Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 128 of 196
Found at i:38389070 original size:42 final size:42
Alignment explanation
Indices: 38389016--38389256 Score: 299
Period size: 42 Copynumber: 5.7 Consensus size: 42
38389006 GGTTTTAGAA
* *
38389016 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGTGCTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* * *
38389058 ACAAACTG-CGCTAAAGACCAAGACCTTTAACAGCGCTTTCCC
1 ACAAAC-GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* *
38389100 ACAAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
*
38389142 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTAT--
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT-TCC
* * * **
38389183 ACAAACGTCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTTAA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC--TTTTCC
*
38389227 ACAAACGCCGCTAAAGACCATGACCTTTAG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAG
38389257 ACAACCTAAT
Statistics
Matches: 176, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
41 33 0.19
42 110 0.62
43 4 0.02
44 29 0.16
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
Found at i:38391739 original size:23 final size:23
Alignment explanation
Indices: 38391695--38391740 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
38391685 TCAGCTCTCT
*
38391695 ATATATAAACAAGAAGGAAAGAA
1 ATATATAAACAAGAAGAAAAGAA
38391718 ATATATAAA-AAGAAGAAGAAGAA
1 ATATATAAACAAGAAGAA-AAGAA
38391741 GAAGAAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.13
Consensus pattern (23 bp):
ATATATAAACAAGAAGAAAAGAA
Found at i:38392691 original size:134 final size:134
Alignment explanation
Indices: 38392462--38392714 Score: 463
Period size: 134 Copynumber: 1.9 Consensus size: 134
38392452 CTAAAATAGA
38392462 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAATGTTTTTTTTAAATCTA
1 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAA--TTTTTTTTAAATCTA
*
38392527 ATATTTAAATATATCAATTGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAA
64 ATATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAA
38392592 CTATTT
129 CTATTT
38392598 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTTATTTATTTATCAA-TTTTTTTAAATCTAA
1 TAGTTGCCTATTCATATCAATATGTTAC-TTTTTTTATTTATTTATCAATTTTTTTTAAATCTAA
38392662 TATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATT
65 TATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATT
38392715 TTTAAATATA
Statistics
Matches: 115, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
134 67 0.58
136 28 0.24
137 20 0.17
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.50
Consensus pattern (134 bp):
TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAATTTTTTTTAAATCTAAT
ATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAACT
ATTT
Found at i:38394006 original size:40 final size:39
Alignment explanation
Indices: 38393952--38394064 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
38393942 AGATTTTATT
38393952 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTC-AGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGG-CAAGC
* * * *
38393991 ATTAGTGGTGCCTTTTTCAGAAACGCCGGTAAAGGCAAGAGC
1 ATTAGCGGCG-CTTTTTCAAAAACGCCGCTAAAGGC-A-AGC
*
38394033 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
38394065 TGCCCCAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 9 0.15
40 22 0.36
41 19 0.31
42 11 0.18
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCAAGC
Found at i:38394137 original size:39 final size:39
Alignment explanation
Indices: 38394087--38394221 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 39
38394077 TCCGCTTAGG
*
38394087 TTTTTTGCGGCGCTTTT-TGAAAAAT-GCCGCTAATGCTTA
1 TTTTTGGCGGCG-TTTTCT-AAAAATCGCCGCTAATGCTTA
* *
38394126 TTTTTGGCGGCGTTTTCTAAAATTCGCCGCTAATGCTCGA
1 TTTTTGGCGGCGTTTTCTAAAAATCGCCGCTAATGCT-TA
** * * * *
38394166 GCTTTAGCTGCGTTTT-TGTAAAAGCGCCGCTAATGCTTGA
1 TTTTTGGCGGCGTTTTCT-AAAAATCGCCGCTAATGCTT-A
* *
38394206 TTTTTAGTGGCGTTTT
1 TTTTTGGCGGCGTTTT
38394222 TAATTCAAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
38 9 0.12
39 25 0.33
40 42 0.55
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (39 bp):
TTTTTGGCGGCGTTTTCTAAAAATCGCCGCTAATGCTTA
Found at i:38394212 original size:40 final size:41
Alignment explanation
Indices: 38394112--38394222 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 41
38394102 TTTGAAAAAT
* * *
38394112 GCCGCTAATGCTT-ATTTTTGGCGGCG-TTTTCTAAAATTC
1 GCCGCTAATGCTTGATTTTTAGCTGCGTTTTTCTAAAATGC
* ** *
38394151 GCCGCTAATGCTCGAGCTTTAGCTGCGTTTTTGTAAAA-GC
1 GCCGCTAATGCTTGATTTTTAGCTGCGTTTTTCTAAAATGC
38394191 GCCGCTAATGCTTGATTTTTAG-TGGCGTTTTT
1 GCCGCTAATGCTTGATTTTTAGCT-GCGTTTTT
38394223 AATTCAAACA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
39 13 0.22
40 37 0.63
41 9 0.15
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (41 bp):
GCCGCTAATGCTTGATTTTTAGCTGCGTTTTTCTAAAATGC
Found at i:38398438 original size:26 final size:26
Alignment explanation
Indices: 38398389--38398438 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
38398379 ATTATATTGA
*
38398389 CCTACAATTTGATTAACGGTCAACGT
1 CCTACAATTTGATTAACGGGCAACGT
*
38398415 CCTACAATTTGATTAATGGGCAAC
1 CCTACAATTTGATTAACGGGCAAC
38398439 TCACGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (26 bp):
CCTACAATTTGATTAACGGGCAACGT
Found at i:38402267 original size:7 final size:7
Alignment explanation
Indices: 38402257--38402282 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38402247 AATAATCAAT
38402257 AATTTAA
1 AATTTAA
38402264 AATTTAA
1 AATTTAA
38402271 AATTTAA
1 AATTTAA
38402278 AATTT
1 AATTT
38402283 TCTCAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:38419429 original size:24 final size:23
Alignment explanation
Indices: 38419394--38419466 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
38419384 TCCGAGTTTT
38419394 ATAAC-GGAAAGCTCATAAGAGCC
1 ATAACAGG-AAGCTCATAAGAGCC
**
38419417 ATAATCAGGAAGCTCATGCGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
*
38419441 AATAACAGGTAGCTC-TGAAGAGCC
1 -ATAACAGGAAGCTCAT-AAGAGCC
38419465 AT
1 AT
38419467 TAATGGAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 7 0.17
24 28 0.68
25 6 0.15
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:38424699 original size:50 final size:50
Alignment explanation
Indices: 38424548--38424730 Score: 224
Period size: 50 Copynumber: 3.7 Consensus size: 50
38424538 CGCAACTTTT
* * * * *
38424548 GGGAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCACCGCCA
1 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
*
38424598 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAATTGCACTGTCA
1 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
* * *
38424648 GGGAAGTAAAAATT-GCCTTTGTGGCTTTAATCTTTTTAACTGCAGTATCA
1 GGGAAGT-AAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
* * * **
38424698 GGAAAGCAAGATTCACCGATGTGGCTTTAATCT
1 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCT
38424731 GCTCCACTGC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 5 0.04
50 105 0.91
51 5 0.04
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
Found at i:38424910 original size:44 final size:44
Alignment explanation
Indices: 38424862--38425133 Score: 219
Period size: 44 Copynumber: 6.0 Consensus size: 44
38424852 ACTTTAACCC
38424862 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTT
* * * * *
38424906 GCTCCATTGTAATCTCAGGGGGATAAGATTTCTGGTTTCAATATGAT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAAT-T--T
* * *** * **
38424953 GCGATCTACTCTACTGTAA-CTTCAGAGAGATA--ATATCCTTTATTTTAATCC
1 --G--CT-C-C-ACTGTAATC-TCAGGGAGATAGGAT-TAC-TGGCTTCAATTT
* *
38425004 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTT
38425048 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGG-TTCAATTT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACT-GGCTTCAATTT
** * *
38425092 GCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAAT
38425134 CTGATGCGAT
Statistics
Matches: 183, Mismatches: 27, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 136 0.74
45 6 0.03
46 3 0.02
47 3 0.02
49 2 0.01
51 2 0.01
52 3 0.02
53 4 0.02
54 22 0.12
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTT
Found at i:38425063 original size:142 final size:142
Alignment explanation
Indices: 38424807--38425077 Score: 443
Period size: 142 Copynumber: 1.9 Consensus size: 142
38424797 AGATAAGACT
*
38424807 TGATGCGATCTACTCAACTGTAATTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
1 TGATGCGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
* * * *
38424872 AATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCATTGTAATCTCAGGGGGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
38424937 CTGGTTTCAATA
131 CTGGTTTCAATA
* * * * *
38424949 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
*
38425014 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAGGATT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
38425078 ACTAGGTTCA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 118 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (142 bp):
TGATGCGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
CTGGTTTCAATA
Found at i:38425141 original size:186 final size:186
Alignment explanation
Indices: 38424862--38425275 Score: 668
Period size: 186 Copynumber: 2.2 Consensus size: 186
38424852 ACTTTAACCC
* *
38424862 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCATTGTAATCTCAGGGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCACTGTAATCTCAGGGA
* *
38424927 GATAAGATTTCTGGTTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAATATCCT
66 GATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
