Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 45 of 144
Found at i:13922160 original size:19 final size:17
Alignment explanation
Indices: 13922136--13922174 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13922126 AATGATAAAA
13922136 TTTCTTTACGATATTTATT
1 TTTCTTTA--ATATTTATT
*
13922155 TTTCTTTAATTTTTATT
1 TTTCTTTAATATTTATT
13922172 TTT
1 TTT
13922175 TAATTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTTTAATATTTATT
Found at i:13926679 original size:23 final size:24
Alignment explanation
Indices: 13926638--13926696 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
13926628 AAAAATGTTT
*
13926638 AATATAAATAAAACGTAAAAGT-AAA
1 AATAAAAATAAAAC-TAAAA-TAAAA
*
13926663 AGTAAAAATAAAA-TAAAATAAAA
1 AATAAAAATAAAACTAAAATAAAA
13926686 AATAAAAATAA
1 AATAAAAATAA
13926697 TAGTAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 18 0.60
25 11 0.37
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAAAATAAAACTAAAATAAAA
Found at i:13926686 original size:6 final size:6
Alignment explanation
Indices: 13926638--13926696 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
13926628 AAAAATGTTT
* * * *
13926638 AATATA AATAAA ACGTAAA AGTAAA AGTAAA AAT-AA AAT-AA AATAAAA
1 AATAAA AATAAA A-ATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA
13926686 AATAAA AATAA
1 AATAAA AATAA
13926697 TAGTAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
5 10 0.21
6 27 0.57
7 10 0.21
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:13935167 original size:5 final size:5
Alignment explanation
Indices: 13935157--13935181 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13935147 CATCACAAGA
13935157 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
13935182 TGAGTTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:13941118 original size:92 final size:92
Alignment explanation
Indices: 13941001--13941189 Score: 270
Period size: 92 Copynumber: 2.1 Consensus size: 92
13940991 TAACACCCAC
* ** * *
13941001 TACCATAATAAAACAAATATTGATAGTTTAGGTACCACATTATACATTTTCAAAGTACAAGTACC
1 TACCATAATAAAACAAATATTGATAGTTCAAATACCACATTAAACATTTTCAAAGTACAAGGACC
*
13941066 ACATTGGACATTTTATGAAAGTAAATG
66 ACATTGGACATTTTATGAAAATAAATG
* * * *
13941093 TACCATAATAAAACACATATTGATAGTTCAAATACCACATTAAATATTTTCAAAGTACAGGGATC
1 TACCATAATAAAACAAATATTGATAGTTCAAATACCACATTAAACATTTTCAAAGTACAAGGACC
* *
13941158 ATATTGGACATTTTATGAAAATACATG
66 ACATTGGACATTTTATGAAAATAAATG
13941185 TACCA
1 TACCA
13941190 AATGTGATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (92 bp):
TACCATAATAAAACAAATATTGATAGTTCAAATACCACATTAAACATTTTCAAAGTACAAGGACC
ACATTGGACATTTTATGAAAATAAATG
Found at i:13944175 original size:42 final size:42
Alignment explanation
Indices: 13944113--13944209 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
13944103 TATGAACGAC
* *
13944113 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAATGGGA
1 ACTAAGTGTGCGAAACTAAAATAATGATGTTGAATAACGGGA
* *
13944155 ACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGGC
1 ACTAAGTGTGCGAAACTAAAATAATGATGTTGAATAACGGGA
13944197 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
13944210 TACCGAGAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (42 bp):
ACTAAGTGTGCGAAACTAAAATAATGATGTTGAATAACGGGA
Found at i:13947683 original size:19 final size:19
Alignment explanation
Indices: 13947659--13947704 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
13947649 CTAGTACGTA
*
13947659 AAGTGCATGGTGGCACACG
1 AAGTGCATAGTGGCACACG
13947678 AAGTGCATAGTGGCACACG
1 AAGTGCATAGTGGCACACG
13947697 AAGTGCAT
1 AAGTGCAT
13947705 CCTGACGCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (19 bp):
AAGTGCATAGTGGCACACG
Found at i:13958708 original size:13 final size:13
Alignment explanation
Indices: 13958674--13958708 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13958664 CTAGTTTAGT
13958674 AATGTTTTTGAGA
1 AATGTTTTTGAGA
*
13958687 AATATTTTTGAGA
1 AATGTTTTTGAGA
13958700 AATGCTTTT
1 AATG-TTTT
13958709 AAAAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (13 bp):
AATGTTTTTGAGA
Found at i:13968798 original size:73 final size:73
Alignment explanation
Indices: 13968707--13968852 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
13968697 CCAGGTCGCA
*
13968707 TTGTGGGAGCCTTCATCTTTGTCAAAAGAAGTACATCTGGGATATGTTGAAGCGTAGTGGTTTGA
1 TTGTGGGAGCCTTCATCTTTGTCAAAAGAAGTACATCCGGGATATGTTGAAGCGTAGTGGTTTGA
13968772 CGAATGCT
66 CGAATGCT
13968780 TTGTGGGAGCCTTCATCTTTGTCAAAAGAAGTACATCCGGGATATGTTGAAGCGTAGTGGTTTGA
1 TTGTGGGAGCCTTCATCTTTGTCAAAAGAAGTACATCCGGGATATGTTGAAGCGTAGTGGTTTGA
13968845 CGAATGCT
66 CGAATGCT
13968853 AAAGGCGTAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (73 bp):
TTGTGGGAGCCTTCATCTTTGTCAAAAGAAGTACATCCGGGATATGTTGAAGCGTAGTGGTTTGA
CGAATGCT
Found at i:13975690 original size:18 final size:18
Alignment explanation
Indices: 13975663--13975697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13975653 TTTATACTCT
*
13975663 TTAAAAATGATTATTTTC
1 TTAAAAATGATAATTTTC
*
13975681 TTAAACATGATAATTTT
1 TTAAAAATGATAATTTT
13975698 TGAATTCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (18 bp):
TTAAAAATGATAATTTTC
Found at i:13977762 original size:7 final size:7
Alignment explanation
Indices: 13977750--13977776 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13977740 ATAATTATAT
13977750 TTTTTTG
1 TTTTTTG
13977757 TTTTTTG
1 TTTTTTG
13977764 TTTTTTG
1 TTTTTTG
13977771 TTTTTT
1 TTTTTT
13977777 TACTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (7 bp):
TTTTTTG
Found at i:13980288 original size:40 final size:41
Alignment explanation
Indices: 13980180--13980324 Score: 177
Period size: 42 Copynumber: 3.5 Consensus size: 41
13980170 AACGTTTAGA
* * * *
13980180 AAAAAAAATGCCGCTAAAGACCATGTTCTTTAGAGGCACTT
1 AAAAAAAACGCCGCTAAAGACTATGTTCTTTAGCGGCGCTT
* * *
13980221 AAAGAAAAAAGCCACTAAA-AATCATGTTCTTTAGCGGCGCTT
1 AAA-AAAAACGCCGCTAAAGACT-ATGTTCTTTAGCGGCGCTT
*
13980263 -AAAAAAACGCCGCTAAAGACTATGTTCTTTAGCAGCGCTT
1 AAAAAAAACGCCGCTAAAGACTATGTTCTTTAGCGGCGCTT
13980303 AGAAAAAAACGCCGCTAAAGAC
1 A-AAAAAAACGCCGCTAAAGAC
13980325 GCTAAAAAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
40 31 0.35
41 8 0.09
42 50 0.56
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAAAAAACGCCGCTAAAGACTATGTTCTTTAGCGGCGCTT
Found at i:13980385 original size:42 final size:42
Alignment explanation
Indices: 13980324--13980440 Score: 180
Period size: 43 Copynumber: 2.8 Consensus size: 42
13980314 CCGCTAAAGA
* *
13980324 CGCTAAAAAACATGATCTTTAGCGGCGTTTTTCTCTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAGCGC
* * *
13980366 CTCTAAAGAACATGGTCTTTAGCGGCTTTTTTTTTCTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGGC-GTTTTTCTCTAAGCGC
13980409 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
13980441 GTTTGTAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 28 0.42
43 39 0.58
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAGCGC
Found at i:13986249 original size:41 final size:40
Alignment explanation
Indices: 13986202--13986292 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 40
13986192 TCCCGGATAT
*
13986202 GGTCTTACATGTTAACGCATAT-CAATGCCACTGTCCCAGACA
1 GGTCTTACATG--AA-GCATATACAATGCCAATGTCCCAGACA
* * *
13986244 -GTCTTATATGAATCATATACGATGCCAATGTCCCAGACA
1 GGTCTTACATGAAGCATATACAATGCCAATGTCCCAGACA
13986283 TGGTCTTACA
1 -GGTCTTACA
13986293 CAAAATCACA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
38 5 0.12
39 20 0.49
41 16 0.39
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (40 bp):
GGTCTTACATGAAGCATATACAATGCCAATGTCCCAGACA
Found at i:13986482 original size:31 final size:32
Alignment explanation
Indices: 13986446--13986555 Score: 104
Period size: 31 Copynumber: 3.6 Consensus size: 32
13986436 ATATATATTC
*
13986446 ATATACGAATCAAATTCGACAATGAAT-ATCA
1 ATATACAAATCAAATTCGACAATGAATAATCA
* * *
13986477 ATATACCAAGC-AATTCGACAAT-ATATAACCA
1 ATATACAAATCAAATTCGACAATGA-ATAATCA
* * * *
13986508 A-ATAAAAATCAAATTTGGCAATGTATAATC-
1 ATATACAAATCAAATTCGACAATGAATAATCA
13986538 ATATACAAATCAAATTCG
1 ATATACAAATCAAATTCG
13986556 GCATCCTATA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
29 1 0.02
30 20 0.32
31 41 0.66
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (32 bp):
ATATACAAATCAAATTCGACAATGAATAATCA
Found at i:13986571 original size:31 final size:31
Alignment explanation
Indices: 13986513--13986576 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
13986503 AACCAAATAA
* * *
13986513 AAATCAAATTTGGCAATGTATAATCATATAC
1 AAATCAAATTCGGCAATCTATAATCATAAAC
*
13986544 AAATCAAATTCGGC-ATCCTATATTCATAAAC
1 AAATCAAATTCGGCAAT-CTATAATCATAAAC
13986575 AA
1 AA
13986577 TTTAATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (31 bp):
AAATCAAATTCGGCAATCTATAATCATAAAC
Found at i:13986607 original size:93 final size:93
Alignment explanation
Indices: 13986493--13986729 Score: 266
Period size: 93 Copynumber: 2.5 Consensus size: 93
13986483 CAAGCAATTC
* * * * *
13986493 GACAATATATAACCAAATAAAAATCAAATTT-GGCAATGTAT-AATCATATACAAATCAAATTCG
1 GACAATGTATAACCATATAAAAAT-AAATTTCAGCAATGT-TCAACCATATACAAATC-AATTCA
* *
13986556 GCATCCTATATTCATAAACAATTTAATTTCA
63 GCAACCTATATACATAAACAATTTAATTTCA
* * * *
13986587 -ACAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTCAGC
1 GACAATGTATAACCATAT-AAAAATAAATTTCAGCAATGTTCAACCATATACAAATCAATTCAGC
* *
13986651 AACTTATATACATATACAATTTAATTTCA
65 AACCTATATACATAAACAATTTAATTTCA
* * *
13986680 GA-AATGAATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATAC
1 GACAATGTATAACCATATAAAAATAAATTTCAGCAATGTTCAACCATATAC
13986730 GAACCTTTTC
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
92 33 0.26
93 65 0.52
94 27 0.22
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (93 bp):
GACAATGTATAACCATATAAAAATAAATTTCAGCAATGTTCAACCATATACAAATCAATTCAGCA
ACCTATATACATAAACAATTTAATTTCA
Found at i:13986696 original size:31 final size:30
Alignment explanation
Indices: 13986568--13986729 Score: 96
Period size: 31 Copynumber: 5.2 Consensus size: 30
