39 0.29
142 47 0.35
143 8 0.06
144 41 0.30
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (140 bp):
CTGAGGTTTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
GCACACGCTGAGGTAATTTCAATTTATGTTCAAAAATCAACTCATATTGCGAGAGTGAGTCAAGC
CTCGGGCACG
Found at i:115276582 original size:13 final size:14
Alignment explanation
Indices: 115276564--115276592 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
115276554 TTAAATCGAG
115276564 ACCAATCCAA-TCA
1 ACCAATCCAATTCA
115276577 ACCAATCCAATTCA
1 ACCAATCCAATTCA
115276591 AC
1 AC
115276593 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAATTCA
Found at i:115279265 original size:25 final size:27
Alignment explanation
Indices: 115279231--115279281 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
115279221 AATCGGTAAA
*
115279231 ATTTTTCTATCA-AT-ATTTTCATACG
1 ATTTTCCTATCATATAATTTTCATACG
115279256 ATTTTCCTATCATATCAATTTTCATA
1 ATTTTCCTATCATAT-AATTTTCATA
115279282 AAAAATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 2 0.09
28 9 0.41
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (27 bp):
ATTTTCCTATCATATAATTTTCATACG
Found at i:115288895 original size:25 final size:28
Alignment explanation
Indices: 115288841--115288895 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
115288831 AATGGGTTCG
115288841 TTATGATGTAGATGAAGATATTTACGAT
1 TTATGATGTAGATGAAGATATTTACGAT
*
115288869 TTATGATGTAG-T-AAGAT-TTTATGAT
1 TTATGATGTAGATGAAGATATTTACGAT
115288894 TT
1 TT
115288896 TTTATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 9 0.35
26 5 0.19
27 1 0.04
28 11 0.42
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (28 bp):
TTATGATGTAGATGAAGATATTTACGAT
Found at i:115294607 original size:32 final size:32
Alignment explanation
Indices: 115294570--115294634 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
115294560 AATGCTTACC
*
115294570 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATACTA
115294602 ATGCCCATCATCCATTAACTATTAAAATACTA
1 ATGCCCATCATCCATTAACTATTAAAATACTA
115294634 A
1 A
115294635 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATACTA
Found at i:115301558 original size:32 final size:32
Alignment explanation
Indices: 115301521--115301585 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
115301511 AATGCTTACC
115301521 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
115301553 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
115301585 A
1 A
115301586 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:115312561 original size:24 final size:24
Alignment explanation
Indices: 115312521--115312627 Score: 135
Period size: 25 Copynumber: 4.4 Consensus size: 24
115312511 CTAGAGGCCT
*
115312521 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
115312545 AGCCCTTTTGATAAACTGGGACAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
115312569 AGCCCTTTTTGGTAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
115312594 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
115312619 AGCCCTTTT
1 AGCCCTTTT
115312628 AGCACTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.09
24 23 0.31
25 45 0.60
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:115312584 original size:25 final size:25
Alignment explanation
Indices: 115312534--115312627 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
115312524 CTCTTTTAAT
*
115312534 AACTGGGGCAAAGCCC-TTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
115312558 AACTGGGACAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
115312583 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
115312608 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
115312628 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 15 0.23
25 49 0.77
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:115313498 original size:27 final size:27
Alignment explanation
Indices: 115313439--115313513 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
115313429 CGTATTCGTT
115313439 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGGTATTACGGTC
* *
115313466 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAGGGG-TATTACGGTC
* *
115313493 TTTTTACC-TAATAGGGGTATT
1 ATTTTACCAT-ACAGGGGTATT
115313514 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.05
27 37 0.93