38424992 TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
131 TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
**
38425048 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGG-TTCAATTTGCTCTGCTGTAATCTCAGGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACT-GGCTTCAATTTGCTCCACTGTAATCTCAGGG
* * *
38425112 AGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGATATAAGATCC
65 AGATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC
* *
38425177 TTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATTATTAGCTTCAATCT
130 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
* * * * *
38425234 GCTCCGCTATAATCTCTGGGAGATAAGATTTCTGGCTTCAAT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAAT
38425276 CTGATGCGAT
Statistics
Matches: 210, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
185 2 0.01
186 206 0.98
187 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (186 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCACTGTAATCTCAGGGA
GATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
Found at i:38425155 original size:142 final size:141
Alignment explanation
Indices: 38425043--38425420 Score: 621
Period size: 142 Copynumber: 2.7 Consensus size: 141
38425033 TACTAGCTTC
* * * *
38425043 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGGTTCAATTTGCTCTGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
* *
38425108 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGATATAAG
66 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
38425173 ATCCTTTATTTT
131 AT-CTTTATTTT
* * *
38425185 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTATTAGCTTCAATCTGCTCCGCTATAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
*
38425250 TGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
66 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
38425315 ATCCTTTATTTT
131 AT-CTTTATTTT
*
38425327 AATCTGCTCCACTTTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
* *
38425392 AGGGAGATAAAATTTCTGTCTTCAATCTG
66 AGGGAGATAAGATTTCTGGCTTCAATCTG
38425421 CTTCTTTACA
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 219 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (141 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCTTTATTTT
Found at i:38425238 original size:44 final size:43
Alignment explanation
Indices: 38425185--38425422 Score: 133
Period size: 44 Copynumber: 5.2 Consensus size: 43
38425175 CCTTTATTTT
* * *
38425185 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTATTAGCTTC
1 AATCTGCTCCACTATAATCTTAGGGAGATAAGATT-TTAGCTTC
* *
38425229 AATCTGCTCCGCTATAATCTCT-GGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTATAATCT-TAGGGAGATAAGATTT-TAGCTTC
* * * *
38425273 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTA-TTTT
1 AATC---T--G--CT-C-C-ACTATAATCTT-AGGGAGATAAGAT--TTTAGCTTC
* * * *
38425327 AATCTGCTCCACTTTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTATAATCTTAGGGAGATAAGATT-TTAGCTTC
* * *
38425371 AATCTGCTCCGCTATAATCTCAGGGAGATAAAATTTCT-GTCTTC
1 AATCTGCTCCACTATAATCTTAGGGAGATAAGATTT-TAG-CTTC
38425415 AATCTGCT
1 AATCTGCT
38425423 TCTTTACACT
Statistics
Matches: 150, Mismatches: 23, Indels: 42
0.70 0.11 0.20
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 102 0.68
45 4 0.03
46 1 0.01
47 3 0.02
49 2 0.01
51 3 0.02
52 2 0.01
53 3 0.02
54 22 0.15
55 1 0.01
56 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (43 bp):
AATCTGCTCCACTATAATCTTAGGGAGATAAGATTTTAGCTTC
Found at i:38433968 original size:19 final size:19
Alignment explanation
Indices: 38433942--38433987 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38433932 TTAATAATCT
* *
38433942 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
38433960 TGTAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
38433980 TGAATGCA
1 TGAATGCA
38433988 AAAAGAAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:38441311 original size:24 final size:24
Alignment explanation
Indices: 38441284--38441334 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
38441274 TACTTGGGTA
* *
38441284 ATTTTTCGTCAATTCATCCTTTAC
1 ATTTTCCGTCAATTCATCATTTAC
38441308 ATTTTCCGTCAATTCATCATTTAC
1 ATTTTCCGTCAATTCATCATTTAC
38441332 ATT
1 ATT
38441335 CGTAGTGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTTCCGTCAATTCATCATTTAC
Found at i:38441630 original size:101 final size:101
Alignment explanation
Indices: 38441328--38441633 Score: 432
Period size: 101 Copynumber: 3.0 Consensus size: 101
38441318 AATTCATCAT
* * * * *
38441328 TTACATTCGTAGTGCCATAACCCAGTTATGGTATTATCATCAAAATGCCATAGCGCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCCAGCTATGGT
* * * *
38441393 CTTACATATAAACACAGCCACGGTCCAGCCATGGTT
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
38441429 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATTAGAATGCCACAGCCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCCAGCTATGGT
*
38441494 CTCACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
38441530 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCTCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCCAGCTATGGT
* *
38441595 CTTACATTTAAACATTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
38441631 TTA
1 TTA
38441634 TCCGTCAATT
Statistics
Matches: 180, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 180 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:38451951 original size:9 final size:9
Alignment explanation
Indices: 38451933--38452026 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
38451923 GTAGTGATTC
38451933 AATTCGGTT
1 AATTCGGTT
*
38451942 AATTCAGTT
1 AATTCGGTT
*
38451951 AATTCGGGT
1 AATTCGGTT
38451960 AATTCGGTT
1 AATTCGGTT
*
38451969 AATTCGGGT
1 AATTCGGTT
*
38451978 AATCCGGTT
1 AATTCGGTT
38451987 AATTCGGTT
1 AATTCGGTT
*
38451996 AATTCGGGT
1 AATTCGGTT
*
38452005 AATCCGGTT
1 AATTCGGTT
*
38452014 AAGTCGGTT
1 AATTCGGTT
38452023 AATT
1 AATT
38452027 TTTAACCAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:38451965 original size:27 final size:27
Alignment explanation
Indices: 38451933--38452026 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
38451923 GTAGTGATTC
* * * *
38451933 AATTCGGTTAATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCGGGTAATCCGGTT
38451960 AATTCGGTTAATTCGGGTAATCCGGTT
1 AATTCGGTTAATTCGGGTAATCCGGTT
38451987 AATTCGGTTAATTCGGGTAATCCGGTT
1 AATTCGGTTAATTCGGGTAATCCGGTT
*
38452014 AAGTCGGTTAATT
1 AATTCGGTTAATT
38452027 TTTAACCAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATCCGGTT
Found at i:38452204 original size:12 final size:12
Alignment explanation
Indices: 38452187--38452211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38452177 TGTTATTTCG
38452187 GGTCGGTTAACC
1 GGTCGGTTAACC
38452199 GGTCGGTTAACC
1 GGTCGGTTAACC
38452211 G
1 G
38452212 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:38459871 original size:68 final size:69
Alignment explanation
Indices: 38459762--38459900 Score: 271
Period size: 68 Copynumber: 2.0 Consensus size: 69
38459752 TTTCCTTTTC
38459762 TACCCATTTTACATTCTCTTCAAACTCCCAACTCCCATATGAGA-TTTTTTCCAATAAATCTCAA
1 TACCCATTTTACATTCTCTTCAAACTCCCAACTCCCATATGAGATTTTTTTCCAATAAATCTCAA
38459826 AGAT
66 AGAT
38459830 TACCCATTTTACATTCTCTTCAAACTCCCAACTCCCATATGAGATTTTTTTCCAATAAATCTCAA
1 TACCCATTTTACATTCTCTTCAAACTCCCAACTCCCATATGAGATTTTTTTCCAATAAATCTCAA
38459895 AGAT
66 AGAT
38459899 TA
1 TA
38459901 TCATGTGAGT
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 44 0.63
69 26 0.37
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (69 bp):
TACCCATTTTACATTCTCTTCAAACTCCCAACTCCCATATGAGATTTTTTTCCAATAAATCTCAA
AGAT
Found at i:38462991 original size:58 final size:57
Alignment explanation
Indices: 38462895--38463059 Score: 192
Period size: 58 Copynumber: 2.9 Consensus size: 57
38462885 TACAGTATTA
* * *
38462895 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAAAT
* * *
38462953 TATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAAAT
1 TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
* *
38463010 TATTTATTATTTTTATTAAATTATTTTTAATAATAA-TATTATTAAAATTT
1 TATATATTA-TTTTATTAAATTATATTTAATAATAATTA-TATTAAAATTT
38463060 AATAACAATA
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
56 3 0.03
57 35 0.38
58 55 0.59
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
Found at i:38463245 original size:16 final size:16
Alignment explanation
Indices: 38463224--38463262 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
38463214 TGAATTATTT
38463224 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
38463240 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
38463256 ATTACAG
1 ATTACAG
38463263 TGAACTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:38465624 original size:19 final size:19
Alignment explanation
Indices: 38465600--38465710 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
38465590 AATCATATCC
38465600 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
38465619 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
38465638 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
38465657 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
38465676 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
38465695 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
38465711 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38465647 original size:38 final size:38
Alignment explanation
Indices: 38465600--38465703 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
38465590 AATCATATCC
38465600 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
38465638 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
38465676 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
