Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 40 of 214
Found at i:11091014 original size:247 final size:247
Alignment explanation
Indices: 11090573--11091075 Score: 927
Period size: 247 Copynumber: 2.0 Consensus size: 247
11090563 TTATTTACCA
* *
11090573 AAATGATCCACTTGTAAAATCATGTACGAAAATGATCCATTTTGAAAAGTGAACCTCGGTGCTAC
1 AAATAATCCACTTGCAAAATCATGTACGAAAATGATCCATTTTGAAAAGTGAACCTCGGTGCTAC
*
11090638 TGTTGTCATTGGCGGCATAGGATTAAAATGTAATTATATAAAATGTTTAGGGATTTAATGGAACA
66 TGTTGTCATTGGCGGCATAGGATTAAAATGTAATTATATAAAATGTTTAGAGATTTAATGGAACA
11090703 ATTACCCTTTTTAGATTGAATAAAAAAAAGTGGCCCCAACCCTACTCGCGACACCCAATTAAAAG
131 ATTACCCTTTTTAGATTGAATAAAAAAAAGTGGCCCCAACCCTACTCGCGACACCCAATTAAAAG
* *
11090768 CTTTTTAATATTTTGATCTATTTGCATATATGATTCTTTTGAAATTAAATTT
196 CTTTTTAATATTTTGATCTATTTACATATATGATCCTTTTGAAATTAAATTT
11090820 AAATAATCCACTTGCAAAATCATGTACGAAAATGATCCATTTTGAAAAGTGAACCTCGGTGCTAC
1 AAATAATCCACTTGCAAAATCATGTACGAAAATGATCCATTTTGAAAAGTGAACCTCGGTGCTAC
11090885 TGTTGTCATTGGCGGCATAGGATTAAAATGTAATTATATAAAATGTTTAGAGATTTAAT-GAAGC
66 TGTTGTCATTGGCGGCATAGGATTAAAATGTAATTATATAAAATGTTTAGAGATTTAATGGAA-C
* *
11090949 AATTACCCTTTTTAGGTTGAATAAAAAAAAGTTGCCCCAACCCTACTCGCGACACCCAATTAAAA
130 AATTACCCTTTTTAGATTGAATAAAAAAAAGTGGCCCCAACCCTACTCGCGACACCCAATTAAAA
11091014 GCTTTTTAATATTTTGATCTATTTACATATATGATCCTTTTGAAATTAAATTT
195 GCTTTTTAATATTTTGATCTATTTACATATATGATCCTTTTGAAATTAAATTT
11091067 AAATAATCC
1 AAATAATCC
11091076 TTACCAAATA
Statistics
Matches: 248, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
246 3 0.01
247 245 0.99
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (247 bp):
AAATAATCCACTTGCAAAATCATGTACGAAAATGATCCATTTTGAAAAGTGAACCTCGGTGCTAC
TGTTGTCATTGGCGGCATAGGATTAAAATGTAATTATATAAAATGTTTAGAGATTTAATGGAACA
ATTACCCTTTTTAGATTGAATAAAAAAAAGTGGCCCCAACCCTACTCGCGACACCCAATTAAAAG
CTTTTTAATATTTTGATCTATTTACATATATGATCCTTTTGAAATTAAATTT
Found at i:11100151 original size:18 final size:19
Alignment explanation
Indices: 11100113--11100155 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11100103 GAAGAATAAG
*
11100113 TGAAATATAGTGTGAAAAT
1 TGAAATATAATGTGAAAAT
*
11100132 TGAAATTTAATGTG-AAAT
1 TGAAATATAATGTGAAAAT
11100150 TGAAAT
1 TGAAAT
11100156 GTGTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (19 bp):
TGAAATATAATGTGAAAAT
Found at i:11101853 original size:28 final size:28
Alignment explanation
Indices: 11101795--11101865 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
11101785 ATGGCCTGGC
* *
11101795 CACACGGGCGTGTGTCACACATGCAACA
1 CACATGGGCGTGTGTCACACAGGCAACA
11101823 CACATGGGCGTGTGTCACACACGGGCAACA
1 CACATGGGCGTGTGTCACACA--GGCAACA
* *
11101853 CATATGGACGTGT
1 CACATGGGCGTGT
11101866 AACCCAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 20 0.54
30 17 0.46
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (28 bp):
CACATGGGCGTGTGTCACACAGGCAACA
Found at i:11103901 original size:18 final size:19
Alignment explanation
Indices: 11103878--11103918 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
11103868 ATGTTAAATT
11103878 TGAATA-TTTTTTTTCTAA
1 TGAATATTTTTTTTTCTAA
11103896 TGAATATTTTTTTTTCTAA
1 TGAATATTTTTTTTTCTAA
11103915 TGAA
1 TGAA
11103919 ACAACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (19 bp):
TGAATATTTTTTTTTCTAA
Found at i:11104403 original size:16 final size:16
Alignment explanation
Indices: 11104382--11104496 Score: 151
Period size: 16 Copynumber: 7.2 Consensus size: 16
11104372 TGAATTATTG
*
11104382 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTCC
*
11104398 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTCC
*
11104414 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
11104430 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
11104446 ATTATAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
*
11104462 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
11104478 ATTATAGCCCTATTCC
1 ATTACAGCTCTATTCC
11104494 ATT
1 ATT
11104497 CCAGTGAACC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
15 1 0.01
16 86 0.98
17 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:11107377 original size:291 final size:291
Alignment explanation
Indices: 11106848--11107394 Score: 853
Period size: 291 Copynumber: 1.9 Consensus size: 291
11106838 ACTCAGTTCT
*
11106848 TCATTGATTTGTTGGTTTTTGACTATTTCTTCAGTAACTGAATCGAAATATGAATTTGTATTGTT
1 TCATTGATTTGTTGGTTATTGACTATTTCTTCAGTAACTGAATCGAAATATGAATTTGTATTGTT
* * *
11106913 GACATAAGCGAGGTTGCTACAATGTGTCAATAGAAGTACCCACTCCTATTACTACTACAACAAAA
66 GACATAAGCAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTCCTATCACTACTACAACAAAA
* * * *
11106978 CAACTTGTCTGTTTTGAAATATTGACAATTTATTGAAATAAATCTTTGGAATGTGATGATGTCGT
131 CAACTTGTCTGCTTTAAAAGATTCACAATTTATTGAAATAAATCTTTGGAATGTGATGATGTCGT
* * *
11107043 GGAAAAATTTAATCCCATAAATGAAAATTAATTCACTTGGAGAAACATATCTTAAGAATCAAATA
196 GGAAAAATATAATCCCATAAATGAAAATTAATTCACATGGAGAAACATATCTAAAGAATCAAATA
11107108 TCCTAAAAAATATCTAACATTTAAGATATAC
261 TCCTAAAAAATATCTAACATTTAAGATATAC
*
11107139 TCATTGATTTGTTGGTTATTGACTATTTCTT-TGATAACTGAATCGAAATATGAATTTGTATTGT
1 TCATTGATTTGTTGGTTATTGACTATTTCTTCAG-TAACTGAATCGAAATATGAATTTGTATTGT
* * * **