13986558 ATCCTATATT
* *
13986568 CATAAACAATTTAATTTCA-ACAATGTATAAC
1 CATATACAAATTAATTTCAGA-AATG-ATAAC
* * * *
13986599 CATATAAAAAATTATTTTCAGCAATGTTCAAC
1 CATAT-ACAAATTAATTTCAGAAATGAT-AAC
* * * *
13986631 CATATACGAA-TCATTTCAGCAACTTATATA-
1 CATATACAAATTAATTTCAG-AAATGATA-AC
*
13986661 CATATACAATTTAATTTCAGAAATGAATAAC
1 CATATACAAATTAATTTCAGAAATG-ATAAC
* * * *
13986692 CATATAAAAATTATTTTCAGCAATGTTCAAC
1 CATATACAAATTAATTTCAGAAATGAT-AAC
13986723 CATATAC
1 CATATAC
13986730 GAACCTTTTC
Statistics
Matches: 97, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
30 21 0.22
31 53 0.55
32 23 0.24
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (30 bp):
CATATACAAATTAATTTCAGAAATGATAAC
Found at i:13986730 original size:92 final size:93
Alignment explanation
Indices: 13986562--13986781 Score: 311
Period size: 92 Copynumber: 2.4 Consensus size: 93
13986552 TTCGGCATCC
* *
13986562 TATATTCATAAACAATTTAATTTCA-ACAATGTATAACCATATAAAAAATTATTTTCAGCAATGT
1 TATATACATATACAATTTAATTTCAGA-AATGTATAACCATATAAAAAATTATTTTCAGCAATGT
*
13986626 TCAACCATATACGAATCATTTCAGCAACT
65 TCAACCATATACGAACCATTTCAGCAACT
*
13986655 TATATACATATACAATTTAATTTCAGAAATGAATAACCATAT-AAAAATTATTTTCAGCAATGTT
1 TATATACATATACAATTTAATTTCAGAAATGTATAACCATATAAAAAATTATTTTCAGCAATGTT
* *
13986719 CAACCATATACGAACCTTTTCGGCAACT
66 CAACCATATACGAACCATTTCAGCAACT
* * * * *
13986747 TATGTA-ATATAAAATTCAATATCAGCAATGTATAA
1 TATATACATATACAATTTAATTTCAGAAATGTATAA
13986782 TCAAAAACAA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
91 24 0.21
92 52 0.46
93 37 0.32
94 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (93 bp):
TATATACATATACAATTTAATTTCAGAAATGTATAACCATATAAAAAATTATTTTCAGCAATGTT
CAACCATATACGAACCATTTCAGCAACT
Found at i:13989325 original size:54 final size:54
Alignment explanation
Indices: 13989208--13989339 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
13989198 CGATCAGCTA
* * *
13989208 GCGGACTGTCTCACGAACAGGTGTCTGGCAGATTGCTTGACGAACAAGTGACTG
1 GCGGACTGTCTCACAAACAGGTGACTAGCAGATTGCTTGACGAACAAGTGACTG
*** * * *
13989262 GAAAACTGTCTCACAAACAGGTGACTAGTAGATTGTTTGATGAAC-AGCTGACTG
1 GCGGACTGTCTCACAAACAGGTGACTAGCAGATTGCTTGACGAACAAG-TGACTG
* * *
13989316 GCGGGCTGTCTCGCAAATAGGTGA
1 GCGGACTGTCTCACAAACAGGTGA
13989340 TTGGTGAACT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 2 0.03
54 60 0.97
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (54 bp):
GCGGACTGTCTCACAAACAGGTGACTAGCAGATTGCTTGACGAACAAGTGACTG
Found at i:13994160 original size:29 final size:30
Alignment explanation
Indices: 13994118--13994176 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
13994108 GAATTTGATC
*
13994118 AAATCAAAATTACATGTATAAAATTCCACA
1 AAATCAAAAGTACATGTATAAAATTCCACA
* *
13994148 AAATC-AAAGTACATGTATAGAATTGCACA
1 AAATCAAAAGTACATGTATAAAATTCCACA
13994177 TTAGACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.25
Consensus pattern (30 bp):
AAATCAAAAGTACATGTATAAAATTCCACA
Found at i:13994669 original size:29 final size:31
Alignment explanation
Indices: 13994611--13994689 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
13994601 ATCTTAAAAT
* *
13994611 TATACATGAACTTTGATTTAATGTGTAATTA
1 TATACATGAACTTTAATTTAATGTGCAATTA
13994642 TATACATGAACTTTAATTT-A-GTGCAATTA
1 TATACATGAACTTTAATTTAATGTGCAATTA
* *
13994671 TACACATGAAACTCTAATT
1 TATACATG-AACTTTAATT
13994690 GTGGCTCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.35
30 10 0.23
31 18 0.42
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (31 bp):
TATACATGAACTTTAATTTAATGTGCAATTA
Found at i:14019362 original size:353 final size:353
Alignment explanation
Indices: 14018710--14019418 Score: 1256
Period size: 353 Copynumber: 2.0 Consensus size: 353
14018700 CTAGTCATAT
* *
14018710 TTGCTTCTTGTGTACCTTTGTTCTATCATAAATTTGTTAAATCACTTGTATTACTGCCTAGAATA
1 TTGCTTCTTGTGTACCTCTGTTCTATCATAAATTTGTTAAATCACTTGTATTACTGCCTAGAAGA
*
14018775 TTACTTTAAACAATACAACGATTTTCCAAGTTTAGACACTAAATTTTCTTTTCCAGCAACCTAGA
66 TTACTTTAAACAATACAACGATTTTCCAAGTTTAGACACTAAATTTTCTTTTCCAACAACCTAGA
*
14018840 ATCCTTTTAGTTGAGTCATATAGATTTTCTCTTCCAAGTCTTTATGTAAAGAAGTAGTTTTTACA
131 ATCCTTCTAGTTGAGTCATATAGATTTTCTCTTCCAAGTCTTTATGTAAAGAAGTAGTTTTTACA
* *
14018905 TCCACTTGAACTAGTTCCAAATCCAACTGTGCCACCAAAACCAATAAAATTCTAATTGAGAAATG
196 TCCACCTAAACTAGTTCCAAATCCAACTGTGCCACCAAAACCAATAAAATTCTAATTGAGAAATG
* * * *
14018970 TTTTACAACTAGAGAAAATACCTCATTGTAATTAATTCCCTCCTTCTGGGTATAACTTTTTGCCA
261 TTTCACAACTAGAGAAAATACATCATTGTAATCAATTCCCTCCTTCTGGGTATAACCTTTTGCCA
14019035 TCAATCTTGCTTTGTAGCACACCTCATC
326 TCAATCTTGCTTTGTAGCACACCTCATC
* *
14019063 TTGCTTCTTGTGTACCTCTGTTCTATCATAAATTTGTTAAATCACTTGTATTACTGTCTAGGAGA
1 TTGCTTCTTGTGTACCTCTGTTCTATCATAAATTTGTTAAATCACTTGTATTACTGCCTAGAAGA
* *
14019128 TTACTTTAAACCATACAACGATTTTCCAAGTTTAGACACTAAATTTTCTTTTCCAACAACCTTGA
66 TTACTTTAAACAATACAACGATTTTCCAAGTTTAGACACTAAATTTTCTTTTCCAACAACCTAGA
* *
14019193 ATCCTTCTAGTTTAGTCATATATATTTTCTCTTCCAAGTCTTTATGTAAAGAAGTAGTTTTTACA
131 ATCCTTCTAGTTGAGTCATATAGATTTTCTCTTCCAAGTCTTTATGTAAAGAAGTAGTTTTTACA
*
14019258 TCCACCTAAACTAGTTCCAAATCCAACTGTGCCACCAAAACCAATAAAATTCTAATTGAGGAATG
196 TCCACCTAAACTAGTTCCAAATCCAACTGTGCCACCAAAACCAATAAAATTCTAATTGAGAAATG
14019323 TTTCACAACTAGAGAAAATACATCATTGTAATCAATTCCCTCCTTCTGGGTATAACCTTTTGCCA
261 TTTCACAACTAGAGAAAATACATCATTGTAATCAATTCCCTCCTTCTGGGTATAACCTTTTGCCA
*
14019388 TCAATCTTGCTTTTTAGCACACCTCATC
326 TCAATCTTGCTTTGTAGCACACCTCATC
14019416 TTG
1 TTG
14019419 GCTAGGAAAT
Statistics
Matches: 338, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
353 338 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (353 bp):
TTGCTTCTTGTGTACCTCTGTTCTATCATAAATTTGTTAAATCACTTGTATTACTGCCTAGAAGA
TTACTTTAAACAATACAACGATTTTCCAAGTTTAGACACTAAATTTTCTTTTCCAACAACCTAGA
ATCCTTCTAGTTGAGTCATATAGATTTTCTCTTCCAAGTCTTTATGTAAAGAAGTAGTTTTTACA
TCCACCTAAACTAGTTCCAAATCCAACTGTGCCACCAAAACCAATAAAATTCTAATTGAGAAATG
TTTCACAACTAGAGAAAATACATCATTGTAATCAATTCCCTCCTTCTGGGTATAACCTTTTGCCA
TCAATCTTGCTTTGTAGCACACCTCATC
Found at i:14027758 original size:36 final size:36
Alignment explanation
Indices: 14027718--14027790 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
14027708 CTAGAAGATA
* *
14027718 TAATTATGGAATCTTAGAGTTCTAATTGTATATAGC
1 TAATTATGGAAGCTTAGAGTTCTAATTGTATACAGC
*
14027754 TAATTATGTAAGCTTAGAGTTCTAATTGTATACAGC
1 TAATTATGGAAGCTTAGAGTTCTAATTGTATACAGC
14027790 T
1 T
14027791 TTTAATTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (36 bp):
TAATTATGGAAGCTTAGAGTTCTAATTGTATACAGC
Found at i:14028090 original size:48 final size:48
Alignment explanation
Indices: 14028015--14028110 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
14028005 TAAGGGAATT
* ** * *
14028015 CTGTTGAATCTTTTATCGTTGCGAGTTAAGTTGACTTACGCGTTTTTA
1 CTGTTGAATCATTTATCACTGCAAGTTAAGCTGACTTACGCGTTTTTA
* *
14028063 CTGTTGAATCATTTATCACTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCATTTATCACTGCAAGTTAAGCTGACTTACGCGTTTTTA
14028111 AGCAAAGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCATTTATCACTGCAAGTTAAGCTGACTTACGCGTTTTTA
Found at i:14035409 original size:31 final size:31
Alignment explanation
Indices: 14035371--14035432 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
14035361 ATAGCCACTA
14035371 AACTATTTGAAAGTTTTCATTTAAGTCATTG
1 AACTATTTGAAAGTTTTCATTTAAGTCATTG
*
14035402 AACTATTTGAAAGTTTTTATTTAAGTCATTG
1 AACTATTTGAAAGTTTTCATTTAAGTCATTG
14035433 GGTTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (31 bp):
AACTATTTGAAAGTTTTCATTTAAGTCATTG
Found at i:14046889 original size:17 final size:18
Alignment explanation
Indices: 14046858--14046891 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14046848 TATGTTAATT
14046858 TTATTGATTTAAATAGAG
1 TTATTGATTTAAATAGAG
*
14046876 TTATT-ATTTGAATAGA
1 TTATTGATTTAAATAGA
14046892 ATTTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATTGATTTAAATAGAG
Found at i:14049628 original size:25 final size:25
Alignment explanation
Indices: 14049591--14049669 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
14049581 GACACACCAC
*
14049591 AGCTCTTAT-GAGCGTCCCG-TTATAT
1 AGCTCTT-TGGAGCTTCCCGATTA-AT
14049616 AGCTCTTTGGAGCTTCCCGATTAAT
1 AGCTCTTTGGAGCTTCCCGATTAAT
* *
14049641 GGCTCTTCGGAGCTTCCCGA-TAAT
1 AGCTCTTTGGAGCTTCCCGATTAAT
*
14049665 GGCTC
1 AGCTC
14049670 GCTTGAACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
24 10 0.20
25 36 0.73
26 3 0.06
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCTCTTTGGAGCTTCCCGATTAAT
Found at i:14049669 original size:24 final size:25
Alignment explanation
Indices: 14049600--14049669 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
14049590 CAGCTCTTAT
* * *
14049600 GAGCGTCCCG-TTATATAGCTCTTTG
1 GAGCTTCCCGATTA-ATGGCTCTTCG
14049625 GAGCTTCCCGATTAATGGCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTTCG
14049650 GAGCTTCCCGA-TAATGGCTC
1 GAGCTTCCCGATTAATGGCTC
14049670 GCTTGAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 9 0.22
25 29 0.71
26 3 0.07
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTTCG
Found at i:14049700 original size:24 final size:23
Alignment explanation
Indices: 14049617--14049700 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 23
14049607 CCGTTATATA
*
14049617 GCTCTTTGGAGCTTCCCGATTAATG
1 GCTCTTT-GAACTTCCCGATT-ATG
* * *
14049642 GCTCTTCGGAGCTTCCCGATAATG
1 GCTCTT-TGAACTTCCCGATTATG
* *
14049666 GCTCGCTTGAACTTCCCAATTATG
1 GCTC-TTTGAACTTCCCGATTATG
14049690 GCTCTTATGAA
1 GCTCTT-TGAA
14049701 GTTCTTGTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.02
24 28 0.58
25 19 0.40
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (23 bp):
GCTCTTTGAACTTCCCGATTATG
Found at i:14049735 original size:25 final size:25
Alignment explanation
Indices: 14049707--14049761 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
14049697 TGAAGTTCTT
*
14049707 GTTATACAGCTCGA-ATGAGTTTCCC
1 GTTATACAGCTC-ACATGAGCTTCCC
* **
14049732 GTTACATGGCTCACATGAGCTTCCC
1 GTTATACAGCTCACATGAGCTTCCC
14049757 GTTAT
1 GTTAT