38465704 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:38466260 original size:132 final size:132
Alignment explanation
Indices: 38466023--38467063 Score: 1613
Period size: 132 Copynumber: 7.9 Consensus size: 132
38466013 GTAATATCAA
* * * *
38466023 GGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGC
1 GGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGC
* *
38466085 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACTACTA
63 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
38466150 CTTAG
128 CTTAG
* * * *
38466155 GGAGATAAGATCTGAAATCTTAAATCTACTCCACTGTTGTACAAGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
** * *
38466220 AATGTACTCCACTATAACCACAAAGAGGTAAAATCCGCCATCTTCGATCTGCTCCA-AACTACTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
38466284 AG
131 AG
** * * *
38466286 GGAGATAAGATCTTCAATCTTCAATCTATTCTACTATTGTCCAGGGAAGTAGAATTCCTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* *
38466351 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
38466416 AG
131 AG
* *
38466418 GGAGATAAGACCTGAAATATTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* * * * *
38466483 AATGTACTCCAGTGTAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTTCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
38466548 AG
131 AG
* * *
38466550 GGACATAAGACCTGAAATCTTCAATCTATTCCACTGTTTTCCAGGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* *
38466615 AATGTACTCCACTATAACCATAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
38466680 AG
131 AG
* * *
38466682 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGAAAGTAGAAATACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* *
38466747 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
38466812 AG
131 AG
* * *
38466814 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAAAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* * *
38466879 AATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCTATCTTCGATCTGCTCTACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
38466944 AG
131 AG
*
38466946 GGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
*
38467011 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
38467064 TCGCTGTCAA
Statistics
Matches: 828, Mismatches: 77, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
131 118 0.14
132 705 0.85
133 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
AG
Found at i:38466860 original size:44 final size:44
Alignment explanation
Indices: 38466680--38466992 Score: 120
Period size: 44 Copynumber: 7.1 Consensus size: 44
38466670 ACTACTGCTT
* * **
38466680 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTC
1 AGGGAGATAAAATCTGAAATCTTCAATCTATTCCACTATTGCCC
* * * * * **
38466724 A-GGAAAGTAGAAATACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TA-AAAT-CTGAAATCTTCAATCTATTCCACTATTGCC-C
* * ** * * * **
38466768 AGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACTACTGCTT
1 AGGGAGATAAAATCTGAAATCTTCAATCTATTCCACTATTGCCC
*
38466812 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCC
1 AGGGAGATAAAATCTGAAATCTTCAATCTATTCCACTATTGCCC
* * * **
38466856 AGGGA-AGTAAAATTACTG---GCTTCAATGTACTCCACTATAACCAC
1 AGGGAGA-TAAAA-T-CTGAAATCTTCAATCTATTCCACTATTGCC-C
* * * ** * ** * * **
38466900 AAGGAGGTAAAATCCGCTATCTTCGATCTGCTCTACTACTGCTT
1 AGGGAGATAAAATCTGAAATCTTCAATCTATTCCACTATTGCCC
* * * *
38466944 AGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTGTCC
1 AGGGAGATAAAATCTGAAATCTTCAATCTATTCCACTATTGCCC
38466988 AGGGA
1 AGGGA
38466993 AGTAGAATTA
Statistics
Matches: 185, Mismatches: 68, Indels: 32
0.65 0.24 0.11
Matches are distributed among these distances:
42 4 0.02
43 46 0.25
44 93 0.50
45 36 0.19
46 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAAATCTGAAATCTTCAATCTATTCCACTATTGCCC
Found at i:38470700 original size:24 final size:24
Alignment explanation
Indices: 38470672--38470717 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38470662 ATCATTTTTT
* *
38470672 GCTACTCATTCATTTGCTTTTGAA
1 GCTACTCATGCATTTCCTTTTGAA
*
38470696 GCTACTCCTGCATTTCCTTTTG
1 GCTACTCATGCATTTCCTTTTG
38470718 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (24 bp):
GCTACTCATGCATTTCCTTTTGAA
Found at i:38473605 original size:22 final size:21
Alignment explanation
Indices: 38473570--38473665 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
38473560 AAAGGGTATC
* *
38473570 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
38473591 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
38473614 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
38473633 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
38473652 TGCATATCATATCT
1 TACAAATCATATCT
38473666 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:38473613 original size:23 final size:22
Alignment explanation
Indices: 38473570--38473627 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
38473560 AAAGGGTATC
* *
38473570 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
38473591 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
38473614 TGCATATCATATCT
1 TACAAATCATATCT
38473628 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:38473630 original size:19 final size:19
Alignment explanation
Indices: 38473606--38473678 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
38473596 AATCATATCT
38473606 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
38473625 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
38473644 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
38473663 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
38473679 CCTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38478017 original size:16 final size:16
Alignment explanation
Indices: 38477998--38478032 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38477988 TTATGTTATG
*
38477998 TTATGTTATTTATTGT
1 TTATATTATTTATTGT
*
38478014 TTATATTATTTATTTT
1 TTATATTATTTATTGT
38478030 TTA
1 TTA
38478033 CTTCTACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTATATTATTTATTGT
Found at i:38481281 original size:27 final size:27
Alignment explanation
Indices: 38481251--38481315 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
38481241 CCTATCTAGA
38481251 AGGCGCCAATGGTGGTGCCTATTTGGG
1 AGGCGCCAATGGTGGTGCCTATTTGGG
38481278 AGGCGCCAATGGTGGTGCCTATTTGGG
1 AGGCGCCAATGGTGGTGCCTATTTGGG
38481305 AGGCGCCAATG
1 AGGCGCCAATG
38481316 TGATTTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (27 bp):
AGGCGCCAATGGTGGTGCCTATTTGGG
Found at i:38481404 original size:22 final size:22
Alignment explanation
Indices: 38481376--38481417 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
38481366 AACAGAAGAA
38481376 AGAAGAAAAGAATGAAGGAAGC
1 AGAAGAAAAGAATGAAGGAAGC
38481398 AGAAGAAAAGAATGAAGGAA
1 AGAAGAAAAGAATGAAGGAA
38481418 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (22 bp):
AGAAGAAAAGAATGAAGGAAGC
Found at i:38481421 original size:18 final size:21
Alignment explanation
Indices: 38481376--38481427 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
38481366 AACAGAAGAA
38481376 AGAAGAAAAGAATGAAGGAAGC
1 AGAAGAAAAGAATGAAGGAA-C
*
38481398 AGAAGAAAAGAATGAAGGAAA
1 AGAAGAAAAGAATGAAGGAAC
*
38481419 AGAAAAAAA
1 AGAAGAAAA
38481428 ATTAGGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (21 bp):
AGAAGAAAAGAATGAAGGAAC
Found at i:38481428 original size:22 final size:22
Alignment explanation
Indices: 38481370--38481427 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
38481360 TACAGAAACA
*
38481370 GAAGAAAGAAGAAAAGAATGAAG
1 GAAG-AAGAAAAAAAGAATGAAG
* *
38481393 GAAGCAGAAGAAAAGAATGAAG
1 GAAGAAGAAAAAAAGAATGAAG
38481415 GAA-AAGAAAAAAA
1 GAAGAAGAAAAAAA
38481428 ATTAGGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 8 0.25
22 20 0.62
23 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.03
Consensus pattern (22 bp):
GAAGAAGAAAAAAAGAATGAAG
Found at i:38482205 original size:21 final size:21
Alignment explanation
Indices: 38482153--38482208 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
38482143 CACCATTGTT
38482153 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
38482174 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
*
38482196 T-TAATTTCACCGC
1 TCTAATCTCACCGC
38482209 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:38485394 original size:6 final size:6
Alignment explanation
Indices: 38485375--38485427 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
38485365 AGAATGTAGT
* *
38485375 TCTGCC TCTCGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
38485423 TCTGG
1 TCTGG
38485428 TGCATGATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.00, C:0.36, G:0.30, T:0.34
Consensus pattern (6 bp):
TCTGGC
Found at i:38487079 original size:16 final size:15
Alignment explanation
Indices: 38487048--38487089 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
38487038 ACAAAATCAA
*
38487048 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
38487063 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
38487079 ATAAAAATTAA
1 ATAAAAGTTAA
38487090 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:38487254 original size:38 final size:38
Alignment explanation
Indices: 38487200--38487273 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
38487190 TAAAAAACCC
38487200 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
*
38487238 AAACTTTTAATGAAATGATTTTTAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAA
38487274 ACTTTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
Found at i:38487455 original size:8 final size:8
Alignment explanation
Indices: 38487442--38487504 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
38487432 TATACAAAAA
38487442 ATTACAAT
1 ATTACAAT
38487450 ATTACAAT
1 ATTACAAT
* * *
38487458 ATATCCCAC