11107203 TGACATATGTAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTTCTATCACTACTATGACAAA
65 TGACATAAGCAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTCCTATCACTACTACAACAAA
* * *
11107268 ATAACTTGTCTGCTTTAAAAGGTTCACAATTTATTGAAATAAATCTTTGGATTGTGATGATGTCG
130 ACAACTTGTCTGCTTTAAAAGATTCACAATTTATTGAAATAAATCTTTGGAATGTGATGATGTCG
** * * *
11107333 TGGAATGATATAATCCTATCAATGAAGATTAATTCACATGGAGAAACATATCTAAAGAATCA
195 TGGAAAAATATAATCCCATAAATGAAAATTAATTCACATGGAGAAACATATCTAAAGAATCA
11107395 GATCAGATCG
Statistics
Matches: 230, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
290 1 0.00
291 229 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (291 bp):
TCATTGATTTGTTGGTTATTGACTATTTCTTCAGTAACTGAATCGAAATATGAATTTGTATTGTT
GACATAAGCAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTCCTATCACTACTACAACAAAA
CAACTTGTCTGCTTTAAAAGATTCACAATTTATTGAAATAAATCTTTGGAATGTGATGATGTCGT
GGAAAAATATAATCCCATAAATGAAAATTAATTCACATGGAGAAACATATCTAAAGAATCAAATA
TCCTAAAAAATATCTAACATTTAAGATATAC
Found at i:11108698 original size:22 final size:22
Alignment explanation
Indices: 11108673--11108714 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11108663 ATATTTGAAT
11108673 TTTTATATTCAATAACAAATCA
1 TTTTATATTCAATAACAAATCA
* *
11108695 TTTTTTATTCAATAATAAAT
1 TTTTATATTCAATAACAAAT
11108715 GTATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTATATTCAATAACAAATCA
Found at i:11113932 original size:4 final size:4
Alignment explanation
Indices: 11113923--11113947 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11113913 GTTGTTCTGT
11113923 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
11113948 ATGTTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11119121 original size:9 final size:9
Alignment explanation
Indices: 11119107--11119140 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
11119097 AAAATATTTC
11119107 ATAAAAAAA
1 ATAAAAAAA
11119116 ATAAAAAAA
1 ATAAAAAAA
* *
11119125 AGAAGAAAA
1 ATAAAAAAA
11119134 ATAAAAA
1 ATAAAAA
11119141 GGAGAGGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:11120168 original size:45 final size:45
Alignment explanation
Indices: 11120024--11120681 Score: 199
Period size: 44 Copynumber: 14.6 Consensus size: 45
11120014 CATCATGGCG
* * * * *
11120024 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * * **
11120068 AATCTTA-CCCCTCTGAAGTTGCAAT-GAGGCAGGTTAAA-ATTA-CA
1 AATCTTATCTCC-CTGAAGTTGCAGTGGA-ACAGACTAAAGA-TAGCA
* *
11120112 AGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * * ** *
11120157 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * ** **
11120201 AGTCTTATCTCCCTGAAGTTGTA--GGAGTAGACTAAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * * * * *
11120244 AATCTTATTTCCCTAAAGTCGCAGTGGAACAGATTGAAGCTATAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAG--AT--A--GCA
* * * * * * * *
11120295 GATCTTATCTCTCTGAAATTGTAGTAGAGCAGA-T---CATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * ** * *
11120336 AGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * ** * * *
11120381 AATCTTATTTCCCTGAAGTCGCAGCAGAACAGATTGAAGCTATA-AA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAG--ATAGCA
* * * * * *
11120427 TTACGGATCTTATCTCTCTGAAGTTGAAGTAGAGCAGA-T---CATATCA
1 --A---ATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * * *
11120473 AACCTTATCTCCCTGAAGTTGCAGTGGATCAGATTGAAGACCGGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACT-AA-A---GATAGCA
* * ** *
11120522 AATCATATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAAGCCA-CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACT-AAAGATAGCA
* * * * ** * *
11120566 AACCTTATCTCTCTGAAGTTGCAATAGAACAGGTTGAAG-TAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* * * * ** * * *
11120610 AACCTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAGCTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
* *
11120654 AATCCTATCTTCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
11120682 GCGGATTAAA
Statistics
Matches: 457, Mismatches: 117, Indels: 80
0.70 0.18 0.12
Matches are distributed among these distances:
41 54 0.12
42 14 0.03
43 25 0.05
44 172 0.38
45 94 0.21
46 1 0.00
47 6 0.01
48 4 0.01
49 33 0.07
50 4 0.01
51 50 0.11
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCA
Found at i:11120281 original size:87 final size:88
Alignment explanation
Indices: 11120108--11120282 Score: 235
Period size: 87 Copynumber: 2.0 Consensus size: 88
11120098 AGGTTAAAAT
*
11120108 TACAAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAACCTTATCTCCCTGA
1 TACAAGTCTTATCTCCCTGAAGTTGTAG-GGAACAGACTAAAGATAGCAAACCTTATCTCCCTAA
* * *
11120173 AGTTGCAGTAGAGCAGGTTGAAGA
65 AGTCGCAGTAGAACAGATTGAAGA
** ** * *
11120197 TACAAGTCTTATCTCCCTGAAGTTGTA-GGAGTAGACTAAAGATAGTGAATCTTATTTCCCTAAA
1 TACAAGTCTTATCTCCCTGAAGTTGTAGGGAACAGACTAAAGATAGCAAACCTTATCTCCCTAAA
*
11120261 GTCGCAGTGGAACAGATTGAAG
66 GTCGCAGTAGAACAGATTGAAG
11120283 CTATAAATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
87 48 0.64
89 27 0.36
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (88 bp):
TACAAGTCTTATCTCCCTGAAGTTGTAGGGAACAGACTAAAGATAGCAAACCTTATCTCCCTAAA
GTCGCAGTAGAACAGATTGAAGA
Found at i:11120385 original size:137 final size:136