14049762 TTGGTTCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
GTTATACAGCTCACATGAGCTTCCC
Found at i:14052461 original size:20 final size:20
Alignment explanation
Indices: 14052414--14052454 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14052404 GATTTTTTTT
* *
14052414 AAAATTTAAATAATTATTTG
1 AAAAATTAAATAATTATTTC
14052434 AAAAATTAAATAATT-TTTC
1 AAAAATTAAATAATTATTTC
14052453 AA
1 AA
14052455 TTAATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATTAAATAATTATTTC
Found at i:14052472 original size:10 final size:10
Alignment explanation
Indices: 14052457--14052530 Score: 73
Period size: 10 Copynumber: 7.5 Consensus size: 10
14052447 TTTTTCAATT
14052457 AATTATTAAA
1 AATTATTAAA
14052467 AATTATTAAA
1 AATTATTAAA
*
14052477 AACTA-TAAGA
1 AATTATTAA-A
14052487 AATTA-TAAA
1 AATTATTAAA
*
14052496 AA-TATTTATA
1 AATTA-TTAAA
*
14052506 AATTAATAAA
1 AATTATTAAA
*
14052516 AATTATTTAA
1 AATTATTAAA
14052526 AATTA
1 AATTA
14052531 CAATAAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
8 2 0.04
9 6 0.11
10 43 0.81
11 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (10 bp):
AATTATTAAA
Found at i:14052508 original size:19 final size:18
Alignment explanation
Indices: 14052486--14052542 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 18
14052476 AAACTATAAG
14052486 AAATTATAAAAATATTTA
1 AAATTATAAAAATATTTA
14052504 TAAATTAATAAAAATTATTTA
1 -AAATT-ATAAAAA-TATTTA
*
14052525 AAATTACAATAAATATTT
1 AAATTATAA-AAATATTT
14052543 GAATTACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 13 0.38
20 15 0.44
21 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTATAAAAATATTTA
Found at i:14052538 original size:20 final size:18
Alignment explanation
Indices: 14052486--14052552 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 18
14052476 AAACTATAAG
*
14052486 AAATTATAAAAATATTTA
1 AAATTACAAAAATATTTA
*
14052504 TAAATTAATAAAAATTATTTA
1 -AAATT-ACAAAAA-TATTTA
14052525 AAATTACAATAAATATTT-
1 AAATTACAA-AAATATTTA
*
14052543 GAATTACAAA
1 AAATTACAAA
14052553 TTAATTATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.02
18 8 0.19
19 13 0.30
20 15 0.35
21 6 0.14
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (18 bp):
AAATTACAAAAATATTTA
Found at i:14053214 original size:19 final size:19
Alignment explanation
Indices: 14053177--14053215 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14053167 TACCATCCAT
* *
14053177 TCATTTAAACTTAATTAAA
1 TCATTTAAACTAAAATAAA
*
14053196 TCATTTAAGCTAAAATAAA
1 TCATTTAAACTAAAATAAA
14053215 T
1 T
14053216 TAAAAAGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (19 bp):
TCATTTAAACTAAAATAAA
Found at i:14054883 original size:27 final size:27
Alignment explanation
Indices: 14054853--14054906 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
14054843 TGGATTATTC
14054853 TGTGTTTAACATCCTATTAGACAATCT
1 TGTGTTTAACATCCTATTAGACAATCT
* * *
14054880 TGTGTTTAACATCTTGTTAGACTATCT
1 TGTGTTTAACATCCTATTAGACAATCT
14054907 ATGATGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (27 bp):
TGTGTTTAACATCCTATTAGACAATCT
Found at i:14055064 original size:68 final size:69
Alignment explanation
Indices: 14054986--14055202 Score: 191
Period size: 70 Copynumber: 3.2 Consensus size: 69
14054976 CATCTTTCAG
* * * * *
14054986 CTATAGTCTTACACAATATAG-T-CTCGTGTTTATTGTTCAGACGGACTACACTGGTG-GTCATA
1 CTATAGTCTTACACAATAT-GTTCCCCGTGTTTACTGTCCAGACAGACTAC-CTGATGCGTCATA
14055048 GTCCAA
64 GTCCAA
* *
14055054 CTATAGTCTTACACCATATGTTTCCCCGTGTTTACTGTCCAGACAGACTACCTTATGCTGTCATA
1 CTATAGTCTTACACAATATG-TTCCCCGTGTTTACTGTCCAGACAGACTACCTGATGC-GTCATA
14055119 GTCCAA
64 GTCCAA
* * * *
14055125 CTATGGTCTTACA-TA-ATGTAACCCCGTGTTTA-TCGTCCCAG-CAGACTACCAGGATGC--CA
1 CTATAGTCTTACACAATATGT-TCCCCGTGTTTACT-GT-CCAGACAGACTACC-TGATGCGTCA
14055184 TAGTCCAA
62 TAGTCCAA
*
14055192 CTATGGTCTTA
1 CTATAGTCTTA
14055203 GTCCTGTTTA
Statistics
Matches: 128, Mismatches: 12, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
67 22 0.17
68 20 0.16
69 30 0.23
70 32 0.25
71 24 0.19
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (69 bp):
CTATAGTCTTACACAATATGTTCCCCGTGTTTACTGTCCAGACAGACTACCTGATGCGTCATAGT
CCAA
Found at i:14055103 original size:70 final size:67
Alignment explanation
Indices: 14054986--14055202 Score: 185
Period size: 69 Copynumber: 3.2 Consensus size: 67
14054976 CATCTTTCAG
* * *
14054986 CTATAGTCTTACACAATATAG-T-CTCGTGTTTATTGTTCAGACGGACTACACTGGTGGTCATAG
1 CTATAGTCTTACACAATAT-GTTCCCCGTGTTTA-TGTCCAGACAGACTAC-CTGGTGGTCATAG
14055049 TCCAA
63 TCCAA
* **
14055054 CTATAGTCTTACACCATATGTTTCCCCGTGTTTACTGTCCAGACAGACTACCTTATGCTGTCATA
1 CTATAGTCTTACACAATATG-TTCCCCGTGTTTA-TGTCCAGACAGACTACCTGGTG--GTCATA
14055119 GTCCAA
62 GTCCAA
* * * * *
14055125 CTATGGTCTTACA-TA-ATGTAACCCCGTGTTTATCGTCCCAG-CAGACTACCAGGAT-GCCATA
1 CTATAGTCTTACACAATATGT-TCCCCGTGTTTAT-GT-CCAGACAGACTACCTGG-TGGTCATA
14055186 GTCCAA
62 GTCCAA
*
14055192 CTATGGTCTTA
1 CTATAGTCTTA
14055203 GTCCTGTTTA
Statistics
Matches: 126, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
67 23 0.18
68 20 0.16
69 30 0.24
70 29 0.23
71 24 0.19
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (67 bp):
CTATAGTCTTACACAATATGTTCCCCGTGTTTATGTCCAGACAGACTACCTGGTGGTCATAGTCC
AA
Found at i:14055134 original size:71 final size:67
Alignment explanation
Indices: 14055042--14055202 Score: 191
Period size: 69 Copynumber: 2.3 Consensus size: 67
14055032 TACACTGGTG
* **
14055042 GTCATAGTCCAACTATAGTCTTACACCATATGTTTCCCCGTGTTTA-CTGT-CCAGACAGACTAC
1 GTCATAGTCCAACTATGGTCTTACA-CA-ATGTAACCCCGTGTTTATC-GTCCCAG-CAGACTAC
* *
14055105 CTTATGCT
62 C--AGGAT
*
14055113 GTCATAGTCCAACTATGGTCTTACATAATGTAACCCCGTGTTTATCGTCCCAGCAGACTACCAGG
1 GTCATAGTCCAACTATGGTCTTACACAATGTAACCCCGTGTTTATCGTCCCAGCAGACTACCAGG
14055178 AT
66 AT
*
14055180 GCCATAGTCCAACTATGGTCTTA
1 GTCATAGTCCAACTATGGTCTTA
14055203 GTCCTGTTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
67 25 0.31
69 26 0.32
70 6 0.07
71 24 0.30
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (67 bp):
GTCATAGTCCAACTATGGTCTTACACAATGTAACCCCGTGTTTATCGTCCCAGCAGACTACCAGG
AT
Found at i:14055201 original size:67 final size:70
Alignment explanation
Indices: 14055010--14055202 Score: 193
Period size: 70 Copynumber: 2.8 Consensus size: 70
14055000 AATATAGTCT
* * * * *
14055010 CGTGTTTATTGTTCAGACGGACTACACT-GG-TGGTCATAGTCCAACTATAGTCTTACACCATAT
1 CGTGTTTACTGTCCAGACAGACTAC-CTAGGAT-GCCATAGTCCAACTATGGTCTTACACCATAT
**
14055073 GTTTCCC
64 GTAACCC
* * * *
14055080 CGTGTTTACTGTCCAGACAGACTACCTTATGCTGTCATAGTCCAACTATGGTCTTACA-TA-ATG
1 CGTGTTTACTGTCCAGACAGACTACC-TAGGATGCCATAGTCCAACTATGGTCTTACACCATATG
14055143 TAACCC
65 TAACCC
14055149 CGTGTTTA-TCGTCCCAG-CAGACTACC-AGGATGCCATAGTCCAACTATGGTCTTA
1 CGTGTTTACT-GT-CCAGACAGACTACCTAGGATGCCATAGTCCAACTATGGTCTTA
14055203 GTCCTGTTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
67 25 0.23
68 1 0.01
69 27 0.25
70 28 0.26
71 25 0.23
72 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (70 bp):
CGTGTTTACTGTCCAGACAGACTACCTAGGATGCCATAGTCCAACTATGGTCTTACACCATATGT
AACCC
Found at i:14066678 original size:25 final size:25
Alignment explanation
Indices: 14066650--14066698 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14066640 TTCTTCATTG
14066650 CTTTTGAGAAGTGCTGTAAAAAATA
1 CTTTTGAGAAGTGCTGTAAAAAATA
* *
14066675 CTTTTGAGAAGTGCTTTTAAAAAT
1 CTTTTGAGAAGTGCTGTAAAAAAT
14066699 TTTGAGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (25 bp):
CTTTTGAGAAGTGCTGTAAAAAATA
Found at i:14067115 original size:20 final size:20
Alignment explanation
Indices: 14067092--14067142 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
14067082 CTCATATTAG
14067092 ATATTAACATAACATAA-AAA
1 ATATTAACATAACA-AATAAA
* *
14067112 ATATAAACCTAACAAATTAAA
1 ATATTAACATAACAAA-TAAA
14067133 ATATT-ACATA
1 ATATTAACATA
14067143 TATTTAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 16 0.64
21 7 0.28
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATTAACATAACAAATAAA
Found at i:14073528 original size:21 final size:21
Alignment explanation
Indices: 14073502--14073542 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14073492 AGACGAGCAA
* *
14073502 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14073523 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14073543 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14075481 original size:16 final size:16
Alignment explanation
Indices: 14075448--14075481 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14075438 GGAGATTGTT
* *
14075448 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
14075464 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
14075480 AA
1 AA
14075482 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:14080252 original size:29 final size:29
Alignment explanation
Indices: 14080205--14080297 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
14080195 CTCTATATTA
* *
14080205 AAAGATTGAATATTTGAAGTTGGCTGGAT
1 AAAGATTGAAGATTCGAAGTTGGCTGGAT
* * *
14080234 TAAGATTGAAGATTCGAAGTAGGCTAGAT
1 AAAGATTGAAGATTCGAAGTTGGCTGGAT
* *
14080263 AAAGATTGAAGA-ACTGAAATTGGCTGGAT
1 AAAGATTGAAGATTC-GAAGTTGGCTGGAT
14080292 AAAGAT
1 AAAGAT
14080298 CAAATTATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 1 0.02
29 52 0.98
ACGTcount: A:0.40, C:0.05, G:0.27, T:0.28
Consensus pattern (29 bp):
AAAGATTGAAGATTCGAAGTTGGCTGGAT
Found at i:14103376 original size:6 final size:6
Alignment explanation
Indices: 14103365--14103407 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
14103355 GAAGACAGGT
14103365 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG C
1 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG C
14103408 AGCTCTCTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.51, G:0.16, T:0.16
Consensus pattern (6 bp):
CCCATG
Found at i:14104084 original size:29 final size:29
Alignment explanation
Indices: 14104017--14104077 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
14104007 TGAAGGATGC
14104017 AAAAGACTAAGTTGAACAAACGGTTTGAG