1 AT-TACAAT
38487467 ATTACAAT
1 ATTACAAT
*
38487475 ATTCATACAAA
1 A-T--TACAAT
38487486 ATTACAAT
1 ATTACAAT
38487494 ATTACAAT
1 ATTACAAT
38487502 ATT
1 ATT
38487505 CATACAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 30 0.70
9 6 0.14
10 1 0.02
11 6 0.14
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (8 bp):
ATTACAAT
Found at i:38487491 original size:19 final size:19
Alignment explanation
Indices: 38487467--38487756 Score: 114
Period size: 19 Copynumber: 15.2 Consensus size: 19
38487457 TATATCCCAC
38487467 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
38487486 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
38487502 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
38487516 ATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
38487535 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
38487551 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
38487565 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCAT-----AC-A-AA
38487591 TATTACAATATTCATACAAA
1 -ATTACAATATTCATACAAA
38487611 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
38487632 ATTACTA-ATCCA-AAATTATA
1 ATTACAATATTCATACA--A-A
* *
38487652 AATACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
38487675 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
38487694 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
*
38487713 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
38487734 ATTTAAAATATTCATACAAA
1 A-TTACAATATTCATACAAA
38487754 ATT
1 ATT
38487757 CTAATCTAAA
Statistics
Matches: 208, Mismatches: 26, Indels: 74
0.68 0.08 0.24
Matches are distributed among these distances:
14 18 0.09
15 3 0.01
16 22 0.11
17 1 0.00
18 6 0.03
19 74 0.36
20 21 0.10
21 15 0.07
22 18 0.09
23 7 0.03
24 2 0.01
25 6 0.03
26 2 0.01
27 13 0.06
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:38487544 original size:49 final size:49
Alignment explanation
Indices: 38487471--38487630 Score: 272
Period size: 49 Copynumber: 3.3 Consensus size: 49
38487461 TCCCACATTA
*
38487471 CAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
38487520 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
* *
38487569 CAATATTCATACAAAACTATAATATTACAATATTCATAC---AAAATTA
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
38487615 CAATATTCATACAAAA
1 CAATATTCATACAAAA
38487631 AATTACTAAT
Statistics
Matches: 108, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
46 22 0.20
49 86 0.80
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
Found at i:38487558 original size:76 final size:75
Alignment explanation
Indices: 38487467--38487621 Score: 201
Period size: 76 Copynumber: 2.0 Consensus size: 75
38487457 TATATCCCAC
*
38487467 ATTACAATATTCATACAAAATTACAATATTACAATATTCATAC-AAA-A-AA-ATTGCAATATTC
1 ATTACAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAACATAATATTACAATATTC
*
38487528 ATACAAAATTATAAT
61 ATACAAAATTACAAT
*
38487543 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAC-ATAATATTACAATATTCATAC
38487608 AAAATTACAAT
65 AAAATTACAAT
38487619 ATT
1 ATT
38487622 CATACAAAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
71 15 0.21
72 5 0.07
73 1 0.01
74 1 0.01
75 5 0.07
76 44 0.62
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (75 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACATAATATTACAATATTCATACA
AAATTACAAT
Found at i:38487574 original size:30 final size:27
Alignment explanation
Indices: 38487467--38487621 Score: 195
Period size: 27 Copynumber: 6.1 Consensus size: 27
38487457 TATATCCCAC
38487467 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
38487494 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
38487516 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
38487543 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* * *
38487565 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTACAAT
38487592 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
38487619 ATT
1 ATT
38487622 CATACAAAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 20
0.81 0.04 0.14
Matches are distributed among these distances:
22 30 0.27
23 10 0.09
24 2 0.02
25 2 0.02
26 10 0.09
27 58 0.52
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:38487730 original size:49 final size:48
Alignment explanation
Indices: 38487414--38487731 Score: 169
Period size: 49 Copynumber: 6.5 Consensus size: 48
38487404 CAAATTAATT
**
38487414 ATAAAATAATTACAATATT-ATACAAA-AAATTACAATATTACAATA-T-
1 ATAAAA-AATTACAATATTCATACAAATTCA-TACAATATTACAATATTC
*** * *
38487460 ATCCCACATTACAATATTCATACAAAAT--TACAATATTACAATATTC
1 ATAAAAAATTACAATATTCATACAAATTCATACAATATTACAATATTC
*
38487506 ATACAAAAAAATTGCAATATTCATACAAAATT-AT--AATATTACAATATTC
1 AT---AAAAAATTACAATATTCATAC-AAATTCATACAATATTACAATATTC
* * *
38487555 ATACAAAAAAATTGCAATATTCATACAAA-AC-TATAATATTACAATATTC
1 AT---AAAAAATTACAATATTCATACAAATTCATACAATATTACAATATTC
* * * * *
38487604 ATACAAAATTACAATATTCATACAAAAAATTACTAATCCAAAATTATAA-ATAC
1 ATAAAAAATTACAATATTCATAC---AAATT-C--ATACAATATTACAATATTC
** * * * *
38487657 A-AATTTAATTATAA-AATAATTACAATATTCATACAACATTACAATATTC
1 ATAA-AAAATTACAATATTCA-TACAA-ATTCATACAATATTACAATATTC
*
38487706 ATAAAAAATTATAATATTCATACAAA
1 ATAAAAAATTACAATATTCATACAAA
38487732 AAATTTAAAA
Statistics
Matches: 212, Mismatches: 34, Indels: 50
0.72 0.11 0.17
Matches are distributed among these distances:
44 15 0.07
45 12 0.06
46 31 0.15
47 1 0.00
48 15 0.07
49 94 0.44
50 12 0.06
51 5 0.02
52 4 0.02
53 14 0.07
54 9 0.04
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (48 bp):
ATAAAAAATTACAATATTCATACAAATTCATACAATATTACAATATTC
Found at i:38487799 original size:121 final size:128
Alignment explanation
Indices: 38487543--38487790 Score: 280
Period size: 129 Copynumber: 2.0 Consensus size: 128
38487533 AAATTATAAT
* *
38487543 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 ATTACAATATTCATAC--AAAAATTACAATATTCATAAAAAACTATAATATTACAATA-TCATAC
* * * * *
38487608 AAAATTACAATATTCATACAAAAAATTACTAATCCAAAATTATAAATACAAATTTAATTATAAAA
63 AAAATTAAAATATTCATAC-AAAAATTACTAATCCAAAACTATAAACACAAATATAATAATAAAA
38487673 TA
127 TA
* *
38487675 ATTACAATATTCATAC-AACATTACAATATTCATAAAAAATTATAATATT-C-ATA-CA-A-AAA
1 ATTACAATATTCATACAAAAATTACAATATTCATAAAAAACTATAATATTACAATATCATACAAA
*
38487734 ATTTAAAATATTCATAC-AAAATT-CTAAT-CTAAACTATAAACACTAAATATAGATAAT
66 A-TTAAAATATTCATACAAAAATTACTAATCCAAAACTATAAACAC-AAATATA-ATAAT
38487791 TTATAATTAA
Statistics
Matches: 103, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
120 12 0.12
121 11 0.11
122 10 0.10
123 4 0.04
124 15 0.15
125 2 0.02
127 3 0.03
128 1 0.01
129 29 0.28
132 16 0.16
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (128 bp):
ATTACAATATTCATACAAAAATTACAATATTCATAAAAAACTATAATATTACAATATCATACAAA
ATTAAAATATTCATACAAAAATTACTAATCCAAAACTATAAACACAAATATAATAATAAAATA
Found at i:38487930 original size:3 final size:3
Alignment explanation
Indices: 38487924--38487970 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
38487914 TTTTTTCTCT
* *
38487924 TTC TTC TTC TTC TTC TTC TCC TTC -TC TTC TTC TCC TTC -TC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
38487970 T
1 T
38487971 CCTTTCTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:38487982 original size:14 final size:14
Alignment explanation
Indices: 38487924--38487979 Score: 85
Period size: 14 Copynumber: 3.9 Consensus size: 14
38487914 TTTTTTCTCT
*
38487924 TTCTTCTTCTTCTTC
1 TTCTCCTTC-TCTTC
38487939 TTCTCCTTCTCTTC
1 TTCTCCTTCTCTTC
38487953 TTCTCCTTCTCTTC
1 TTCTCCTTCTCTTC
38487967 TTCTCCTTTCTCT
1 TTCTCC-TTCTCT
38487980 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
14 25 0.64
15 14 0.36
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TTCTCCTTCTCTTC
Found at i:38490967 original size:10 final size:10
Alignment explanation
Indices: 38490952--38491022 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 10
38490942 AGATCGAGGC
*
38490952 ATAAAAAGAA
1 ATAAAAAAAA
38490962 ATAAAAAAAA
1 ATAAAAAAAA
38490972 ATAAAATAAAA
1 ATAAAA-AAAA
38490983 ACTAAAACTAAAA
1 A-TAAAA--AAAA
* *
38490996 TTAAAGAAAA
1 ATAAAAAAAA
* *
38491006 CTAAATAAGAA
1 ATAAA-AAAAA
38491017 ATAAAA
1 ATAAAA
38491023 TTCAACACCG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 24 0.48
11 12 0.24
12 9 0.18
13 5 0.10
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (10 bp):
ATAAAAAAAA
Found at i:38492308 original size:17 final size:17
Alignment explanation
Indices: 38492255--38492300 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
38492245 CATAATATGC
* * *
38492255 TATTTTTTTTATAACAT
1 TATTTTTATAATAATAT
38492272 TATTTTTATAATAATAT
1 TATTTTTATAATAATAT
38492289 TATTTTTATAAT
1 TATTTTTATAAT
38492301 TTTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTATAATAATAT
Found at i:38496593 original size:29 final size:29
Alignment explanation
Indices: 38496525--38496594 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
38496515 AATTAATAGT
*
38496525 AAAATTCAATCAAAAAATATAATTTTAGTGAC
1 AAAATTCAATCAAAAAAAATAA---TAGTGAC
38496557 AAAATTCAATCAAACAAAAATAA-AGTGAC
1 AAAATTCAATCAAA-AAAAATAATAGTGAC
38496586 AAAATTCAA
1 AAAATTCAA
38496595 GATAAAGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 15 0.42
32 14 0.39
33 7 0.19
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (29 bp):
AAAATTCAATCAAAAAAAATAATAGTGAC
Found at i:38500574 original size:6 final size:7
Alignment explanation
Indices: 38500556--38500594 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
38500546 AATTCTTATT
38500556 ATTTTTA
1 ATTTTTA
38500563 ATTTTTA
1 ATTTTTA
38500570 ATTTTTA
1 ATTTTTA
38500577 ATTTTTAA
1 ATTTTT-A
*
38500585 AATTTTA
1 ATTTTTA
38500592 ATT
1 ATT