Alignment explanation
Indices: 11120199--11120500 Score: 473
Period size: 137 Copynumber: 2.2 Consensus size: 136
11120189 GTTGAAGATA
*
11120199 CAAGTCTTATCTCCCTGAAGTT--GTAGGAGTAGACTAAAGATAGTGAATCTTATTTCCCTAAAG
1 CAAGTCTTATCTCCCTGAAGTTCAGT-GGAGTAGACTAAAGATAGCGAATCTTATTTCCCTAAAG
** *
11120262 TCGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGTAGTAGAGCAG
65 TCGCAGCAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGAAGTAGAGCAG
11120327 ATCATAT
130 ATCATAT
* *
11120334 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTT-CAGTGGAGTAGACTAAAGATAGCGAATCTTATTTCCCTAAAG
* *
11120399 TCGCAGCAGAACAGATTGAAGCTATAAATTACGGATCTTATCTCTCTGAAGTTGAAGTAGAGCAG
65 TCGCAGCAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGAAGTAGAGCAG
11120464 ATCATAT
130 ATCATAT
**
11120471 CAAACCTTATCTCCCTGAAGTTGCAGTGGA
1 CAAGTCTTATCTCCCTGAAGTT-CAGTGGA
11120501 TCAGATTGAA
Statistics
Matches: 153, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
135 22 0.14
137 129 0.84
138 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (136 bp):
CAAGTCTTATCTCCCTGAAGTTCAGTGGAGTAGACTAAAGATAGCGAATCTTATTTCCCTAAAGT
CGCAGCAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGAAGTAGAGCAGA
TCATAT
Found at i:11120603 original size:93 final size:90
Alignment explanation
Indices: 11120437--11120604 Score: 219
Period size: 93 Copynumber: 1.8 Consensus size: 90
11120427 TTACGGATCT
* * * * * *
11120437 TATCTCTCTGAAGTTGAAGTAGAGCAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAT
1 TATCTCCCTGAAGTTGAAGTAGAGCAGATCAAACCAAACCTTATCTCCCTGAAGTTGCAATAGAA
11120502 CAGATTGAAGACCGGCTACAAATCA
66 CAGATTGAAGACCGGCTACAAATCA
* * *
11120527 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCACGAACCTTATCTCTCTGAAGTTGCAATA
1 TATCTCCCTGAAGTTGAAGTAGAGCAGATCAAA-CCA--AACCTTATCTCCCTGAAGTTGCAATA
*
11120592 GAACAGGTTGAAG
63 GAACAGATTGAAG
11120605 TAACAAACCT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
90 29 0.45
91 2 0.03
93 34 0.52
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (90 bp):
TATCTCCCTGAAGTTGAAGTAGAGCAGATCAAACCAAACCTTATCTCCCTGAAGTTGCAATAGAA
CAGATTGAAGACCGGCTACAAATCA
Found at i:11121482 original size:5 final size:5
Alignment explanation
Indices: 11121472--11121506 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
11121462 TCTTTATTCT
11121472 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11121507 AAGAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11122966 original size:130 final size:131
Alignment explanation
Indices: 11122711--11122980 Score: 443
Period size: 130 Copynumber: 2.1 Consensus size: 131
11122701 AAAAATCTTG
** * *
11122711 AAAATAAAGGCAATATTCCGTATTTAGAAATTTGAGAAGTTGTGCCCTAACTTATTGGGTTTCGA
1 AAAATAAAGAAAATATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
* * *
11122776 TTTTTCTCGCGTTGAACGTAAATAATCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
11122841 A
131 A
* *
11122842 TAAATAAAGAAAATATTCTGT-TTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGAAAATATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
11122906 TTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
11122971 A
131 A
*
11122972 AAAACAAAG
1 AAAATAAAG
11122981 GTGAGCTTAT
Statistics
Matches: 128, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
130 111 0.87
131 17 0.13
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (131 bp):
AAAATAAAGAAAATATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
TTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
A
Found at i:11134495 original size:5 final size:5
Alignment explanation
Indices: 11134485--11134513 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11134475 AAAATAGAAC
11134485 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
11134514 ATATAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:11135637 original size:20 final size:19
Alignment explanation
Indices: 11135590--11135644 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
11135580 GAACTTGTCC
*
11135590 AAAAAAA-TTATACTTTTT
1 AAAAAAATTTATAATTTTT
*
11135608 AAAATTAATTTATATATTTTT
1 AAAA-AAATTTATA-ATTTTT
11135629 AAAAAAATTTA-AATTT
1 AAAAAAATTTATAATTT
11135645 ATGTTTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 11 0.35
21 9 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAAAATTTATAATTTTT
Found at i:11144720 original size:21 final size:21
Alignment explanation
Indices: 11144680--11144736 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
11144670 ATACACCAAT
*
11144680 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTAAAC
*
11144699 AGGAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
*
11144720 AGAAACTCGTAAGAGCT
1 AGAAGCTCGTAAGAGCT
11144737 GATCTAGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 22 0.69
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.14
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTAAAC
Found at i:11146489 original size:16 final size:17
Alignment explanation
Indices: 11146458--11146489 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11146448 CTAAAATATT
11146458 AATTAAATTAATTTTCC
1 AATTAAATTAATTTTCC
11146475 AATTAAATT-ATTTTC
1 AATTAAATTAATTTTC