1 AAAAGACTAAGTTGAACAAACGGTTTGAG
14104046 AAAAGACTAAGTTGAACAAACGGTTTGAG
1 AAAAGACTAAGTTGAACAAACGGTTTGAG
14104075 AAA
1 AAA
14104078 TTACTAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.20
Consensus pattern (29 bp):
AAAAGACTAAGTTGAACAAACGGTTTGAG
Found at i:14106243 original size:107 final size:107
Alignment explanation
Indices: 14106110--14106332 Score: 304
Period size: 107 Copynumber: 2.1 Consensus size: 107
14106100 CTATCATATT
* * * * * * *
14106110 ATGCCATGAGTCTTAGCCACATGGACTTACACCTTCTCATGTTGTGATATGCCAATCTAGACTTC
1 ATGCCATGGGTATCAGCCACATGGACTTACACCTCCTCATGTCGTGATATGCCAATCCAAACTTC
* * * * *
14106175 ATTTTACTAGAAGCAATA-TAGTGAGTGGTTTTGTATTACACA
66 ATCTTACTAGAAGCAACACCA-TGAGTGGTTTCGTATCACACA
*
14106217 ATGCCATGGGTATCAGCCACATGGACTTACACCTCCTCATGTCGTGATCTGCCAATCCAAACTTC
1 ATGCCATGGGTATCAGCCACATGGACTTACACCTCCTCATGTCGTGATATGCCAATCCAAACTTC
*
14106282 ATCTTACTGGAAGCAACACCATGAGTGGTTTCGTATCACACA
66 ATCTTACTAGAAGCAACACCATGAGTGGTTTCGTATCACACA
14106324 ATGCCATGG
1 ATGCCATGG
14106333 ATCTCAACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 100 0.99
108 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (107 bp):
ATGCCATGGGTATCAGCCACATGGACTTACACCTCCTCATGTCGTGATATGCCAATCCAAACTTC
ATCTTACTAGAAGCAACACCATGAGTGGTTTCGTATCACACA
Found at i:14107591 original size:18 final size:18
Alignment explanation
Indices: 14107568--14107610 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
14107558 ACCCAATCTA
**
14107568 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
14107586 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
14107604 AACCCAA
1 AACCCAA
14107611 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:14107737 original size:9 final size:9
Alignment explanation
Indices: 14107719--14107757 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
14107709 TAGTGATTCA
14107719 AATT-GGTT
1 AATTCGGTT
14107727 AATTCGGTT
1 AATTCGGTT
14107736 AATTCGGTT
1 AATTCGGTT
14107745 AATTCGGTT
1 AATTCGGTT
14107754 AATT
1 AATT
14107758 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.13
9 26 0.87
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14109318 original size:18 final size:16
Alignment explanation
Indices: 14109295--14109330 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
14109285 ATAGGGTTTT
14109295 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
14109313 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
14109329 TA
1 TA
14109331 TTATACATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:14112454 original size:43 final size:43
Alignment explanation
Indices: 14112390--14112479 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
14112380 TTTATGTTAT
* *
14112390 GGGTCCATTAAGAGTATATTACTCATCCTTCTCTTATCATTAC
1 GGGTCCATTAAGAGTACATTACTCATCCTTCCCTTATCATTAC
14112433 GGGTCCATTAAGAGTACATTACTCATCCTTCCCTTATCATTAC
1 GGGTCCATTAAGAGTACATTACTCATCCTTCCCTTATCATTAC
14112476 GGGT
1 GGGT
14112480 ACCTAGCACT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (43 bp):
GGGTCCATTAAGAGTACATTACTCATCCTTCCCTTATCATTAC
Found at i:14125350 original size:45 final size:46
Alignment explanation
Indices: 14125294--14125404 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
14125284 GTCACTTGTC
* ** *
14125294 CTTGATTAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGCCA
1 CTTGATCAGATAAGTGTAGCTGAACCTACCACTTATCACTTTACCA
*
14125339 CTTGATCAGATAAGTGTAGCTGAACCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAACCTACCACTTATCACTTTACCA
14125385 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
14125405 CACTTATCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
45 20 0.33
46 40 0.67
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAACCTACCACTTATCACTTTACCA
Found at i:14125408 original size:37 final size:37
Alignment explanation
Indices: 14125367--14125579 Score: 390
Period size: 37 Copynumber: 5.8 Consensus size: 37
14125357 GCTGAACCTA
* **
14125367 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
*
14125404 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
14125441 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
14125478 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
14125515 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
14125552 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTTTCTTGATCAGA
14125580 AGTACTCAAA
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 171 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:14135691 original size:50 final size:49
Alignment explanation
Indices: 14135637--14136556 Score: 448
Period size: 50 Copynumber: 18.8 Consensus size: 49
14135627 GGCGGAACAT
* * * **
14135637 ATTGAAGCTACGACAACGAATCTCACTTTCCCGACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAGCGAATCTTAC-TTCCCGACATTGCAATGGAAAAG
* * * * * *
14135687 ATTGAAGCCACAACGGCGAATCTTACTTCCAG-GA-TGCAGTGGAATAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGACATTGCAATGGAAAAG
* * ** * * * *
14135734 ATTGAAGCTACAACAGCGGATCTTACTTTTCTAACGTTCCAGTGGAATAG
1 ATTGAAGCTACAACAGCGAATCTTAC-TTCCCGACATTGCAATGGAAAAG
* **
14135784 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCC-GACATTGCAATGGAAAAG
* * * * * * *
14135834 ATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGA-CATTGCAATGGAAAAG
* * * * * **
14135884 ATTGAAGCTACAACAGTGGATCTTGCTTCCC--C--GGCAGTTAAAAAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGACATTGCAATGGAAAAG
* * * * * *
14135929 ATTGAAGATACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGA-CATTGCAATGGAAAAG
* * * * * **
14135979 ATTGAAGCTACAATAGCGGATCTTGCTTCCC--C--GGCAGTTAAAAAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGACATTGCAATGGAAAAG
* * * * * *
14136024 ATTGAAGATACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGA-CATTGCAATGGAAAAG
* * * * * **
14136074 ATTGAAGCTACAATAGCGGATCTTGCTTCCC--C--GGCAGTTAAAAAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGACATTGCAATGGAAAAG
* * *
14136119 ATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGT-GAAACAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCC-GAC-ATTGCAATGGAAA-AG
* ** *
14136169 ATT-AATGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAAT-TAAAAG
1 ATTGAA-GCTACAACAGCGAATCTTACTT-CCCGACATTGCAATGGAAAAG
* * * * *
14136218 ATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGGAACAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCC-GAC-ATTGCAATGGAAAAG
** * *
14136268 ATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAAT-TAAAAG
1 ATTGAAGCTACAACAGCGAATCTTACTT-CCCGACATTGCAATGGAAAAG
* * * ** * * *
14136317 ATTGAGGCCACAAC-GACGAATCTTACTTTCCCTAGCGGTGTAGTGGAATAG
1 ATTGAAGCTACAACAG-CGAATCTTAC-TTCCCGA-CATTGCAATGGAAAAG
* * * *
14136368 ATTGAAGCTACGAC-GACGAATCTTACTTCCCCGACATTGCAGTTGAACAG
1 ATTGAAGCTACAACAG-CGAATCTTACTT-CCCGACATTGCAATGGAAAAG
** ** * * * * *
14136418 ATTGAAGCTATGATGGCAAATCTCATTTCCCCGACATTGCAGCT-CAAAAG
1 ATTGAAGCTACAACAGCGAATCTTACTT-CCCGACATTGCA-ATGGAAAAG
* * * * * * * ** *
14136468 ATTGATGCCACAACGGCGGATCTTACTTCCAGGCGA-TACAGCGGAACAG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGAC-ATTGCAATGGAAAAG
* ** * *
14136517 ATTGAAGCTACGATGGCGAATCTTACCTCCTGACATTGCA
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCGACATTGCA
14136557 GTTAAACAAA
Statistics
Matches: 677, Mismatches: 153, Indels: 81
0.74 0.17 0.09
Matches are distributed among these distances:
45 108 0.16
47 35 0.05
48 12 0.02
49 115 0.17
50 368 0.54
51 39 0.06
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (49 bp):
ATTGAAGCTACAACAGCGAATCTTACTTCCCGACATTGCAATGGAAAAG
Found at i:14135962 original size:95 final size:95
Alignment explanation
Indices: 14135732--14136400 Score: 722
Period size: 95 Copynumber: 6.9 Consensus size: 95
14135722 GCAGTGGAAT
* * * *
14135732 AGATTGAAGCTACAACAGCGGATCTTACTTTTCTAACGTTCCAGTGGAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
* * *
14135797 CAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
66 CAGCGGATCTTGCTTCCC---C--GGCAGTTAAAA
*
14135832 AGATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
*
14135897 CAGTGGATCTTGCTTCCCCGGCAGTTAAAA
66 CAGCGGATCTTGCTTCCCCGGCAGTTAAAA
* *
14135927 AGATTGAAGATACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
*
14135992 TAGCGGATCTTGCTTCCCCGGCAGTTAAAA
66 CAGCGGATCTTGCTTCCCCGGCAGTTAAAA
* *
14136022 AGATTGAAGATACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
*
14136087 TAGCGGATCTTGCTTCCCCGGCAGTTAAAA
66 CAGCGGATCTTGCTTCCCCGGCAGTTAAAA
* * * * *
14136117 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGTGAAACAGATT-AATGCTAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGAA-GCTAC
* * * *
14136180 AACGGCGAATCTCGCTTCCCCGACA-TTGCAATTAAA
64 AACAGCGGATCTTGCTTCCCCGGCAGTT---A--AAA
* * * * *
14136216 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGAAGCTACA
** * *
14136280 ATGGCGAATCTTGCTTCCCCGACA-TTGCAATTAAA
65 ACAGCGGATCTTGCTTCCCCGGCAGTT---A--AAA
* * * * * *
14136315 AGATTGAGGCCACAAC-GACGAATCTTACTTTCCCTAGCGGTGTAGTGGAATAGATTGAAGCTAC
1 AGATTGAAGCTACAACAG-CGGATCTTACTTT-CCTAGCGTTGCAGTGGAACAGATTGAAGCTAC
* * *
14136379 GAC-GACGAATCTTACTTCCCCG
64 AACAG-CGGATCTTGCTTCCCCG
14136401 ACATTGCAGT
Statistics
Matches: 519, Mismatches: 38, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
94 9 0.02
95 261 0.50
97 2 0.00
98 1 0.00
99 121 0.23
100 122 0.24
101 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (95 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
CAGCGGATCTTGCTTCCCCGGCAGTTAAAA
Found at i:14138383 original size:3 final size:3
Alignment explanation
Indices: 14138377--14138406 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14138367 ATTATTCTAT
14138377 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14138407 TATTAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:14138490 original size:6 final size:6
Alignment explanation
Indices: 14138479--14138503 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14138469 TTTTTATAAA
14138479 TATTGT TATTGT TATTGT TATTGT T