28 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTC
Found at i:115313584 original size:27 final size:27
Alignment explanation
Indices: 115313551--115313797 Score: 205
Period size: 27 Copynumber: 9.1 Consensus size: 27
115313541 TTGGTAAATC
*
115313551 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
** *
115313578 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTT-TAGTAA-TTT
* ** *
115313606 TAGAAAGTTAAGGGTATTTTTGTAATTT
1 TACAAA-CCAAGGGTATTTTAGTAATTT
** * * *
115313634 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
***
115313661 TACAAATTGAGGGTA-TTTAGGTAATTT
1 TACAAACCAAGGGTATTTTA-GTAATTT
*
115313688 CACAAACC-AGTGGTATTTTAGTAATTT
1 TACAAACCAAG-GGTATTTTAGTAATTT
* * *
115313715 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
* *
115313742 TACAAACCAGGGGTATTTTAGCAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
* *
115313769 TACAGACC-AGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
115313795 TAC
1 TAC
115313798 TGATCGAGGG
Statistics
Matches: 177, Mismatches: 35, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
26 23 0.13
27 121 0.68
28 21 0.12
29 12 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTTAGTAATTT
Found at i:115313734 original size:81 final size:80
Alignment explanation
Indices: 115313616--115313797 Score: 226
Period size: 81 Copynumber: 2.3 Consensus size: 80
115313606 TAGAAAGTTA
* ** **
115313616 AGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTA-TTT
1 AGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTT
*
115313679 AGGTAATTTCACAAACC
65 A-GCAATTTCACAAACC
115313696 AGTGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 AG-GGTATTTTAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
* *
115313760 TAGCAATTTTACAGACC
64 TAGCAATTTCACAAACC
*
115313777 AGGGTATTTTGGTAATTTTAC
1 AGGGTATTTTAGTAATTTTAC
115313798 TGATCGAGGG
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 21 0.24
81 63 0.71
82 5 0.06
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTA
GCAATTTCACAAACC
Found at i:115317020 original size:95 final size:94
Alignment explanation
Indices: 115316849--115317020 Score: 229
Period size: 95 Copynumber: 1.8 Consensus size: 94
115316839 AATTGCCTTC
* ***
115316849 TTTTTTTTTTAAGTTTGAAGACCTTTTTGATGCATTTTGGTAGTTCAACTATCCAATTGAGTGCA
1 TTTTTTTTTTAAGTTTGAAGACCTTTTTAATGCATTTTAAAAGTTCAACTATCCAATTGAGTGCA
**
115316914 AAAAATTAAAAAGCAAGGGCTTAATTTCT
66 AAAAAAAAAAAAGCAAGGGCTTAATTTCT
* * * *
115316943 TTTTTTTTTTAAATTTTGAAGGCCTTTTTAATGTATTTTAAAAGTTTAACTA-CTCAATTGAGTG
1 TTTTTTTTTT-AAGTTTGAAGACCTTTTTAATGCATTTTAAAAGTTCAACTATC-CAATTGAGTG
115317007 CAAAAAAAAAAAAA
64 CAAAAAAAAAAAAA
115317021 AAAACAAGAG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
94 11 0.17
95 55 0.83
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (94 bp):
TTTTTTTTTTAAGTTTGAAGACCTTTTTAATGCATTTTAAAAGTTCAACTATCCAATTGAGTGCA
AAAAAAAAAAAAGCAAGGGCTTAATTTCT
Found at i:115317089 original size:3 final size:3
Alignment explanation
Indices: 115317081--115317117 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
115317071 CCCTTAAACC
115317081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
115317118 AAACAACAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:115332139 original size:5 final size:5
Alignment explanation
Indices: 115332133--115332163 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
115332123 GATATGGAAT
*
115332133 TCGAT TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
115332164 ATATTTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (5 bp):
TCGAA
Found at i:115332708 original size:15 final size:16
Alignment explanation
Indices: 115332688--115332717 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
115332678 AGGGAAAATA
115332688 AAAAGTTTTG-GGGAT
1 AAAAGTTTTGAGGGAT
115332703 AAAAGTTTTGAGGGA
1 AAAAGTTTTGAGGGA
115332718 AAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (16 bp):
AAAAGTTTTGAGGGAT
Found at i:115334811 original size:2 final size:2
Alignment explanation
Indices: 115334804--115334837 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
115334794 ATGTTGTGAA
115334804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115334838 GAAATAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.