11146490 TAACTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTAATTTTCC
Found at i:11149759 original size:14 final size:14
Alignment explanation
Indices: 11149740--11149785 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
11149730 CGGCCCAAAT
11149740 CAAAAATAAATAAA
1 CAAAAATAAATAAA
* *
11149754 CAAAAAAAAATATA
1 CAAAAATAAATAAA
11149768 -AAAAAT-AA-AAA
1 CAAAAATAAATAAA
11149779 CAAAAAT
1 CAAAAAT
11149786 TATTAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 2 0.07
12 8 0.30
13 5 0.19
14 12 0.44
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (14 bp):
CAAAAATAAATAAA
Found at i:11149764 original size:25 final size:22
Alignment explanation
Indices: 11149736--11149784 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
11149726 TGCCCGGCCC
11149736 AAATCAAAAATAAATAAACAAAAAA
1 AAAT-AAAAA-AAATAAA-AAAAAA
* *
11149761 AAATATAAAAAATAAAAACAAA
1 AAATAAAAAAAATAAAAAAAAA
11149783 AA
1 AA
11149785 TTATTAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 7 0.32
23 7 0.32
24 4 0.18
25 4 0.18
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (22 bp):
AAATAAAAAAAATAAAAAAAAA
Found at i:11149793 original size:22 final size:23
Alignment explanation
Indices: 11149747--11149793 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
11149737 AATCAAAAAT
11149747 AAATAAACAAAAAAAAATATAAA
1 AAATAAACAAAAAAAAATATAAA
* * *
11149770 AAATAAA-AACAAAAATTATTAA
1 AAATAAACAAAAAAAAATATAAA
11149792 AA
1 AA
11149794 GTCCATCAGT
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:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (23 bp):
AAATAAACAAAAAAAAATATAAA
Found at i:11150206 original size:13 final size:13
Alignment explanation
Indices: 11150188--11150212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11150178 GATTGTATTT
11150188 TTATTTTATTTTA
1 TTATTTTATTTTA
11150201 TTATTTTATTTT
1 TTATTTTATTTT
11150213 CGTTTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:11156291 original size:126 final size:126
Alignment explanation
Indices: 11156038--11156605 Score: 707
Period size: 126 Copynumber: 4.5 Consensus size: 126
11156028 GATAAAATCA
* * * * * * * * *
11156038 AAGCAGGATGATTTATTAGAAGGATTTTTGAAGTTGCGCCCACGTGTACATACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
* * * *
11156103 AGGT-CTTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTTTAAAAAATGCTTC
66 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * *
11156163 AAGCAGGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGAACGTGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
* * * * * *
11156228 TGGTCCTGGAAGAAATAATTTCGAGTTGACTTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
11156289 AAGTAGGATGCTTTAT-AAAAGGAATTTGTGAAGTCGCGCCCACGTGGACGTGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAA-GAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAG
* * *
11156353 TAGGTCCT-GAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
65 TAGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * **
11156415 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAG
* * * *
11156479 TAAGTCCTGG-AAAAATAATTTCGACTTGACGTTTCTGAGTAAATAGTAT-AAAATCACTTC
65 TAGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
11156539 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
11156604 AG
66 AG
11156606 CATGTTTAGG
Statistics
Matches: 380, Mismatches: 56, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 62 0.16
125 102 0.27
126 208 0.55
127 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGT
AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:11156525 original size:251 final size:250
Alignment explanation
Indices: 11156038--11156605 Score: 766
Period size: 251 Copynumber: 2.3 Consensus size: 250
11156028 GATAAAATCA
* * * * *
11156038 AAGCAGGATGATTTATTAGAAGG-ATTTTTGAAGTTGCGCCCACGTGTACATACTTTTGCTACAG
1 AAGCAGGATGCTTTA-TAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAG
* * * *
11156102 TAGGTCTTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTTTAAAAAATGCTTCAAGC
65 TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTGCAAGC
* ** * **
11156167 AGGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGAACGTGCTTTTGCTATAGTTGGT
130 AGCATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGAACGCACTTTTGCTACAGTAAGT
* * * * *
11156232 CCTGGAAGAAATAATTTCGAGTTGACTTTTTTGAGCAAATAGTTTAAAAAACGCTTC
195 CCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAAACACTTC
* * *
11156289 AAGTAGGATGCTTTATAAAAGGAATTTGTGAAGTCGCGCCCACGTGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAGT
* * *
11156354 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTATAAAA-AACGCTGCAAGC
* * *
11156419 AGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGTAAG
130 AGCATGCT-TTATGAGAAGAATTTATGAAATCGCGCCCTCATGAACGCACTTTTGCTACAGTAAG
* *
11156483 TCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGTAAATAGTATAAAATCACTTC
194 TCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACACTTC
* *
11156539 TAGCAGGATGCTTTATGAGAA-GAATTTGTGAAATTGCGCCCACGTGGACGTGCTTTTGCTACAG
1 AAGCAGGATGCTTTAT-AGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAG
11156603 TAG
65 TAG
11156606 CATGTTTAGG
Statistics