1 TATTGT TATTGT TATTGT TATTGT T
14138504 GTATTCGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TATTGT
Found at i:14143944 original size:2 final size:2
Alignment explanation
Indices: 14143937--14143965 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14143927 AATAATGATT
14143937 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14143966 TGGGTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14145360 original size:29 final size:30
Alignment explanation
Indices: 14145314--14145372 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
14145304 AAATCAAATC
*
14145314 AAATCAAAATGTTATGTATAAAATTGCACA
1 AAATCAAAATGTTATGTATAAAATTACACA
*
14145344 AAATC-AAA-GTTCATGTATAACATTACACA
1 AAATCAAAATGTT-ATGTATAAAATTACACA
14145373 TTAAACCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATCAAAATGTTATGTATAAAATTACACA
Found at i:14146755 original size:50 final size:50
Alignment explanation
Indices: 14146675--14146911 Score: 276
Period size: 50 Copynumber: 4.7 Consensus size: 50
14146665 ATTTGGGTAA
* *
14146675 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
** * * * *
14146725 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGTACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
** * *
14146775 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
** * * * *
14146826 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGTACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
**
14146876 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
14146912 TTTGACATGT
Statistics
Matches: 152, Mismatches: 33, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
50 84 0.55
51 68 0.45
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
Found at i:14146855 original size:101 final size:101
Alignment explanation
Indices: 14146680--14146911 Score: 464
Period size: 101 Copynumber: 2.3 Consensus size: 101
14146670 GGTAAAGAGG
14146680 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCA
14146745 TGTCTAGGACATGGCATGGGTACCGATATGAGAACA
66 TGTCTAGGACATGGCATGGGTACCGATATGAGAACA
14146781 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCA
14146846 TGTCTAGGACATGGCATGGGTACCGATATGAGAACA
66 TGTCTAGGACATGGCATGGGTACCGATATGAGAACA
14146882 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
14146912 TTTGACATGT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 131 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (101 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCA
TGTCTAGGACATGGCATGGGTACCGATATGAGAACA
Found at i:14152641 original size:33 final size:32
Alignment explanation
Indices: 14152596--14152742 Score: 89
Period size: 33 Copynumber: 4.4 Consensus size: 32
14152586 CAGTATTTAT
* *
14152596 ATGTAAGACCATAGTTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGTTGGACTATGACATTCTG
** * * *
14152628 ATGATAAGACCATAACTGGATTATGACACTATG
1 ATG-TAAGACCATAGTTGGACTATGACATTCTG
* * ** * *
14152661 AACGTAAGACCAT-GTTTGGACCATGGTAGTGTTTAT
1 -ATGTAAGACCATAG-TTGGACTATGACA-T-TCT-G
* *
14152697 ATGTAAGATCATAGTTGGGCTATGACATTCTG
1 ATGTAAGACCATAGTTGGACTATGACATTCTG
14152729 ATGATAAGACCATA
1 ATG-TAAGACCATA
14152743 ACTGGATTAT
Statistics
Matches: 81, Mismatches: 26, Indels: 15
0.66 0.21 0.12
Matches are distributed among these distances:
32 6 0.07
33 50 0.62
34 3 0.04
35 21 0.26
36 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (32 bp):
ATGTAAGACCATAGTTGGACTATGACATTCTG
Found at i:14152704 original size:101 final size:101
Alignment explanation
Indices: 14152529--14152768 Score: 372
Period size: 101 Copynumber: 2.4 Consensus size: 101
14152519 TGAATCGATG
* *
14152529 GATAAGATCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
1 GATAAGACCATAACTGGATTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
*
14152594 ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGTTGGGCTATGACATTCTGAT
* * * ** *
14152630 GATAAGACCATAACTGGATTATGACACTATGAACGTAAGACCATGTTTGGACCATGGTAGTGTTT
1 GATAAGACCATAACTGGATTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
*
14152695 ATATGTAAGATCATAGTTGGGCTATGACATTCTGAT
66 ATATGTAAGACCATAGTTGGGCTATGACATTCTGAT
* *
14152731 GATAAGACCATAACTGGATTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGATTATGGCACTATGAACGTAA
14152769 ATGATGAATT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 126 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGATTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
ATATGTAAGACCATAGTTGGGCTATGACATTCTGAT
Found at i:14163239 original size:29 final size:29
Alignment explanation
Indices: 14163207--14163262 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
14163197 TTTTTAAAAA
14163207 TTTTTATACTATTTTAATTTAATATTTAC
1 TTTTTATACTATTTTAATTTAATATTTAC
*
14163236 TTTTTATATTATTTTAATTTAATATTT
1 TTTTTATACTATTTTAATTTAATATTT
14163263 GATAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTTATACTATTTTAATTTAATATTTAC
Found at i:14170354 original size:13 final size:13
Alignment explanation
Indices: 14170336--14170373 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
14170326 TTCTTCATTA
14170336 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
14170349 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
14170362 CTTTTGAAAAGT
1 CTTTTGAAAAGT
14170374 TTGGTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:14174778 original size:32 final size:32
Alignment explanation
Indices: 14174697--14174785 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
14174687 TGATTAAACT
* * * *
14174697 TAATCACTTTAATATTAAATTTAATCTTATCT
1 TAATCAATTTAATATTAAATTTAATATTAACA
* * * *
14174729 TGATAAATATT-AGATTAAATTTAATATTAAGA
1 TAATCAAT-TTAATATTAAATTTAATATTAACA
14174761 TAATCAATTTAATATTAAA-TTAATA
1 TAATCAATTTAATATTAAATTTAATA
14174786 AAATACTATT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
31 8 0.18
32 34 0.77
33 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (32 bp):
TAATCAATTTAATATTAAATTTAATATTAACA
Found at i:14174784 original size:20 final size:20
Alignment explanation
Indices: 14174689--14174784 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 20
14174679 TTCAACTATG
*
14174689 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCAATTTAAT
* *
14174710 ATTAAATTTAATCTTATCTTGAT
1 ATTAAA-TTAATC-AAT-TTAAT
*
14174733 A--AATATTAGATTAAATTTAAT
1 ATTAA-ATTA-A-TCAATTTAAT
14174754 ATTAAGA-TAATCAATTTAAT
1 ATTAA-ATTAATCAATTTAAT
14174774 ATTAAATTAAT
1 ATTAAATTAAT
14174785 AAAATACTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
19 1 0.02
20 18 0.31
21 23 0.40
22 7 0.12
23 9 0.16
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (20 bp):
ATTAAATTAATCAATTTAAT
Found at i:14177796 original size:30 final size:27
Alignment explanation
Indices: 14177743--14177797 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
14177733 TGCAAAACTA
*
14177743 TAAAAAAATTAAAATTATCAAAATTAC
1 TAAAAAAATTAAAATTATAAAAATTAC
14177770 TAAAAAAATATAACATATTATAAAAATT
1 TAAAAAAAT-TAA-A-ATTATAAAAATT
14177798 CAAATATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 3 0.12
29 1 0.04
30 11 0.46
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAAAAAATTAAAATTATAAAAATTAC
Found at i:14181843 original size:26 final size:25
Alignment explanation
Indices: 14181802--14181975 Score: 80
Period size: 24 Copynumber: 7.1 Consensus size: 25
14181792 CACACCGCAA
14181802 CTCTT-ATGAG-TGTCCCGTTATATGG
1 CTCTTCATGAGCT-TCCCGTTA-ATGG
* *
14181827 CTCTTCATGAGCTTCCCAATTAAAGG
1 CTCTTCATGAGCTTCCC-GTTAATGG
** *
14181853 CTCTTTGTGAGCTTCCCGTTAGT-G
1 CTCTTCATGAGCTTCCCGTTAATGG
* * *
14181877 CTC-GCTTGAACTTCCCGTTATATGG
1 CTCTTCATGAGCTTCCCGTTA-ATGG
* * *
14181902 CT-ATC-TGGTGCTTCCCGTTAATTG
1 CTCTTCAT-GAGCTTCCCGTTAATGG
* ** *
14181926 CTTTTCA-GAGCTAACCGTTAATTG
1 CTCTTCATGAGCTTCCCGTTAATGG
*
14181950 CTCTT--TGGAGCTACCCGTTAA-GG
1 CTCTTCAT-GAGCTTCCCGTTAATGG
14181973 CTC
1 CTC
14181976 ATTGTGAGCT
Statistics
Matches: 115, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
23 17 0.15
24 42 0.37
25 25 0.22
26 27 0.23
27 4 0.03
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (25 bp):
CTCTTCATGAGCTTCCCGTTAATGG
Found at i:14181984 original size:24 final size:24
Alignment explanation
Indices: 14181933--14181985 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
14181923 TTGCTTTTCA
* *
14181933 GAGCTAACCGTTAATTGCTCTTTG
1 GAGCTAACCGTTAATGGCTCATTG
*
14181957 GAGCTACCCGTTAA-GGCTCATTG
1 GAGCTAACCGTTAATGGCTCATTG
14181980 TGAGCT
1 -GAGCT
14181986 TCTAGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (24 bp):
GAGCTAACCGTTAATGGCTCATTG
Found at i:14183226 original size:13 final size:13
Alignment explanation
Indices: 14183202--14183240 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14183192 GAGTGTGTCA
14183202 CTGGCTCACACGGC
1 CTGGC-CACACGGC
14183216 CTGGCCACACGGC
1 CTGGCCACACGGC
* *
14183229 TTGACCACACGG
1 CTGGCCACACGG
14183241 GCGTGTGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.18, C:0.41, G:0.28, T:0.13
Consensus pattern (13 bp):
CTGGCCACACGGC
Found at i:14188236 original size:25 final size:25
Alignment explanation
Indices: 14188202--14188252 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
14188192 ATATATAGTT
*
14188202 ATAAGCTATGAAAATGGAGGAGAAA
1 ATAAGCTATGAAAATGGAAGAGAAA
*
14188227 ATAAGGTATGAAAATGGAAGAGAAA
1 ATAAGCTATGAAAATGGAAGAGAAA
14188252 A
1 A
14188253 CTATCTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.27, T:0.16
Consensus pattern (25 bp):
ATAAGCTATGAAAATGGAAGAGAAA
Found at i:14192814 original size:38 final size:38
Alignment explanation
Indices: 14192772--14192859 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
14192762 ATCTAACCAA
*
14192772 ACACACCATATAGGACCTTGAAAGACCCATCCATCCCT
1 ACACACCACATAGGACCTTGAAAGACCCATCCATCCCT
* *
14192810 ACACACCACGTAGGACCTTGAAAGACCCATCCATCCTT
1 ACACACCACATAGGACCTTGAAAGACCCATCCATCCCT
14192848 ACACACCACATA
1 ACACACCACATA
14192860 TGTAGACTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.35, C:0.38, G:0.10, T:0.17
Consensus pattern (38 bp):