38500595 ATTTTTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:38500582 original size:15 final size:15
Alignment explanation
Indices: 38500556--38500599 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
38500546 AATTCTTATT
38500556 ATTTTTAA-TTTTTA
1 ATTTTTAATTTTTTA
*
38500570 ATTTTTAATTTTTAA
1 ATTTTTAATTTTTTA
*
38500585 AATTTTAATTATTTT
1 ATTTTTAATT-TTTT
38500600 TCAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.32
15 14 0.56
16 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTAATTTTTTA
Found at i:38507752 original size:14 final size:14
Alignment explanation
Indices: 38507733--38507759 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38507723 ATCGTGATAG
38507733 AATCCAAATTCAAA
1 AATCCAAATTCAAA
38507747 AATCCAAATTCAA
1 AATCCAAATTCAA
38507760 GTACTGAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
AATCCAAATTCAAA
Found at i:38511269 original size:4 final size:4
Alignment explanation
Indices: 38511260--38511288 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
38511250 TAGAATGATA
38511260 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
38511289 TTGAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:38513784 original size:21 final size:23
Alignment explanation
Indices: 38513745--38513789 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
38513735 GATTCGAATC
38513745 ATAAATATTTTGATATCC-ATAA
1 ATAAATATTTTGATATCCAATAA
38513767 ATAAA-ATTTTGGAT-TCCAATAA
1 ATAAATATTTT-GATATCCAATAA
38513789 A
1 A
38513790 AATTTTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (23 bp):
ATAAATATTTTGATATCCAATAA
Found at i:38514593 original size:189 final size:190
Alignment explanation
Indices: 38514273--38514657 Score: 693
Period size: 189 Copynumber: 2.0 Consensus size: 190
38514263 CTAAGAAGGG
*
38514273 TATTTGGTTATTTAGGTAAAATGAAGAGAATCGAAACCCAGTAAGTTAGAGCACAATTTCTCAAA
1 TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAGTAAGTTAGAGCACAATTTCTCAAA
* *
38514338 ATTCCAAATATCGAATATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
66 ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
*
38514403 -AAAATGTCATGTCCAGTGAGTTAGGACCCAATATTTTTGAATTCCCGAGAATAAGCTTT
131 AAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
38514462 TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAGTAAGTTAG-GACACAATTTCTCAA
1 TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAGTAAGTTAGAG-CACAATTTCTCAA
*
38514526 AATTCCAAATACCGGACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGA
65 AATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGA
*
38514591 CAAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCTGAGAATAAGCTTT
130 CAAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
38514652 TATTTG
1 TATTTG
38514658 AATCCGTGTG
Statistics
Matches: 188, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
188 1 0.01
189 124 0.66
190 63 0.34
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (190 bp):
TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAGTAAGTTAGAGCACAATTTCTCAAA
ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
AAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
Found at i:38517199 original size:100 final size:100
Alignment explanation
Indices: 38517016--38517522 Score: 538
Period size: 100 Copynumber: 5.1 Consensus size: 100
38517006 GTATTATTTA
* * * * * *
38517016 CTTCAAT-TTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCG-CGACTTCAATCTATTC
1 CTTCAATCTT-TTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAG-CTTCAATCTGTTC
* *
38517079 CACTACACCGCCAGGGAAGTAAGA-TCCACCGTTGTGG
64 CACTGCACCGCCAAGGAAGTAAGACT-CACCGTTGTGG
* * * * *
38517116 CTACAATATTTTTAATTACAATGTCGGGGAAACCAGATCCACCGTCGTAGTTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
* * * *
38517181 CTGCACTGCC-AGAAAAGTAAGA-TCTGCTGTTGTGG
66 CTGCACCGCCAAG-GAAGTAAGACTC-ACCGTTGTGG
** * * *
38517216 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATTAGATTCACCATCGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
* *
38517281 TTGCACCGCTAAGGAAGTAAGACTCACCGTTGTGG
66 CTGCACCGCCAAGGAAGTAAGACTCACCGTTGTGG
* * ** * * *
38517316 CTTCAATCTTTTTAATTGCAATGCCTGGGAAACAAGATCTGCTGTCATAGCTTCAATATGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
*
38517381 CTGCACCGCTAAGGAAGTAAGACTCACCGTTGTGG
66 CTGCACCGCCAAGGAAGTAAGACTCACCGTTGTGG
* * * * *
38517416 CTTCAATCTATTTAACTGCAATATCTGGGAAACAAGATCCACCGTCGTAGCTTCAACCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
* * * * * * *
38517481 CTACATCGCCAGGGAAGCAAGATTCGCCGTAGTGG
66 CTGCACCGCCAAGGAAGTAAGACTCACCGTTGTGG
38517516 CTTCAAT
1 CTTCAAT
38517523 TTGTTCCACT
Statistics
Matches: 339, Mismatches: 62, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
99 2 0.01
100 330 0.97
101 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
CTGCACCGCCAAGGAAGTAAGACTCACCGTTGTGG
Found at i:38517308 original size:50 final size:50
Alignment explanation
Indices: 38517254--38517427 Score: 145
Period size: 50 Copynumber: 3.5 Consensus size: 50
38517244 GAAATTAGAT
*
38517254 TCACCATCGTAGCTTCAATCTATTCCATTGCACCGCTAAGGAAGTAAGAC
1 TCACCGTCGTAGCTTCAATCTATTCCATTGCACCGCTAAGGAAGTAAGAC
* * * ** ** * **
38517304 TCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCT-GGGAAACAAGA-
1 TCACCGTCGTAGCTTCAATCTATTCCATTGCACCG-CTAAGGAAGTAAGAC
* * * * * *
38517353 TCTGCTGTCATAGCTTCAATATGTTCCACTGCACCGCTAAGGAAGTAAGAC
1 TC-ACCGTCGTAGCTTCAATCTATTCCATTGCACCGCTAAGGAAGTAAGAC
* *
38517404 TCACCGTTGTGGCTTCAATCTATT
1 TCACCGTCGTAGCTTCAATCTATT
38517428 TAACTGCAAT
Statistics
Matches: 87, Mismatches: 33, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
49 4 0.05
50 79 0.91
51 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (50 bp):
TCACCGTCGTAGCTTCAATCTATTCCATTGCACCGCTAAGGAAGTAAGAC
Found at i:38519196 original size:8 final size:7
Alignment explanation
Indices: 38519155--38519195 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
38519145 CAATTTTTAC
38519155 TTTTTCCA
1 TTTTT-CA
38519163 TTTTTCA
1 TTTTTCA
38519170 TTTTTCA
1 TTTTTCA
38519177 -TTTTCA
1 TTTTTCA
38519183 TTTTTTCA
1 -TTTTTCA
38519191 TTTTT
1 TTTTT
38519196 TTTCATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 11 0.35
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:38519200 original size:18 final size:18
Alignment explanation
Indices: 38519163--38519216 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
38519153 ACTTTTTCCA
38519163 TTTTTCATTTTTCATTTTCAT
1 TTTTTCA-TTTT--TTTTCAT
38519184 TTTTTCATTTTTTTTCAT
1 TTTTTCATTTTTTTTCAT
**
38519202 TTCATCATTTTTTTT
1 TTTTTCATTTTTTTT
38519217 ACGACTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 20 0.65
20 4 0.13
21 7 0.23
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTCATTTTTTTTCAT
Found at i:38519708 original size:6 final size:6
Alignment explanation
Indices: 38519699--38519740 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
38519689 TTTTTGTTTC
*
38519699 TTTTTG TTTTTTG TTTTTTC TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG -TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTT
38519741 CTTTTCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 21 0.64
7 12 0.36
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:38519720 original size:20 final size:19
Alignment explanation
Indices: 38519695--38519735 Score: 73
Period size: 19 Copynumber: 2.1 Consensus size: 19
38519685 GAGGTTTTTG
38519695 TTTCTTTTTGTTTTTTGTTT
1 TTTCTTTTTG-TTTTTGTTT
38519715 TTTCTTTTTGTTTTTGTTT
1 TTTCTTTTTGTTTTTGTTT
38519734 TT
1 TT
38519736 GTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (19 bp):
TTTCTTTTTGTTTTTGTTT
Found at i:38519722 original size:12 final size:13
Alignment explanation
Indices: 38519699--38519740 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
38519689 TTTTTGTTTC
38519699 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
38519712 TTTTT-TCTTTTTG
1 TTTTTGT-TTTTTG
38519725 TTTTTG-TTTTTG
1 TTTTTGTTTTTTG
38519737 TTTT
1 TTTT
38519741 CTTTTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:38524274 original size:16 final size:15
Alignment explanation
Indices: 38524253--38524287 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38524243 ACCTATAGGC
38524253 ATAATAATAAAATAAT
1 ATAATAAT-AAATAAT
*
38524269 ATAATAATAATTAAT
1 ATAATAATAAATAAT
38524284 ATAA
1 ATAA
38524288 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:38525850 original size:29 final size:30
Alignment explanation
Indices: 38525787--38525859 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
38525777 ACAATTGGAC
38525787 CTAAATTTTAAAATATGAAAAAGAAAGGAA
1 CTAAATTTTAAAATATGAAAAAGAAAGGAA
* * * *
38525817 TTAAAGTTTTAAAA-AT-AAAAATACATGAA
1 CTAAA-TTTTAAAATATGAAAAAGAAAGGAA
*
38525846 CTAAATTTCAAAAT
1 CTAAATTTTAAAAT
38525860 TTTAAAGAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 7 0.20
29 14 0.40
30 6 0.17
31 8 0.23
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (30 bp):
CTAAATTTTAAAATATGAAAAAGAAAGGAA
Found at i:38526067 original size:23 final size:25
Alignment explanation
Indices: 38526015--38526101 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 25
38526005 AGTCAAGACT
38526015 AAAATATTAAAATTTAACAAATAT-
1 AAAATATTAAAATTTAACAAATATA
* * *
38526039 AGAA-ATTAAAATTTACCAACT-TGA
1 AAAATATTAAAATTTAACAAATAT-A
*
38526063 AAAATATTAAAA-TTAA-AACTATA
1 AAAATATTAAAATTTAACAAATATA
*
38526086 ATAGATATTAAAATTT
1 A-AAATATTAAAATTT
38526102 TACTTTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.02
23 21 0.41
24 20 0.39
25 9 0.18
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAATATTAAAATTTAACAAATATA
Found at i:38529435 original size:56 final size:56
Alignment explanation
Indices: 38529349--38529460 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
38529339 CGAACCATAG
* *