Matches: 277, Mismatches: 36, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
250 73 0.26
251 132 0.48
252 70 0.25
253 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAGAAGGAATTTGTGAAGTTGCGCCCACGTGGACGTGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTGCAAGCA
GCATGCTTTATGAGAAGAATTTATGAAATCGCGCCCTCATGAACGCACTTTTGCTACAGTAAGTC
CTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACACTTC
Found at i:11159820 original size:22 final size:22
Alignment explanation
Indices: 11159779--11160274 Score: 604
Period size: 22 Copynumber: 23.0 Consensus size: 22
11159769 TCAAATTATA
11159779 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11159800 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11159822 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
11159843 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11159864 TTTAGGTTAAGGGTTTATGGGTT
1 TTTAAGTTAAGGGTTTA-GGGTT
*
11159887 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
11159909 TTTAATTTAAAGGCTTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11159931 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11159953 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
11159974 TTTAAGTTAAGGGATTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11159996 TTTAAGTTAATGG---AGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
11160015 TTTAAGTTAAGGGGTTGGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
11160037 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
11160058 TTTAGGTTAAGAGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
11160080 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11160102 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
11160124 TTAAAGTTAAGGG-TTAGTGCT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11160145 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
11160167 TTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
11160188 TTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
11160210 TTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
11160232 TTTAGGTTAAGGATTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
11160254 TTTAA-TTCAAGGG-TTAGGGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
11160275 AGGGTTTTTA
Statistics
Matches: 411, Mismatches: 51, Indels: 26
0.84 0.10 0.05
Matches are distributed among these distances:
19 17 0.04
21 137 0.33
22 234 0.57
23 23 0.06
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:11159839 original size:43 final size:43
Alignment explanation
Indices: 11159779--11160274 Score: 633
Period size: 43 Copynumber: 11.5 Consensus size: 43
11159769 TCAAATTATA
*
11159779 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
11159822 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
11159864 TTTAGGTTAAGGGTTTATGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
11159909 TTTAATTTAAAGGCTTAGGGGTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
11159953 TTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGATTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
11159996 TTTAAGTTAATGG--AGGGTTTTTAAGTTAAGGGGTTGGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
11160037 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGAGTTTATGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTT
*
11160080 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
11160124 TTAAAGTTAAGGGTTAGTGCTTTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
11160167 TTAAAGTTAATGGTTAGGGTTTTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
11160210 TTTAAGTTAAGGGTTTAGAGTTTTTAGGTTAAGGATTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
11160254 TTTAA-TTCAAGGGTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
11160275 AGGGTTTTTA
Statistics
Matches: 393, Mismatches: 49, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
41 36 0.09
42 19 0.05
43 195 0.50
44 122 0.31
45 17 0.04
46 4 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:11160876 original size:18 final size:18
Alignment explanation
Indices: 11160850--11160892 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11160840 GACTCGAAAA
* *
11160850 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
11160868 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
11160886 AGGAAAC
1 AGGAAAC
11160893 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:11161668 original size:20 final size:20
Alignment explanation
Indices: 11161631--11161668 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11161621 TTTATTTTTA
*
11161631 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
11161651 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
11161669 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:11162345 original size:21 final size:21
Alignment explanation
Indices: 11162319--11162358 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11162309 TCCGGATATT
11162319 GCAGGTAGTTCTCTACCAATG
1 GCAGGTAGTTCTCTACCAATG
11162340 GCAGGTAGTTCTCTACCAA
1 GCAGGTAGTTCTCTACCAA
11162359 CGGTGATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
GCAGGTAGTTCTCTACCAATG
Found at i:11162692 original size:51 final size:51
Alignment explanation