ACACACCACATAGGACCTTGAAAGACCCATCCATCCCT
Found at i:14202007 original size:2 final size:2
Alignment explanation
Indices: 14202000--14202036 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14201990 TAGCTCACAA
14202000 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14202037 AGAACTAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:14203487 original size:52 final size:52
Alignment explanation
Indices: 14203422--14203577 Score: 276
Period size: 52 Copynumber: 3.0 Consensus size: 52
14203412 TAATTGCCTT
* *
14203422 TATATACTCACCCTCGAAATTGATAAATGCTAAATTGCTTATTTTTTAGAAA
1 TATATACTCACCCTCCAAATTGATAAATACTAAATTGCTTATTTTTTAGAAA
*
14203474 TATATACTGACCCTCCAAATTGATAAATACTAAATTGCTTATTTTTTAGAAA
1 TATATACTCACCCTCCAAATTGATAAATACTAAATTGCTTATTTTTTAGAAA
*
14203526 TATATACTCACCCTCCAAATTGATAAATACTAAATTACTTATTTTTTAGAAA
1 TATATACTCACCCTCCAAATTGATAAATACTAAATTGCTTATTTTTTAGAAA
14203578 CACAGAATTT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 99 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (52 bp):
TATATACTCACCCTCCAAATTGATAAATACTAAATTGCTTATTTTTTAGAAA
Found at i:14204009 original size:18 final size:18
Alignment explanation
Indices: 14203988--14204023 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14203978 TTATTTTAAA
* *
14203988 AAAATTAATTTTAATTAT
1 AAAATGAATTATAATTAT
14204006 AAAATGAATTATAATTAT
1 AAAATGAATTATAATTAT
14204024 TTATTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AAAATGAATTATAATTAT
Found at i:14204317 original size:14 final size:15
Alignment explanation
Indices: 14204284--14204319 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14204274 TATATCCATA
14204284 AAAAATGAATATTGT
1 AAAAATGAATATTGT
* *
14204299 AAAAATGGATGTTGT
1 AAAAATGAATATTGT
14204314 AAAAAT
1 AAAAAT
14204320 ATTGATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:14205250 original size:8 final size:8
Alignment explanation
Indices: 14205237--14205261 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14205227 AAAACGAGAG
14205237 CGCTACAT
1 CGCTACAT
14205245 CGCTACAT
1 CGCTACAT
14205253 CGCTACAT
1 CGCTACAT
14205261 C
1 C
14205262 AAAAAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CGCTACAT
Found at i:14208190 original size:18 final size:18
Alignment explanation
Indices: 14208142--14208195 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
14208132 CAATATAAAT
14208142 ATATAAAAT-TTATTTTAA
1 ATATAAAATATTATTTT-A
**
14208160 ATTATAATTTATTATTTTA
1 A-TATAAAATATTATTTTA
14208179 ATATAAAATATT-TTTTA
1 ATATAAAATATTATTTTA
14208196 TTGAAATGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.17
18 10 0.33
19 8 0.27
20 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATAAAATATTATTTTA
Found at i:14208304 original size:21 final size:18
Alignment explanation
Indices: 14208280--14208327 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
14208270 ATTATTATTC
14208280 ATATTAATTTCTTCTAAATTT
1 ATATTAATTTC-TCT-AA-TT
*
14208301 ATATTATTTTCTCTAATT
1 ATATTAATTTCTCTAATT
14208319 ATA-TAATTT
1 ATATTAATTT
14208328 TAAGTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 2 0.08
20 3 0.12
21 10 0.40
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTAATTTCTCTAATT
Found at i:14208320 original size:18 final size:21
Alignment explanation
Indices: 14208280--14208328 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
14208270 ATTATTATTC
*
14208280 ATATTAATTTCTTCTAAATTT
1 ATATTATTTTCTTCTAAATTT
14208301 ATATTATTTTC-TCT-AA-TT
1 ATATTATTTTCTTCTAAATTT
*
14208319 ATATAATTTT
1 ATATTATTTT
14208329 AAGTAATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 3 0.12
21 10 0.38
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTATTTTCTTCTAAATTT
Found at i:14215672 original size:21 final size:22
Alignment explanation
Indices: 14215648--14215693 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
14215638 TGTAGAAAAG
*
14215648 AAAAAATAAGA-AAAAGGAAAC
1 AAAAAATAAAATAAAAGGAAAC
*
14215669 -AAAATTAAAATAAAAGGAAAC
1 AAAAAATAAAATAAAAGGAAAC
14215690 AAAA
1 AAAA
14215694 GGAAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.76, C:0.04, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAAAATAAAATAAAAGGAAAC
Found at i:14215699 original size:21 final size:22
Alignment explanation
Indices: 14215659--14215711 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
14215649 AAAAATAAGA
**
14215659 AAAAGGAAACAAAATTAAAAT-
1 AAAAGGAAACAAAAGGAAAATG
14215680 AAAAGGAAACAAAAGGAAAATG
1 AAAAGGAAACAAAAGGAAAATG
14215702 AAAATGGAAA
1 AAAA-GGAAA
14215712 AAAGTATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.68
22 4 0.14
23 5 0.18
ACGTcount: A:0.70, C:0.04, G:0.17, T:0.09
Consensus pattern (22 bp):
AAAAGGAAACAAAAGGAAAATG
Found at i:14215761 original size:11 final size:11
Alignment explanation
Indices: 14215747--14215775 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14215737 AAATGTGAAG
14215747 AAAGAAAATAA
1 AAAGAAAATAA
14215758 AAAGAAAATAA
1 AAAGAAAATAA
14215769 AAA-AAAA
1 AAAGAAAA
14215776 GAAAGGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:14215762 original size:15 final size:16
Alignment explanation
Indices: 14215744--14215780 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14215734 AGAAAATGTG
*
14215744 AAGAAAGA-AAATAAA
1 AAGAAAGATAAAAAAA
14215759 AAGAAA-ATAAAAAAA
1 AAGAAAGATAAAAAAA
14215774 AAGAAAG
1 AAGAAAG
14215781 GAAAGGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (16 bp):
AAGAAAGATAAAAAAA
Found at i:14227778 original size:10 final size:10
Alignment explanation
Indices: 14227763--14227791 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
14227753 ATTAGGTCTG
14227763 TTCTTCCTCT
1 TTCTTCCTCT
14227773 TTCTTCCTCT
1 TTCTTCCTCT
14227783 TTCTTCCTC
1 TTCTTCCTC
14227792 CGACTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (10 bp):
TTCTTCCTCT
Found at i:14231790 original size:14 final size:14
Alignment explanation
Indices: 14231771--14231810 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
14231761 TTGATTGCCA
14231771 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
14231785 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
14231799 GGAAAATGTTTT
1 GTAAAATGTTTT
14231811 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:14231819 original size:20 final size:20
Alignment explanation
Indices: 14231794--14231833 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14231784 CGTAAAATGA
*
14231794 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
14231814 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14231834 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14231823 original size:34 final size:35
Alignment explanation
Indices: 14231779--14231845 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14231769 CAGTAAAATG
*
14231779 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
14231813 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
14231846 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:14234033 original size:18 final size:18
Alignment explanation
Indices: 14234012--14234062 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
14234002 AGGAATGAAG
14234012 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
14234030 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
14234048 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
14234063 CCTGAGAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:14240415 original size:57 final size:56
Alignment explanation
Indices: 14240348--14240524 Score: 212
Period size: 57 Copynumber: 3.1 Consensus size: 56
14240338 ATAAATTTAT
* ** * *
14240348 TTTTCTTTTTCATTTTATAGAAAACCATATTCATTTCCAAATAATTTCATTTCTCTA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCATTTCTCCA
* * *
14240405 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTCCG
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTC-ATTTCTCCA
*
14240462 TTTCCATTTTCATTTTGGAGAAAGA-CATAATCATTTCCAAATGATTTCCCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAA-ACCATAATCATTTCCAAAT-ATTT--CATTTCTCCA
14240521 TTTT
1 TTTT
14240525 TCACTAATTC
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
56 4 0.04
57 82 0.80
58 4 0.04
59 11 0.11
60 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (56 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCATTTCTCCA
Found at i:14241833 original size:45 final size:45
Alignment explanation
Indices: 14241782--14241884 Score: 188
Period size: 45 Copynumber: 2.3 Consensus size: 45
14241772 TGTTGGGACA
14241782 TTGAATAGGTACACAAATAATCCAAGTAGTTTACATTGGCAAGCT
1 TTGAATAGGTACACAAATAATCCAAGTAGTTTACATTGGCAAGCT
*
14241827 TTGAATAGGTACACAAGTAATCCAAGTAGTTTACATTGGCAAGCT
1 TTGAATAGGTACACAAATAATCCAAGTAGTTTACATTGGCAAGCT
14241872 TTGAATAGAGTAC
1 TTGAATAG-GTAC
14241885 TTAGGTACTA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
45 52 0.93
46 4 0.07
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (45 bp):
TTGAATAGGTACACAAATAATCCAAGTAGTTTACATTGGCAAGCT
Found at i:14243404 original size:22 final size:23
Alignment explanation
Indices: 14243369--14243415 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14243359 AAGCTAAGCA
*
14243369 TTATTTAAACAAATACT-CATAT
1 TTATTTAAACAAATAATACATAT
**
14243391 TTATTTAATTAAATAATACATAT
1 TTATTTAAACAAATAATACATAT
14243414 TT
1 TT
14243416 TTATACTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATTTAAACAAATAATACATAT
Found at i:14243819 original size:15 final size:15
Alignment explanation
Indices: 14243799--14243852 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
14243789 ATACTACAAA
14243799 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
14243814 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
14243831 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
14243848 ATATT
1 ATATT
14243853 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:14244106 original size:18 final size:19
Alignment explanation
Indices: 14244083--14244123 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14244073 TAAATTTTAA