38529349 TGACTTTGTTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTGGACTTATAGCA
1 TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
38529405 TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
1 TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
38529461 GTGATGCCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (56 bp):
TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
Found at i:38529571 original size:74 final size:74
Alignment explanation
Indices: 38529450--38529595 Score: 292
Period size: 74 Copynumber: 2.0 Consensus size: 74
38529440 GATAAAATTA
38529450 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
1 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
38529515 GACTTGTTG
66 GACTTGTTG
38529524 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
1 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
38529589 GACTTGT
66 GACTTGT
38529596 CAAGTTTATC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (74 bp):
GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
GACTTGTTG
Found at i:38537056 original size:24 final size:25
Alignment explanation
Indices: 38537029--38537076 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
38537019 AGAGGAAAGT
38537029 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
38537053 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
38537077 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:38538174 original size:21 final size:21
Alignment explanation
Indices: 38538156--38538195 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38538146 TCTAAAACAT
38538156 AAAACCTTAAAC-CTTAAACTC
1 AAAACC-TAAACGCTTAAACTC
*
38538177 AAATCCTAAACGCTTAAAC
1 AAAACCTAAACGCTTAAAC
38538196 CATGAACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAACCTAAACGCTTAAACTC
Found at i:38546591 original size:7 final size:7
Alignment explanation
Indices: 38546579--38546608 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
38546569 TAGTCTTTTT
38546579 TTATTTA
1 TTATTTA
38546586 TTATTTA
1 TTATTTA
38546593 TTATTTA
1 TTATTTA
38546600 TT-TTTA
1 TTATTTA
38546606 TTA
1 TTA
38546609 AATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:38546640 original size:3 final size:3
Alignment explanation
Indices: 38546632--38546679 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
38546622 TGTTATTAAG
* * * * *
38546632 TTA TTA TTA TTG TTG TTG TTA TTA TTA TCA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38546680 CTATATATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:38546654 original size:18 final size:18
Alignment explanation
Indices: 38546631--38546679 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
38546621 TTGTTATTAA
* *
38546631 GTTATTATTATTGTTGTT
1 GTTATTATTATTATTATT
*
38546649 GTTATTATTATCATTATT
1 GTTATTATTATTATTATT
38546667 GTTATTATTATTA
1 GTTATTATTATTA
38546680 CTATATATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (18 bp):
GTTATTATTATTATTATT
Found at i:38546829 original size:17 final size:17
Alignment explanation
Indices: 38546798--38546841 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
38546788 CATAACTTTT
*
38546798 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
38546814 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
38546831 ATATACATTTT
1 ATATACATTTT
38546842 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:38546939 original size:24 final size:24
Alignment explanation
Indices: 38546912--38546961 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38546902 TATACGTATG
38546912 TTTTCTTATAT-TATTCTTCATAAA
1 TTTTCTTATATATATTCTTC-TAAA
* *
38546936 TTTTTTTATATATATTTTTCTAAA
1 TTTTCTTATATATATTCTTCTAAA
38546960 TT
1 TT
38546962 AATTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTCTTATATATATTCTTCTAAA
Found at i:38547034 original size:30 final size:30
Alignment explanation
Indices: 38546998--38547054 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38546988 ATTATTTGTT
*
38546998 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
38547028 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
38547055 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:38552587 original size:24 final size:24
Alignment explanation
Indices: 38552553--38552598 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
38552543 ATGTTCTTGG
*
38552553 AAAGTAGGGGTGAGCATTCAATGA
1 AAAGTAAGGGTGAGCATTCAATGA
38552577 AAAGTAAGGGTGAGCATTCAAT
1 AAAGTAAGGGTGAGCATTCAAT
38552599 CGAATCGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (24 bp):
AAAGTAAGGGTGAGCATTCAATGA
Found at i:38553527 original size:27 final size:27
Alignment explanation
Indices: 38553471--38553527 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
38553461 GATTAGGAAG
* * *
38553471 AAAGTAAAAGTTTTGAAAGAAAAGTGA
1 AAAGTAAAAATTTTGAAAGAAAAATAA
**
38553498 AAAGTAAAAATTTTGAGGGAAAAATAA
1 AAAGTAAAAATTTTGAAAGAAAAATAA
38553525 AAA
1 AAA
38553528 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (27 bp):
AAAGTAAAAATTTTGAAAGAAAAATAA
Found at i:38556801 original size:3 final size:3
Alignment explanation
Indices: 38556788--38556821 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
38556778 TATACCTAGA
*
38556788 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38556822 TGATATACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:38557502 original size:61 final size:61
Alignment explanation
Indices: 38557407--38557527 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
38557397 ACAACTTAAT
*
38557407 TTAAATTTATCTTATAAAAAAGATAAATATTATATATGTATGTAAAAGTTATATACAATAA
1 TTAAATTTATCTTATAAAAAAGATAAATAATATATATGTATGTAAAAGTTATATACAATAA
* * *
38557468 TTAAATTTGTCTTATAAAAAAGATAAATAATATATATGTATGTAAAATTTATATATAATA
1 TTAAATTTATCTTATAAAAAAGATAAATAATATATATGTATGTAAAAGTTATATACAATA
38557528 GAGTTTTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (61 bp):
TTAAATTTATCTTATAAAAAAGATAAATAATATATATGTATGTAAAAGTTATATACAATAA
Found at i:38558560 original size:18 final size:19
Alignment explanation
Indices: 38558527--38558564 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
38558517 TTTATTATAA
38558527 TATATAATATAATAATAGT
1 TATATAATATAATAATAGT
*
38558546 TATAT-ATATATTAATAGT
1 TATATAATATAATAATAGT
38558564 T
1 T
38558565 TGTCATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
TATATAATATAATAATAGT
Found at i:38558604 original size:31 final size:28
Alignment explanation
Indices: 38558539--38558622 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 28
38558529 TATAATATAA
*
38558539 TAATAGTTATATATATATTAATAGTTTG
1 TAATAGTAATATATATATTAATAGTTTG
*
38558567 TCATAGTAATATAGTATATTATTATA-TTATG
1 TAATAGTAATATA-TATATTA--ATAGTT-TG
*
38558598 TAATAGT-ATATCATCTATT-ATAGTT
1 TAATAGTAATAT-ATATATTAATAGTT
38558623 AGCTATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
27 3 0.07
28 13 0.28
29 7 0.15
30 11 0.24
31 12 0.26
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.49
Consensus pattern (28 bp):
TAATAGTAATATATATATTAATAGTTTG
Found at i:38559155 original size:31 final size:30
Alignment explanation
Indices: 38559077--38559159 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
38559067 CCAATACTTT
*
38559077 AATTTGACCCAATTTAGTTCTTGTATTTTTCA
1 AATTTGA--CAATTTAGTCCTTGTATTTTTCA
* ** *
38559109 AATTAGTTAATTTTAGTCCTTGTATTTTTTGA
1 AATTTGACAA-TTTAGTCCTTGTA-TTTTTCA
38559141 AATTTGACAATTTAGTCCT
1 AATTTGACAATTTAGTCCT
38559160 GACCTAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 2 0.05
31 21 0.51
32 18 0.44
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.51
Consensus pattern (30 bp):
AATTTGACAATTTAGTCCTTGTATTTTTCA
Found at i:38559643 original size:22 final size:22
Alignment explanation
Indices: 38559596--38559654 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
38559586 ATATATATTT
* *
38559596 AAACCCAAACCCAGTACCAACA
1 AAACCTAAACCCAATACCAACA
* *
38559618 AAACCTAAACCCAATACCACCC
1 AAACCTAAACCCAATACCAACA
*
38559640 AAACCTAATCCCAAT
1 AAACCTAAACCCAAT
38559655 TTAAAACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.41, G:0.02, T:0.10
Consensus pattern (22 bp):
AAACCTAAACCCAATACCAACA
Found at i:38559750 original size:17 final size:17
Alignment explanation
Indices: 38559724--38559762 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38559714 ATATAAAGAT
38559724 AATT-ATATTAATCAAA
1 AATTAATATTAATCAAA
* *
38559740 ATTTAATATTAATGAAA
1 AATTAATATTAATCAAA
38559757 AATTAA
1 AATTAA
38559763 ACGTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AATTAATATTAATCAAA
Found at i:38559965 original size:17 final size:16
Alignment explanation
Indices: 38559927--38559978 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
38559917 ATTATGTATT
38559927 TTATATATTTTA-ATAA
1 TTAT-TATTTTATATAA
*
38559943 TTATTAATTTTATATAT
1 TTATT-ATTTTATATAA
38559960 TTATTA-TTTATATAA
1 TTATTATTTTATATAA
38559975 TTAT
1 TTAT
38559979 GGTATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 13 0.41
16 11 0.34
17 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTATTTTATATAA
Found at i:38560095 original size:17 final size:17
Alignment explanation
Indices: 38560043--38560095 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
38560033 ATAGTTTAAT
38560043 ATAAAATTTTATTATTA
1 ATAAAATTTTATTATTA
* * **
38560060 AT-TACTTTTGCTATTA
1 ATAAAATTTTATTATTA
*
38560076 ATAAAATTTTATTATAA
1 ATAAAATTTTATTATTA
38560093 ATA
1 ATA
38560096 TGTAATAACT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
ATAAAATTTTATTATTA
Found at i:38570469 original size:29 final size:29
Alignment explanation
Indices: 38570427--38570482 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
38570417 CTAGGTATAC
38570427 GGGCGTGTGTGATTGGGAATTAGTGATAT
1 GGGCGTGTGTGATTGGGAATTAGTGATAT
38570456 GGGCGTGTGTGATTGGGAATTAGTGAT