Indices: 11162637--11162734 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
11162627 AATTATTTAA
11162637 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
11162688 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
11162735 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:11162721 original size:22 final size:22
Alignment explanation
Indices: 11162696--11162762 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
11162686 ATAAATATGG
11162696 ATTTGAGAGAAATTTTGAAGGA
1 ATTTGAGAGAAATTTTGAAGGA
11162718 ATTTGAGAGCAAA--TTGAGAGGAA
1 ATTTGAGAG-AAATTTTGA-AGG-A
11162741 ATTT-AGAAGAAATTTTGAAGGA
1 ATTTGAG-AGAAATTTTGAAGGA
11162763 TTAGTTTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
21 4 0.10
22 18 0.46
23 13 0.33
24 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.27, T:0.28
Consensus pattern (22 bp):
ATTTGAGAGAAATTTTGAAGGA
Found at i:11162732 original size:12 final size:11
Alignment explanation
Indices: 11162696--11162755 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
11162686 ATAAATATGG
11162696 ATTTGAGAGAA
1 ATTTGAGAGAA
*
11162707 ATTTTGA-AGGA
1 A-TTTGAGAGAA
11162718 ATTTGAGAGCAA
1 ATTTGAGAG-AA
11162730 A-TTGAGAGGAA
1 ATTTGAGA-GAA
11162741 ATTT-AGAAGAA
1 ATTTGAG-AGAA
11162752 ATTT
1 ATTT
11162756 TGAAGGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
10 5 0.12
11 25 0.61
12 11 0.27
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:11166234 original size:33 final size:33
Alignment explanation
Indices: 11166192--11166265 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
11166182 TGCGGAACTT
11166192 AAAATTAGAATGTCAGAACCATGTGTTGTTGTG
1 AAAATTAGAATGTCAGAACCATGTGTTGTTGTG
11166225 AAAATTAGAATGTCAGAACCATGTGTTGTTGTG
1 AAAATTAGAATGTCAGAACCATGTGTTGTTGTG
11166258 AATAATTA
1 AA-AATTA
11166266 TATATTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 35 0.88
34 5 0.12
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (33 bp):
AAAATTAGAATGTCAGAACCATGTGTTGTTGTG
Found at i:11167542 original size:3 final size:3
Alignment explanation
Indices: 11167534--11167573 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11167524 CATGTATGTT
11167534 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11167574 ACAGTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11169341 original size:44 final size:44
Alignment explanation
Indices: 11169293--11170117 Score: 565
Period size: 44 Copynumber: 18.5 Consensus size: 44
11169283 ACCGATATAG
* * * *
11169293 GAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* ** * * * * ***
11169337 GAAGATAAGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
*
11169382 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* ** * * * ***
11169426 GAAGACAAGATCTGCTTTTTCCTTCAATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGC--TAT-CTTTGATCTACTTC-ACGCCAGTACAT
* * * * * * * * *
11169474 GAAAACAAAATCTG-TATATTCGATCCACTTCGCTACC-GATATAG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAG-TACAT
* *
11169518 GAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* ** * * * * ***
11169562 GAAGATAAGATCTATTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
* * *
11169607 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * ***
11169651 GAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
* * *
11169696 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * *
11169740 GAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATAG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
* * * * *
11169785 GAAGGCAAGATCTGGTATCTCTAATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
11169829 GAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
* * *
11169874 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * ***
11169918 GAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
* * *
11169963 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ** ***
11170007 GAAGACAAGATCTGTTTTCTCTGATCTGCTTCGTGCCCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACG-CCAGTACAT
* * * *
11170052 GAAGGCAAGATTTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
*
11170096 GAAGACAAGATCTGTTATCTTT
1 GAAGACAAGATCTGCTATCTTT
11170118 CAACCTGCTC
Statistics
Matches: 583, Mismatches: 183, Indels: 30
0.73 0.23 0.04
Matches are distributed among these distances:
43 2 0.00
44 296 0.51
45 253 0.43
46 2 0.00
47 11 0.02
48 19 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:11169368 original size:89 final size:89
Alignment explanation
Indices: 11169267--11169438 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 89
11169257 AATCTGTATA
* *
11169267 TTCGATCCACTTCACTACC-GATATAGGAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCA
1 TTCGATCCACTTCACCACCAG-TATAGGAAGACAAGACCTGCTACCTTTGATCAACTTCACGCCA
*
11169331 GTACATGAAGATAAGATCTATTTTC
65 GTACATGAAGACAAGATCTATTTTC
* * * * * * *
11169356 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAG
1 TTCGATCCACTTCACCACCAGTATAGGAAGACAAGACCTGCTACCTTTGATCAACTTCACGCCAG
11169421 TACATGAAGACAAGATCT
66 TACATGAAGACAAGATCT
11169439 GCTTTTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 71 0.99
90 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (89 bp):