14244083 AAAC-TTAAAAATTTGGAG
1 AAACTTTAAAAATTTGGAG
*
14244101 AAACTTTAAAACTTTGGAG
1 AAACTTTAAAAATTTGGAG
14244120 AAAC
1 AAAC
14244124 GAGTTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (19 bp):
AAACTTTAAAAATTTGGAG
Found at i:14252273 original size:101 final size:101
Alignment explanation
Indices: 14252098--14252389 Score: 530
Period size: 101 Copynumber: 2.9 Consensus size: 101
14252088 CAGGCATTAA
14252098 TCAATTTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACCCAAACAAGGTG
1 TCAATTTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACCCAAACAAGGTG
*
14252163 CATAAAGAGATTGAAAAGAAAACAAGGTTACATTCT
66 CATAAAGAGATTGAAAAGAAAACAAGGTTACATCCT
14252199 TCAATTTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACCCAAACAAGGTG
1 TCAATTTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACCCAAACAAGGTG
*
14252264 CATAAAGAGATTGAAAAGAAAACATGGTTACATCCT
66 CATAAAGAGATTGAAAAGAAAACAAGGTTACATCCT
* *
14252300 TCAAATTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACTCAAACAAGGTG
1 TCAATTTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACCCAAACAAGGTG
* *
14252365 CGTGAAGAGATTGAAAAGAAAACAA
66 CATAAAGAGATTGAAAAGAAAACAA
14252390 AGCTACCACC
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 184 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (101 bp):
TCAATTTACTAACAATGAGGACATAACAATTTTACAGGTTACATTCTCAAAACCCAAACAAGGTG
CATAAAGAGATTGAAAAGAAAACAAGGTTACATCCT
Found at i:14268924 original size:36 final size:36
Alignment explanation
Indices: 14268870--14269060 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
14268860 GCTAAGCTAC
* *
14268870 CACTTATCAATTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
14268906 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * * *
14268948 CTACCACTTATCACTTTGTCTCTTGATCAGATAAATGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
14268988 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
14269024 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
14269060 C
1 C
14269061 TAAAGCTACC
Statistics
Matches: 134, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
36 96 0.72
38 3 0.02
40 3 0.02
42 3 0.02
44 1 0.01
46 28 0.21
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:14268966 original size:82 final size:81
Alignment explanation
Indices: 14268827--14269024 Score: 310
Period size: 82 Copynumber: 2.5 Consensus size: 81
14268817 TACGTATGAT
* *
14268827 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAATTTGTCACTT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAATTTGTCACTT
*
14268890 GATCAGATAAGTATAG
66 GATCAGATAAATATAG
* *
14268906 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAATTTGTCACT
*
14268971 TGATCAGATAAATGTAG
65 TGATCAGATAAATATAG
*
14268988 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGC
14269025 ACTTATCACT
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
79 9 0.08
80 5 0.05
81 20 0.18
82 75 0.69
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (81 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAATTTGTCACTT
GATCAGATAAATATAG
Found at i:14269014 original size:118 final size:118
Alignment explanation
Indices: 14268870--14269096 Score: 427
Period size: 118 Copynumber: 1.9 Consensus size: 118
14268860 GCTAAGCTAC
14268870 CACTTATCAATTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCAATTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
*
14268935 AGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAATGTAG
66 AGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAGATAAATGTAG
* *
14268988 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCAATTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
14269053 AGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAGA
66 AGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAGA
14269097 AGTACTCAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 106 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (118 bp):
CACTTATCAATTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAGATAAATGTAG
Found at i:14281717 original size:26 final size:27
Alignment explanation
Indices: 14281678--14281739 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
14281668 ACACATTTTT
* *
14281678 AAAAT-TTTT-AAAAATAGAAAAT-GA
1 AAAATATTTTAAAAAATAAAAAATAAA
14281702 AAAATATTTTATAAAAATAAAAAATAAA
1 AAAATATTTTA-AAAAATAAAAAATAAA
14281730 AAAATATTTT
1 AAAATATTTT
14281740 TGAAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 5 0.16
25 4 0.12
27 12 0.38
28 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAATATTTTAAAAAATAAAAAATAAA
Found at i:14281725 original size:27 final size:27
Alignment explanation
Indices: 14281681--14281746 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
14281671 CATTTTTAAA
* *
14281681 ATTTTTAAAAATAGAAAAT-GAAAAAT
1 ATTTTTAAAAATAAAAAATAAAAAAAT
14281707 ATTTTATAAAAATAAAAAATAAAAAAAT
1 ATTTT-TAAAAATAAAAAATAAAAAAAT
14281735 ATTTTTGAAAAA
1 ATTTTT-AAAAA
14281747 CAAATGAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.14
27 14 0.40
28 16 0.46
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (27 bp):
ATTTTTAAAAATAAAAAATAAAAAAAT
Found at i:14282999 original size:41 final size:41
Alignment explanation
Indices: 14282945--14283069 Score: 200
Period size: 40 Copynumber: 3.1 Consensus size: 41
14282935 CATTTTGTAA
*
14282945 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAT
*
14282986 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAT
*
14283026 TTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTT-AAT
1 TTTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTTAAAT
14283067 TTT
1 TTT
14283070 AAAAATAAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
40 37 0.47
41 35 0.45
42 6 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAT
Found at i:14283020 original size:40 final size:40
Alignment explanation
Indices: 14282945--14283069 Score: 196
Period size: 41 Copynumber: 3.1 Consensus size: 40
14282935 CATTTTGTAA
*
14282945 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAAAT
*
14282986 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAT
* *
14283026 TTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTAAAT
14283067 TTT
1 TTT
14283070 AAAAATAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 37 0.47
41 41 0.53
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAT
Found at i:14283061 original size:13 final size:11
Alignment explanation
Indices: 14282953--14283054 Score: 53
Period size: 11 Copynumber: 9.9 Consensus size: 11
14282943 AATTTTTTAA
*
14282953 TTTTAAAATAC
1 TTTTAAAATAT
14282964 TTTTAAAATACTT
1 TTTTAAAATA--T
*
14282977 TTTTTAAAT-T
1 TTTTAAAATAT
*
14282987 TTTT----TAA
1 TTTTAAAATAT
14282994 TTTTAAAATAT
1 TTTTAAAATAT
14283005 TTTTAAAATACT
1 TTTTAAAATA-T
*
14283017 TTTT-TAAT-T
1 TTTTAAAATAT
* *
14283026 TTTT---TTAA
1 TTTTAAAATAT
14283034 TTTTAAAATAT
1 TTTTAAAATAT
14283045 TTTTAAAATA
1 TTTTAAAATA
14283055 AATTTTTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
6 1 0.01
7 5 0.07
8 4 0.06
9 5 0.07
10 5 0.07
11 37 0.53
12 5 0.07
13 8 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14296901 original size:123 final size:123
Alignment explanation
Indices: 14296702--14297028 Score: 530
Period size: 123 Copynumber: 2.7 Consensus size: 123
14296692 GGTCAAGTAA
*
14296702 TATAAAATCGCTTCTACCAGGAAGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGC
1 TATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGC
*
14296767 GATTTTGCTACAGTAGGTCATGTAAGAAAATAAATTTTTTGACATTTCTGAGCAAATAG
66 GATTTTGCTACAGTAGGTCATGTAAG-AAATAAATTTTTTGACATTTCTGAGCAAAAAG
* *
14296826 TATAAAATCACTTCTACCA-GATGCTGTTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGC
1 TATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGC
* * ** *
14296890 TATTTTGCTACAGTAGGTCATTTAAGAAATATTTTTTTTGACGTTTCTGAGCAAAAAG
66 GATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTGACATTTCTGAGCAAAAAG
* * *
14296948 TATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCTTCGTGGACCC
1 TATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGC
14297013 GATTTTGCTACAGTAG
66 GATTTTGCTACAGTAG
14297029 CAAGTTTGGG
Statistics
Matches: 187, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
122 46 0.25
123 123 0.66
124 18 0.10
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (123 bp):
TATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGC
GATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTGACATTTCTGAGCAAAAAG
Found at i:14299542 original size:28 final size:28
Alignment explanation
Indices: 14299502--14299558 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
14299492 GACGGAGTTT
14299502 GACAGACCGCACCAAGGTGTTGTTGGCG
1 GACAGACCGCACCAAGGTGTTGTTGGCG
*
14299530 GACAGACTGCACCAAGGTGTTGTTGGCG
1 GACAGACCGCACCAAGGTGTTGTTGGCG
14299558 G
1 G
14299559 GCAATATCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (28 bp):
GACAGACCGCACCAAGGTGTTGTTGGCG
Found at i:14300094 original size:24 final size:24
Alignment explanation
Indices: 14300061--14300384 Score: 262
Period size: 24 Copynumber: 12.9 Consensus size: 24
14300051 CATTATGTAA
*
14300061 AATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
* *
14300085 AATTAAGTTAAGGTTATGGTTAGGGTTT
1 AATTAAGTTAGGGTTAGGGTT----TTT
* *
14300113 AGGGTTTAGGTTAGGGTTAGGGTTTTT
1 A---ATTAAGTTAGGGTTAGGGTTTTT
*
14300140 AATTAAGTTAAGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
14300164 AATTAAGTTAGGGTTAGGGTTTTTAATT
1 AATTAAGTTAGGGTTAGGG--TTT--TT
14300192 AAGTTAAGGTTAGGGTTAGGGTTTTT
1 AA-TTAA-GTTAGGGTTAGGGTTTTT
* *
14300218 AATTAAGTTAGGGTTAAGGTTAGGGTT
1 AATTAAGTTAGGGTTAGGGTT---TTT
* ** * *
14300245 --TTAAGGTT---TTTAAACTGTTATC
1 AATTAA-GTTAGGGTT--AGGGTTTTT
** *
14300267 GGTTAGGGTTAGGGTTAGGGTTTTT
1 AATTA-AGTTAGGGTTAGGGTTTTT
*
14300292 AATTAAGTTAGGGTTATGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
14300316 AATTAAGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
*
14300340 AATTAAGTTAGGGTTTGGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
*
14300364 AATTAAGTTAAGGTTAGGGTT
1 AATTAAGTTAGGGTTAGGGTT
14300385 AGGGTTAGGG
Statistics
Matches: 243, Mismatches: 32, Indels: 50
0.75 0.10 0.15
Matches are distributed among these distances:
22 1 0.00
23 2 0.01
24 158 0.65
25 20 0.08
26 10 0.04
27 8 0.03
28 11 0.05
29 4 0.02
30 13 0.05
31 16 0.07
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (24 bp):
AATTAAGTTAGGGTTAGGGTTTTT
Found at i:14300106 original size:30 final size:30
Alignment explanation
Indices: 14300065--14300661 Score: 400
Period size: 30 Copynumber: 20.1 Consensus size: 30
14300055 ATGTAAAATT
14300065 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
* ** *
14300095 AGGTTATGGTTAGGG--TTT-A--GGGTTT
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300120 AGGTTAGGGTTAGGGTTTTTAATTAAGTT-
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300149 A----A-GGTTAGGGTTTTTAATTAAG---
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300171 ---TTAGGGTTAGGGTTTTTAATTAAGTTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300198 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
* *
14300228 GGGTTAAGGTTAGGG-TTTTAAGGTTTTTAAACTGTTA
1 AGGTTAGGGTTAGGGTTTTTAA-----TT-AA--GTTA
*
14300265 TCGGTTAGGGTTAGGGTTAGGGTTT--TTAA-TTA
1 -AGGTTAGGGTTAGGGTT----TTTAATTAAGTTA
*
14300297 A-GTTAGGGTTATGG--TTT--TTAA-TTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300321 A-GTTAGGGTTAGGGTTTTTAATTAAGTTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
* *
14300350 GGGTTTGGGTT----TTTAATTAAGTTAAGGTTA
1 AGGTTAGGGTTAGGGTTT--TTAA-TTAA-GTTA
*
14300380 GGGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
* *
14300410 GGGTTAGGGTTAGGGTTAGGTTT-GTTAA-TTA
1 AGGTTAGGGTTAGGGTT---TTTAATTAAGTTA
*
14300441 A-GTTAGGGTTTGGGTTTTTAATTAAGTTAA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTT-A
14300471 GGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 ----A-GGTTAGGGTTAGGGTTTTTAATTAAGTTA
* *
14300506 GGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
14300536 GGGTTAGGATTAGAGTTAGGGTTTTTAATTAAGTTA
1 -----AGG-TTAGGGTTAGGGTTTTTAATTAAGTTA
14300572 AGGTTAGGGTTAGGG-TTTTAAGGTTTTTAA-TTA
1 AGGTTAGGGTTAGGGTTTTTAA-----TTAAGTTA
14300605 A-GTTAGGGTTAGGG--TTT--TTAA-TTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300629 A-GTTAGGGTTAGGGTTTTTAATTAAGTTA
1 AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
14300658 AGGT
1 AGGT
14300662 NNNNNNNNNN
Statistics
Matches: 468, Mismatches: 28, Indels: 142
0.73 0.04 0.22
Matches are distributed among these distances:
23 1 0.00
24 84 0.18
25 18 0.04
26 9 0.02
27 7 0.01
28 20 0.04
29 26 0.06
30 168 0.36
31 13 0.03
32 24 0.05
33 7 0.01
34 10 0.02
35 7 0.01
36 53 0.11
37 4 0.01
38 13 0.03
39 1 0.00
43 3 0.01
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (30 bp):
AGGTTAGGGTTAGGGTTTTTAATTAAGTTA
Found at i:14300124 original size:19 final size:18
Alignment explanation
Indices: 14300063--14300137 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
14300053 TTATGTAAAA
14300063 TTAGGTTAGGGTTAGGGTTT
1 TTAGGTTAGGGTTAGGG--T
* * *
14300083 TTA-ATTA-AGTTAAGG-
1 TTAGGTTAGGGTTAGGGT
14300098 TTATGGTTAGGGTTTAGGGT
1 TTA-GGTTAGGG-TTAGGGT
14300118 TTAGGTTAGGGTTAGGGT
1 TTAGGTTAGGGTTAGGGT
14300136 TT
1 TT
14300138 TTAATTAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
15 3 0.07
17 3 0.07
18 16 0.36
19 16 0.36
20 6 0.14
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (18 bp):
TTAGGTTAGGGTTAGGGT
Found at i:14300197 original size:18 final size:20
Alignment explanation
Indices: 14300142--14300178 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
14300132 GGGTTTTTAA
14300142 TTAAGTTAAGGTTAGGGTTT
1 TTAAGTTAAGGTTAGGGTTT
14300162 TTAA-TTAA-GTTAGGGTT
1 TTAAGTTAAGGTTAGGGTT
14300179 AGGGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (20 bp):
TTAAGTTAAGGTTAGGGTTT
Found at i:14300234 original size:36 final size:36
Alignment explanation
Indices: 14300170--14300620 Score: 359
Period size: 36 Copynumber: 13.1 Consensus size: 36
14300160 TTTTAATTAA
14300170 GTTAGGGTTAGGGTTTTTAATTAAGTTA-----A-G
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
*
14300200 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
* * *
14300236 GTTAGGGTTTTAAGGTTTTTAA--ACTGTTATCGGTTAGG
1 GTTAGGG--TTAGGGTTTTTAATTA-AGTTA-GGGTTAGG
14300274 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTATGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTA-GG
14300311 TTTTTAATTAAGTTAGGGTTAGGGTTTTTAATT-A---A--GTTAGG
1 -----------GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
*
14300352 G-T----TT-GGGTTTTTAATTAAGTTAAGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
14300382 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
14300418 GTTAGGGTTA-GGTTTGTTAATT-A---A--GTTAGG
1 GTTAGGGTTAGGGTTT-TTAATTAAGTTAGGGTTAGG
*
14300448 G-T----TT-GGGTTTTTAATTAAGTTAAGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
14300478 GTTAGGGTTAGGGTTTTTAATT-A---A--GTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
*
14300508 GTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
* * *
14300544 ATTAGAGTTAGGGTTTTTAATTAAGTTAAGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
*
14300580 GTTAGGGTTTTAAGGTTTTTAATTAAGTTAGGGTTAGG
1 GTTAGGG--TTAGGGTTTTTAATTAAGTTAGGGTTAGG
14300618 GTT
1 GTT
14300621 TTTAATTAAG
Statistics
Matches: 347, Mismatches: 16, Indels: 108
0.74 0.03 0.23
Matches are distributed among these distances:
24 18 0.05
25 11 0.03
28 2 0.01
29 2 0.01
30 78 0.22
31 3 0.01
32 2 0.01
34 1 0.00
35 12 0.03
36 122 0.35
37 10 0.03
38 56 0.16
41 2 0.01
42 4 0.01
44 1 0.00
47 1 0.00
48 22 0.06
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (36 bp):
GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
Found at i:14300379 original size:6 final size:6
Alignment explanation
Indices: 14300370--14300429 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
14300360 TTTTAATTAA
* *** * *
14300370 GTTAAG GTTAGG GTTAGG GTTAGG GTTTTTA ATTA-A GTTAGG GTTAGG
1 GTTAGG GTTAGG GTTAGG GTTAGG G-TTAGG GTTAGG GTTAGG GTTAGG
14300418 GTTAGG GTTAGG
1 GTTAGG GTTAGG
14300430 TTTGTTAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 4 0.09
6 38 0.86
7 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (6 bp):
GTTAGG
Found at i:14300438 original size:96 final size:95
Alignment explanation
Indices: 14300322--14300620 Score: 424
Period size: 96 Copynumber: 3.0 Consensus size: 95
14300312 TTTTAATTAA
14300322 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTGGGTTTTTAATTAAGTTAAGGTTAGGGTTAG
1 GTTAGGGTTA-GGTTTTTAATTAAGTTAGGGTTTGGGTTTTTAATTAAGTTAAGGTTAGGGTTAG
14300387 GGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
65 GGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
14300418 GTTAGGGTTAGGTTTGTTAATTAAGTTAGGGTTTGGGTTTTTAATTAAGTTAAGGTTAGGGTTAG
1 GTTAGGGTTAGGTTT-TTAATTAAGTTAGGGTTTGGGTTTTTAATTAAGTTAAGGTTAGGGTTAG
14300483 GGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
65 GGTTAGGGTTTTTAATTAAGTTAGGGTTAGG
* *
14300514 GTTAGGGTT---TTTAATTAAATTAGGGTTAGGATTAGAGTTAGGGTTTTTAATTAAGTTAAGGT
1 GTTAGGGTTAGGTTT--TT-AATTA-----A-G-TTAGGGTTTGGGTTTTTAATTAAGTTAAGGT
*
14300576 TAGGGTTAGGGTTTTAAGGTTTTTAATTAAGTTAGGGTTAGG
56 TAGGGTTAGGG--TTAGGGTTTTTAATTAAGTTAGGGTTAGG
14300618 GTT
1 GTT
14300621 TTTAATTAAG
Statistics
Matches: 187, Mismatches: 4, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
93 3 0.02
94 2 0.01
95 10 0.05
96 99 0.53
100 1 0.01
101 1 0.01
102 40 0.21
104 31 0.17
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (95 bp):
GTTAGGGTTAGGTTTTTAATTAAGTTAGGGTTTGGGTTTTTAATTAAGTTAAGGTTAGGGTTAGG
GTTAGGGTTTTTAATTAAGTTAGGGTTAGG
Found at i:14300479 original size:24 final size:25
Alignment explanation
Indices: 14300418--14300480 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
14300408 TAGGGTTAGG
14300418 GTTAGGGTTA-GGTTTGTTAATTAA
1 GTTAGGGTTAGGGTTTGTTAATTAA
*
14300442 GTTAGGGTTTGGGTTT-TTAATTAA
1 GTTAGGGTTAGGGTTTGTTAATTAA
*
14300466 GTTAAGGTTAGGGTT
1 GTTAGGGTTAGGGTT
14300481 AGGGTTAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (25 bp):
GTTAGGGTTAGGGTTTGTTAATTAA
Found at i:14300570 original size:18 final size:18
Alignment explanation
Indices: 14300514--14300576 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
14300504 TAGGGTTAGG
14300514 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* ***
14300532 ATTAGGG-TTAGGATTAGA
1 GTTAGGGTTTTTAATTA-A
14300550 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
14300568 GTTAAGGTT
1 GTTAGGGTT
14300577 AGGGTTAGGG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
17 6 0.18
18 22 0.65
19 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:14300625 original size:24 final size:24
Alignment explanation
Indices: 14300593--14300657 Score: 130
Period size: 24 Copynumber: 2.7 Consensus size: 24
14300583 AGGGTTTTAA
14300593 GGTTTTTAATTAAGTTAGGGTTAG
1 GGTTTTTAATTAAGTTAGGGTTAG
14300617 GGTTTTTAATTAAGTTAGGGTTAG
1 GGTTTTTAATTAAGTTAGGGTTAG
14300641 GGTTTTTAATTAAGTTA
1 GGTTTTTAATTAAGTTA
14300658 AGGTNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (24 bp):
GGTTTTTAATTAAGTTAGGGTTAG
Found at i:14302986 original size:1 final size:1
Alignment explanation
Indices: 14302980--14303018 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
14302970 CAAGGTGCCC
*
14302980 TTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14303019 AGGCAAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:14314769 original size:29 final size:29
Alignment explanation
Indices: 14314734--14314803 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
14314724 AGTAAAGAAT
*
14314734 AGCCTTTGTGGCACAAATCTGGAAAGGAA
1 AGCCTTTGTGGCACAAATCTGGAAACGAA
* * *
14314763 AGCCTTTGTGGCACAATTCTGGACACGAT
1 AGCCTTTGTGGCACAAATCTGGAAACGAA
*
14314792 TGCCTTTGTGGC
1 AGCCTTTGTGGC
14314804 GAGTATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (29 bp):
AGCCTTTGTGGCACAAATCTGGAAACGAA
Done.