1 GGGCGTGTGTGATTGGGAATTAGTGAT
38570483 TTAATGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.04, G:0.43, T:0.34
Consensus pattern (29 bp):
GGGCGTGTGTGATTGGGAATTAGTGATAT
Found at i:38570481 original size:14 final size:14
Alignment explanation
Indices: 38570435--38570483 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
38570425 ACGGGCGTGT
38570435 GTGATTGGGAATTA
1 GTGATTGGGAATTA
**
38570449 GTGATATGGGCGTGT-
1 GTGAT-TGGGAAT-TA
38570464 GTGATTGGGAATTA
1 GTGATTGGGAATTA
38570478 GTGATT
1 GTGATT
38570484 TAATGATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 1 0.04
14 16 0.57
15 10 0.36
16 1 0.04
ACGTcount: A:0.22, C:0.02, G:0.39, T:0.37
Consensus pattern (14 bp):
GTGATTGGGAATTA
Found at i:38570497 original size:22 final size:22
Alignment explanation
Indices: 38570465--38570514 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
38570455 TGGGCGTGTG
*
38570465 TGATTGGGAATTAGTGATTTAA
1 TGATTGAGAATTAGTGATTTAA
38570487 TGATTGAGAATTAGTGATTTAA
1 TGATTGAGAATTAGTGATTTAA
*
38570509 CGATTG
1 TGATTG
38570515 GGATCGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.26, T:0.40
Consensus pattern (22 bp):
TGATTGAGAATTAGTGATTTAA
Found at i:38572183 original size:159 final size:160
Alignment explanation
Indices: 38571878--38572190 Score: 531
Period size: 159 Copynumber: 2.0 Consensus size: 160
38571868 CTTAACTGTA
38571878 TTTTTTTCTTTTTCTGACTGAATTCTAAACGATTAAATATTTTCGGTTCGAAGTGACAACTTGAT
1 TTTTTTTCTTTTTCTGACTGAATTCTAAACGATTAAATATTTTCGGTTCGAAGTGACAACTTGAT
* * * *
38571943 TTGTAAAGCTTTTCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTTTAAACTTT
66 TTGTAAAGATTTGCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTTC
* *
38572008 TAGGCCGGGTTTTGGGGCGTTACATTTAGT
131 TAAGCAGGGTTTTGGGGCGTTACATTTAGT
*
38572038 TTTTTTTCTTCTTT-TGACTGAATTCTAAACGATTAAATGTTTTCGGTTCGAAGTGACAACTTGA
1 TTTTTTTCTT-TTTCTGACTGAATTCTAAACGATTAAATATTTTCGGTTCGAAGTGACAACTTGA
*
38572102 TTTGTAAA-ATTTGCCATCGGTCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTT
65 TTTGTAAAGATTTGCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTT
38572166 CTAAGCAGGGTTTTGGGGCGTTACA
130 CTAAGCAGGGTTTTGGGGCGTTACA
38572191 ATCTCAGTCG
Statistics
Matches: 144, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
159 74 0.51
160 67 0.47
161 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (160 bp):
TTTTTTTCTTTTTCTGACTGAATTCTAAACGATTAAATATTTTCGGTTCGAAGTGACAACTTGAT
TTGTAAAGATTTGCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTTC
TAAGCAGGGTTTTGGGGCGTTACATTTAGT
Found at i:38573123 original size:14 final size:14
Alignment explanation
Indices: 38573106--38573135 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38573096 CACATTTTTA
38573106 AACTCAAAAAATTG
1 AACTCAAAAAATTG
38573120 AACTCAAAAAATTG
1 AACTCAAAAAATTG
38573134 AA
1 AA
38573136 GAACTAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (14 bp):
AACTCAAAAAATTG
Found at i:38574734 original size:24 final size:27
Alignment explanation
Indices: 38574704--38574763 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
38574694 TGGTAAGGGT
38574704 TAATTTTAT-TTT-TTAATATTATTTA
1 TAATTTTATATTTATTAATATTATTTA
*
38574729 -AATTTTATAATTTAATTAATATTTTTTA
1 TAATTTTAT-ATTT-ATTAATATTATTTA
38574757 TAATTTT
1 TAATTTT
38574764 TTATAATAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 8 0.28
26 3 0.10
28 12 0.41
29 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TAATTTTATATTTATTAATATTATTTA
Found at i:38574739 original size:19 final size:19
Alignment explanation
Indices: 38574710--38574753 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
38574700 GGGTTAATTT
* *
38574710 TATTTTTTAATATTATTTAA
1 TATTTTATAAT-TTAATTAA
38574730 -ATTTTATAATTTAATTAA
1 TATTTTATAATTTAATTAA
38574748 TATTTT
1 TATTTT
38574754 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTATAATTTAATTAA
Found at i:38576687 original size:2 final size:2
Alignment explanation
Indices: 38576682--38576712 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
38576672 AAACACACAC
38576682 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38576713 TCATTACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38578183 original size:8 final size:8
Alignment explanation
Indices: 38578170--38578198 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
38578160 TATGTATACT
38578170 AAATAATA
1 AAATAATA
38578178 AAATAATA
1 AAATAATA
38578186 AAATAATA
1 AAATAATA
38578194 AAATA
1 AAATA
38578199 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:38579867 original size:92 final size:92
Alignment explanation
Indices: 38579710--38579894 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 92
38579700 CTATTGTGCT
*
38579710 TATTTTAATGTATGACTTAAGTATGTGTTAGATTGTTATTTGCATGAAAATGATGATTGGTAACT
1 TATTTTAATGTATGACTTAAGTATGTGTTAGATTGCTATTTGCATGAAAATGATGATTGGTAACT
38579775 AAATTTATGGTGGTTGGTTGATAGAAG
66 AAATTTATGGTGGTTGGTTGATAGAAG
* *
38579802 TATTTTAATGTATGACTTGAA-TATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAAC
1 TATTTTAATGTATGACTT-AAGTATGTGTTAGATTGCTATTTGCATGAAAATGATGATTGGTAAC
*
38579866 TAAATTTATGGTGGTTGGTTGATGGAAG
65 TAAATTTATGGTGGTTGGTTGATAGAAG
38579894 T
1 T
38579895 GTTGTTTGGT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 86 0.98
93 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (92 bp):
TATTTTAATGTATGACTTAAGTATGTGTTAGATTGCTATTTGCATGAAAATGATGATTGGTAACT
AAATTTATGGTGGTTGGTTGATAGAAG
Found at i:38585586 original size:21 final size:22
Alignment explanation
Indices: 38585560--38585603 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
38585550 ACTCAGGGAA
38585560 TTTTTCCCAAAATCT-CAAAAT
1 TTTTTCCCAAAATCTCCAAAAT
38585581 TTTTTCCCAAAATCTCCAAAAT
1 TTTTTCCCAAAATCTCCAAAAT
38585603 T
1 T
38585604 GGAGACATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTTCCCAAAATCTCCAAAAT
Found at i:38588098 original size:7 final size:7
Alignment explanation
Indices: 38588086--38588139 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
38588076 CATTTAACTC
38588086 ATAAATA
1 ATAAATA
38588093 ATAAATA
1 ATAAATA
*
38588100 ATAAATT
1 ATAAATA
*
38588107 ATAAATT
1 ATAAATA
38588114 ATAAATA
1 ATAAATA
38588121 ATAAATA
1 ATAAATA
38588128 ATAAATA
1 ATAAATA
38588135 ATAAA
1 ATAAA
38588140 ATTTTCAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAATA
Found at i:38594608 original size:21 final size:21
Alignment explanation
Indices: 38594578--38594637 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
38594568 CCATGTCCTT
38594578 ATCCAACACGGGCGTGTGCCTC
1 ATCC-ACACGGGCGTGTGCCTC
** *
38594600 ATCCACACGACCATGTGCCTC
1 ATCCACACGGGCGTGTGCCTC
* *
38594621 CTCCCACATGGGCGTGT
1 AT-CCACACGGGCGTGT
38594638 TGACCCTCCA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.20
Consensus pattern (21 bp):
ATCCACACGGGCGTGTGCCTC
Found at i:38605590 original size:22 final size:22
Alignment explanation
Indices: 38605562--38605605 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38605552 TGGGAATTTG
*
38605562 AAAATAAAA-AAATAACAAAAAT
1 AAAATAAAATAAACAA-AAAAAT
38605584 AAAATAAAATAAACAAAAAAAT
1 AAAATAAAATAAACAAAAAAAT
38605606 TCAACCCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAATAAAATAAACAAAAAAAT
Found at i:38608140 original size:48 final size:48
Alignment explanation
Indices: 38608013--38608129 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 48
38608003 TTTTAGGGTT
* ** *
38608013 TAGGTTTAACCTAAACAAGTCACCAGACAC--TTATTCATTAATCATG
1 TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTAATCATG
* *
38608059 TAGGTTTAACCCAAATGGGTAACCAGACACTATTATTCATTATTCATG
1 TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTAATCATG
38608107 TAGGTTTAACCCAAACGGGTAAC
1 TAGGTTTAACCCAAACGGGTAAC
38608130 TAGGAACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 25 0.40
48 37 0.60
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (48 bp):
TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTAATCATG
Found at i:38615974 original size:16 final size:17
Alignment explanation
Indices: 38615953--38615991 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38615943 CTTATAAATA
*
38615953 AATATTA-CTTTTATAG
1 AATATTATCTTTTATAC
*
38615969 AATATTATTTTTTATAC
1 AATATTATCTTTTATAC
38615986 AATATT
1 AATATT
38615992 GGGGTGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (17 bp):
AATATTATCTTTTATAC
Found at i:38619011 original size:18 final size:18
Alignment explanation
Indices: 38618977--38619025 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
38618967 CAATAAAAAA
38618977 AACGTTTGGAAATTGAAT
1 AACGTTTGGAAATTGAAT
*
38618995 AACGATTTGTAAA-TGAAT
1 AACG-TTTGGAAATTGAAT
*
38619013 AATGTTTTGGAAA
1 AACG-TTTGGAAA
38619026 CGAAAGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
AACGTTTGGAAATTGAAT
Found at i:38620886 original size:24 final size:24
Alignment explanation
Indices: 38620832--38620925 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
38620822 TGGCTCTTCG
* * **
38620832 GAGCTTCCCGATATTGGTTCACTT
1 GAGCTTCCCGTTATTGGCTCAAAT
* ***
38620856 GAACTTCCCGTTATTGGCTTGTAT
1 GAGCTTCCCGTTATTGGCTCAAAT
* *
38620880 GAGCTTCCCATTACATGGCTCAAAT
1 GAGCTTCCCGTTA-TTGGCTCAAAT
38620905 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTAT-TGGCTC
38620926 GAAAGAGGGC
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 28 0.53
25 25 0.47
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCAAAT
Found at i:38620906 original size:25 final size:25
Alignment explanation
Indices: 38620878--38620925 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38620868 ATTGGCTTGT
38620878 ATGAGCTTCCCATTACATGGCTCAA
1 ATGAGCTTCCCATTACATGGCTCAA
* *
38620903 ATGAGCTTCCCGTTATATGGCTC
1 ATGAGCTTCCCATTACATGGCTC
38620926 GAAAGAGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTACATGGCTCAA
Found at i:38628658 original size:24 final size:24
Alignment explanation
Indices: 38628631--38628687 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
38628621 AGCTTCCGGA
* * *
38628631 TATTGGGTCGCCTGAACTTCCCGT
1 TATTGGCTCGCATGAACTTCCCGC
*
38628655 TATTGGCTCGCATGAGCTTCCCGC
1 TATTGGCTCGCATGAACTTCCCGC
38628679 TATTGGCTC
1 TATTGGCTC
38628688 CCTACAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.30, G:0.25, T:0.33
Consensus pattern (24 bp):
TATTGGCTCGCATGAACTTCCCGC
Found at i:38630498 original size:26 final size:26
Alignment explanation
Indices: 38630469--38630551 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
38630459 ACACATACTT
38630469 TTATATATTTTTATATTTCATAATTC
1 TTATATATTTTTATATTTCATAATTC
** * * *
38630495 TTATATACATATATATGTATATATACATAC
1 TTATATATTTTTATAT-T-T-CATA-ATTC
38630525 TTACATATATTTTTATATTTCATAATT
1 TT--ATATATTTTTATATTTCATAATT
38630552 TTAAAATATA
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
26 13 0.32
27 1 0.02
28 3 0.07
29 6 0.15
30 6 0.15
31 1 0.02
32 11 0.27
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (26 bp):
TTATATATTTTTATATTTCATAATTC
Found at i:38630561 original size:44 final size:44
Alignment explanation
Indices: 38630512--38630598 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 44
38630502 CATATATATG
* *
38630512 TATATATACATACTTACATA-TATTTTTATATTTCATAATTTTAAAA
1 TATATATACATAC--ATATACTCTTTTTAT-TTTCATAATTTTAAAA
*
38630558 TATATATACATACATATACTCTTTTTATTTTTATAATTTTA
1 TATATATACATACATATACTCTTTTTATTTTCATAATTTTA
38630599 TGTACATACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 16 0.43
45 8 0.22
46 13 0.35
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (44 bp):
TATATATACATACATATACTCTTTTTATTTTCATAATTTTAAAA
Found at i:38630565 original size:58 final size:58
Alignment explanation
Indices: 38630451--38630565 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
38630441 TTTTATAAAC
** *
38630451 ATGTATATACACATACTTTTATATATTTTTATATTTCATAATTCTTATATACATATAT
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
* *
38630509 ATGTATATATACATACTTACATATATTTTTATATTTCATAATT-TTAAA-ATATATAT
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
38630565 A
1 A
38630566 CATACATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 8 0.15
57 4 0.08
58 40 0.77
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (58 bp):
ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
Found at i:38630632 original size:44 final size:41
Alignment explanation
Indices: 38630563--38630643 Score: 117
Period size: 44 Copynumber: 1.9 Consensus size: 41
38630553 TAAAATATAT
*
38630563 ATACATACATATACTCTTTTTATTTTTATAATTTTATGTAC
1 ATACACACATATACTCTTTTTATTTTTATAATTTTATGTAC
*
38630604 ATACACACATATATGTCTTTTTACATTTTTATAATTTTAT
1 ATACACACATATA-CTCTTTTT--ATTTTTATAATTTTAT
38630644 TCATTTCGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 12 0.34
42 7 0.20
44 16 0.46
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.53
Consensus pattern (41 bp):
ATACACACATATACTCTTTTTATTTTTATAATTTTATGTAC
Found at i:38637795 original size:133 final size:132
Alignment explanation
Indices: 38637316--38637775 Score: 722
Period size: 132 Copynumber: 3.5 Consensus size: 132
38637306 AGATCGAAAG
** * * *
38637316 CACCAGTCCTATCTCCCTAAGCAGTGGTGGAGTAAGTTGAAGATTCTAGATCTTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
* * * *
38637381 CAGTAGTGGAGTAGATCAAAGACAGCGAATCTTATTTTCCCAAGGTAGTAGGGCAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
38637446 GC
131 GC
* * **
38637448 CACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTGTCTTTCTAAG
1 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
38637513 CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
38637578 GC
131 GC
*
38637580 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTAGATCCTGTCTCCCTAA
1 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGA-TTGTAGATCCTGTCTCCCTAA
*
38637645 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
38637710 AGC
130 AGC
* * * * * *
38637713 CACCAGTCCTATCTCTCTGAGCAGTAGTGGAGTAGGTTCAAGATTGTAGATCTTGTCTTCCTA
1 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTA
38637776 TACTGGCAGT
Statistics
Matches: 303, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 178 0.59
133 125 0.41
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (132 bp):
CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GC
Found at i:38637816 original size:265 final size:264
Alignment explanation
Indices: 38637316--38637795 Score: 710
Period size: 265 Copynumber: 1.8 Consensus size: 264
38637306 AGATCGAAAG
** *
38637316 CACCAGTCCTATCTCCCTAAGCAGTGGTGGAGTAAGTTGAAGATTCTAGATCTTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAAGTTGAAGATTCTAGATCCTGTCTCCCTAAG
* * *
38637381 CAGTAGTGGAGTAGATCAAAGACAGCGAATCTTATTTTCCCAAGGTAGTAGGGCAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
* *
38637446 GCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTGTCTTTCTA
131 GCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTCAAGATTGCAGATCCTGTCTTCCTA
* * * *
38637511 AGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
196 AGCAGCAGTGAAGCAGATCAAAGACGACGAACCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
38637576 AAGC
261 AAGC
* * *
38637580 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTAGATCCTGTCTCCCTAA
1 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAAGTTGAAGA-TTCTAGATCCTGTCTCCCTAA
* *
38637645 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
* * * * * *
38637710 AGCCACCAGTCCTATCTCTCTGAGCAGTAGTGGAGTAGGTTCAAGATTGTAGATCTTGTCTTCCT
130 AGCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTCAAGATTGCAGATCCTGTCTTCCT
*
38637775 ATA-CTGGCAGTGAAGCAGATC
195 A-AGC-AGCAGTGAAGCAGATC
38637796 GAAAACACTT
Statistics
Matches: 191, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
264 39 0.20
265 138 0.72
266 14 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (264 bp):
CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAAGTTGAAGATTCTAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTCAAGATTGCAGATCCTGTCTTCCTA
AGCAGCAGTGAAGCAGATCAAAGACGACGAACCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
AAGC
Found at i:38637878 original size:220 final size:221
Alignment explanation
Indices: 38637597--38637995 Score: 665
Period size: 220 Copynumber: 1.8 Consensus size: 221
38637587 CCTATCTCCC
* * *
38637597 TGAGCAGCAGTGGAGTAGGTTGAAGATTTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGAT
1 TGAGCAGCAATGGAGTAGGTTGAAGATTTGTAGATCCTATCTCCCTAAACAGTAGTGGAGCAGAT
*
38637662 CAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
66 CAAAGACGGTGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
* * * ** * *
38637727 CTCTGAGCAGTAGTGGAGTAGGTTCAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCA
131 CCCTAAGCAGAAGTGGAGTAGGTTCAAGATTACAGATCCTGTCTCCCTATACTGGCAGTGAAGCA
38637792 GATCGAAAACACTTGCCTTATCTTCT
196 GATCGAAAACACTTGCCTTATCTTCT
*
38637818 TGAGTAGCAATGGAGTAGGTTGAAGA-TTGTAGATCCTATCTCCCTAAACAGTAGTGGAGCAGAT
1 TGAGCAGCAATGGAGTAGGTTGAAGATTTGTAGATCCTATCTCCCTAAACAGTAGTGGAGCAGAT
38637882 CAAAGACGGTGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
66 CAAAGACGGTGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
* *
38637947 CCCTAAGTAGAAGTGGAGTAGGTTGAAGATTACAGATCCTGTCTCCCTA
131 CCCTAAGCAGAAGTGGAGTAGGTTCAAGATTACAGATCCTGTCTCCCTA
38637996 AGAAGTAGTA
Statistics
Matches: 164, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
220 140 0.85
221 24 0.15
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (221 bp):
TGAGCAGCAATGGAGTAGGTTGAAGATTTGTAGATCCTATCTCCCTAAACAGTAGTGGAGCAGAT
CAAAGACGGTGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
CCCTAAGCAGAAGTGGAGTAGGTTCAAGATTACAGATCCTGTCTCCCTATACTGGCAGTGAAGCA
GATCGAAAACACTTGCCTTATCTTCT
Found at i:38638209 original size:51 final size:51
Alignment explanation
Indices: 38638118--38638214 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
38638108 TTAAATCTGA
* * ** * * *
38638118 AGTGGAGCGGATTAAAGCTGAAGGTAGTGAATCCTGTCTCCTTGGCGTTAC
1 AGTGGAACAGATTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTAC
*
38638169 AGTGGAACAGATTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGC
1 AGTGGAACAGATTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGC
38638215 ATTAAAGACT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (51 bp):
AGTGGAACAGATTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTAC
Found at i:38638398 original size:40 final size:40
Alignment explanation
Indices: 38638339--38638414 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
38638329 GTAGTAGAGC
38638339 AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATATATGA
1 AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATATATGA
*
38638379 AGTTGCAGCAGAGTGGATTGAAGCTACAAGTCATAT
1 AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATAT
38638415 TTTTCTGAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATATATGA
Found at i:38640427 original size:63 final size:63
Alignment explanation
Indices: 38640350--38640473 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
38640340 TTTTATAAAC
**
38640350 ATGTATATACACATACTTTTATATATTTTTTATATTTCATAATTCTT-AAT-TATATACATATAT
1 ATGTATATACACATACTTACATATA-TTTTTATATTTCATAATT-TTAAATATATATACATATAT
*
38640413 ATGTATATATACATACTTACATATATTTTTATATTTCATAATTTTAAAATATATATACATA
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTTT-AAATATATATACATA
38640474 CTAATATTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 2 0.04
62 18 0.33
63 25 0.45
64 10 0.18
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.50
Consensus pattern (63 bp):
ATGTATATACACATACTTACATATATTTTTATATTTCATAATTTTAAATATATATACATATAT
Done.