TTCGATCCACTTCACCACCAGTATAGGAAGACAAGACCTGCTACCTTTGATCAACTTCACGCCAG
TACATGAAGACAAGATCTATTTTC
Found at i:11169484 original size:225 final size:222
Alignment explanation
Indices: 11169221--11170126 Score: 833
Period size: 225 Copynumber: 4.1 Consensus size: 222
11169211 AGATCTTTAA
* *
11169221 TCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGTATATTCGATCCACTTCACTACC
1 TCTTCAATCTGCTTCGCCACCAGTATGGGAAAACAAAATCTGTATATTCGATCCACTTCACTACC
11169286 GATATAGGAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCAGTACATGAAGATAAGATCTA
66 GATATAGGAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCAGTACATGAAGATAAGATCTA
*
11169351 TTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAC
131 TTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAC
11169416 GCCAGTACATGAAGACAAGATCTGCTTTT
196 GCCAGTACATGAAGACAAGATCTG--TTT
*
11169445 TCCTTCAATCTGCTTCGCCACCAGTATGGGAAAACAAAATCTGTATATTCGATCCACTTCGCTAC
1 T-CTTCAATCTGCTTCGCCACCAGTATGGGAAAACAAAATCTGTATATTCGATCCACTTCACTAC
* *
11169510 CGATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCT
65 CGATATAGGAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCAGTACATGAAGATAAGATCT
* * *
11169575 ATTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCA
130 ATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCA
11169640 CGCCAGTACATGAAGACAAGATCTGTTT
195 CGCCAGTACATGAAGACAAGATCTGTTT
** ** * * * *
11169668 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT-CTCTGATCTACTTCAC-G
1 TCTTCAATCTGCTTCGCCACCAGTATGGGAAAACAAAATCT-GTATATTC-GATCCACTTCACTA
* * * * * ** ** * * * * **
11169731 CC-AGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATAGGAAGGCAAGA
64 CCGA-TATAGGAAGACAGGACCTGCTACCTTTGATCAACTTC-ACGCCAGTACATGAAGATAAGA
** * * *** *** * * * *
11169795 TCTGGTATC-TCTAATCTACTTC-ATGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGC
127 TCTATTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTAC
* * *** * * *
11169858 TTCGCCACCAGTATGGGAAGGCAAGATCTGGTA
191 TTC-ACGCCAGTACATGAAGACAAGATCTGTTT
* * * * *** * * * * * ** * *
11169891 TC-TCTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TCTTC-AATCTGCTTCGCCACCAGTATGGGAAAACAAAATCTG-TATATTCGATCCACTTCACTA
* * * * * * * * *
11169954 CC-AGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGAT
64 CCGA-TATAGGAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCAGTACATGAAGATAAGAT
* * * * *
11170018 CTGTTTTC-TCTGATCTGCTTCGTGC-CCAGTATGGGAAGGCAAGATTTGGTATCTCTGATCTAC
128 CTATTTTCTTC-GATCTACTTCG-CCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTAC
*
11170081 TTCACGCCAGTACATGAAGACAAGATCTGTTA
191 TTCACGCCAGTACATGAAGACAAGATCTGTTT
*
11170113 TCTTTCAACCTGCT
1 TC-TTCAATCTGCT
11170127 CCACTGCTGC
Statistics
Matches: 559, Mismatches: 108, Indels: 31
0.80 0.15 0.04
Matches are distributed among these distances:
221 2 0.00
222 194 0.35
223 151 0.27
224 3 0.01
225 209 0.37
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (222 bp):
TCTTCAATCTGCTTCGCCACCAGTATGGGAAAACAAAATCTGTATATTCGATCCACTTCACTACC
GATATAGGAAGACAGGACCTGCTACCTTTGATCAACTTCACGCCAGTACATGAAGATAAGATCTA
TTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAC
GCCAGTACATGAAGACAAGATCTGTTT
Found at i:11169522 original size:92 final size:91
Alignment explanation
Indices: 11169315--11169533 Score: 214
Period size: 92 Copynumber: 2.4 Consensus size: 91
11169305 TGCTACCTTT
* * * * *
11169315 GATCAACTTCACGCCAGTACATGAAGATAAGA--T-CTATTTTCTTCGATCTACTTCGCCACCAG
1 GATCCACTTCACACCAGTACAGGAAGACAAGACCTGCT-TTTTCTTCAATCTACTTCGCCACCAG
* * * *
11169377 TATGGGAAGACAAGATCTGGTATCTTT
65 TATGGGAAAACAAAATCTGGTATATTC
* * * * *
11169404 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCAATCTGCTTCGCCACCAG
1 GATCCACTTCACACCAGTACAGGAAGACAAGACCTGCTTTTT-CTTCAATCTACTTCGCCACCAG
11169469 TATGGGAAAACAAAATCT-GTATATTC
65 TATGGGAAAACAAAATCTGGTATATTC
* * *
11169495 GATCCACTTCGCTACC-GATATAGGAAGACAGGACCTGCT
1 GATCCACTTCAC-ACCAG-TACAGGAAGACAAGACCTGCT
11169534 ATCTTTGATC
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
89 30 0.28
91 22 0.20
92 57 0.52
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (91 bp):
GATCCACTTCACACCAGTACAGGAAGACAAGACCTGCTTTTTCTTCAATCTACTTCGCCACCAGT
ATGGGAAAACAAAATCTGGTATATTC
Found at i:11169652 original size:89 final size:89
Alignment explanation
Indices: 11169533--11170117 Score: 1055
Period size: 89 Copynumber: 6.6 Consensus size: 89
11169523 CAGGACCTGC
* * *
11169533 TATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
11169598 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
11169622 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
11169687 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
11169711 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
*
11169776 CCAGTATAGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
11169800 TATCTCTAATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
11169865 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
11169889 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
11169954 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* *
11169978 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTCTGATCTGCTTCGTGC
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCG-CC
*
11170043 -CCAGTATGGGAAGGCAAGATTTGG
65 ACCAGTATGGGAAGGCAAGATCTGG
*
11170067 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTTT
1 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTT
11170118 CAACCTGCTC
Statistics
Matches: 479, Mismatches: 16, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
89 478 1.00
90 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
CCAGTATGGGAAGGCAAGATCTGG
Found at i:11173566 original size:22 final size:22
Alignment explanation
Indices: 11173541--11173583 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11173531 TATTCAAACA
11173541 ATAACA-ATAAACTAGTAGCAAC
1 ATAACAGATAAA-TAGTAGCAAC
* *
11173563 ATAATAGTTAAATAGTAGCAA
1 ATAACAGATAAATAGTAGCAA
11173584 AATAGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAACAGATAAATAGTAGCAAC
Found at i:11173626 original size:22 final size:22
Alignment explanation
Indices: 11173582--11173647 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
11173572 AAATAGTAGC
*
11173582 AAAATAGTAA-AAAA-AA-AAG
1 AAAATAGTAAGAAAACAATAAA
11173601 AAAATACG-AAGAAAACAATAAA
1 AAAATA-GTAAGAAAACAATAAA
*
11173623 AAAATAGTAAGAAAGCAATAAA
1 AAAATAGTAAGAAAACAATAAA
11173645 AAA
1 AAA
11173648 TAACAGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.20
20 5 0.12
21 3 0.08
22 24 0.60
ACGTcount: A:0.74, C:0.05, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAATAGTAAGAAAACAATAAA
Found at i:11175842 original size:4 final size:4
Alignment explanation
Indices: 11175833--11175869 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
11175823 TTTACTTCAG
11175833 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
11175870 CTGTGATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:11176941 original size:22 final size:22
Alignment explanation
Indices: 11176899--11176941 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11176889 TTTTTAAAAA
*
11176899 TTTTAAAGATATTTTTATATAT
1 TTTTAAAGATATTTTAATATAT
*
11176921 TTTTAATGAT-TTTTAAGTATA
1 TTTTAAAGATATTTTAA-TATA
11176942 AAAATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTTAAAGATATTTTAATATAT
Found at i:11178753 original size:43 final size:43
Alignment explanation
Indices: 11178639--11178743 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
11178629 CCACAAACGT
* * * * * *
11178639 TATAGAACATAACCTTTCGCGGCACTTTTATCACAAGCGTCGC
1 TATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCAC
* *
11178682 TAAAGAACATGACTTTTAGCGGCACTTTTACCACAAACGCCAC
1 TATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCAC
11178725 TATAGAACATGACCTTTAG
1 TATAGAACATGACCTTTAG
11178744 TGGTGCTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
TATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCAC
Found at i:11179191 original size:66 final size:66
Alignment explanation
Indices: 11179085--11179222 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
11179075 TCATATTCTG
* * * **
11179085 AAGTTGTAGCTAGAGTTCGTCATATTTTCTGTTTGCCTCTGTTTCCCTCGCTGCTGCCTCCGCTT
1 AAGTTGTAACTAGAGTTCGTCATATTTTCTGTTAGCCTCTGCTTCCCTCAATGCTGCCTCCGCTT
11179150 T
66 T
* * * *
11179151 AAGTTGTAACTGGAGTTCTTCATATTTTCT-TTGAGCCTCTGCTTCTCTCAATGCTGCCTTCGCT
1 AAGTTGTAACTAGAGTTCGTCATATTTTCTGTT-AGCCTCTGCTTCCCTCAATGCTGCCTCCGCT
11179215 TT
65 TT
11179217 AAGTTG
1 AAGTTG
11179223 AGCAAGTTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 2 0.03
66 60 0.97
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.43
Consensus pattern (66 bp):
AAGTTGTAACTAGAGTTCGTCATATTTTCTGTTAGCCTCTGCTTCCCTCAATGCTGCCTCCGCTT
T
Found at i:11187671 original size:9 final size:9
Alignment explanation
Indices: 11187657--11187682 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11187647 TGATATATAT
11187657 TTATGTAAG
1 TTATGTAAG
11187666 TTATGTAAG
1 TTATGTAAG
11187675 TTATGTAA
1 TTATGTAA
11187683 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11188238 original size:25 final size:25
Alignment explanation
Indices: 11188210--11188257 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11188200 GGACAAGATT
11188210 TTGTTAAATGAAATAATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
*
11188235 TTGTTAACTGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
11188258 TGAGCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:11190503 original size:19 final size:20
Alignment explanation
Indices: 11190475--11190529 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
11190465 CAGTTTTAAA
*
11190475 TAAATAATATTTGAAA-ATT
1 TAAATAATATTTGAAAGAAT
* *
11190494 TAAGTAATATTTAAAAGAAT
1 TAAATAATATTTGAAAGAAT
*
11190514 TAAATAAAATTTGAAA
1 TAAATAATATTTGAAA
11190530 TTTTTGTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAATAATATTTGAAAGAAT
Found at i:11191306 original size:58 final size:58
Alignment explanation
Indices: 11191216--11191333 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
11191206 TGCTTGACCT
*
11191216 TTTTAATGAGAAATTTTTATATTGAATTATTATATCTTTCATATCAGTTTTAAAAGAA
1 TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
11191274 TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
1 TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
11191332 TT
1 TT
11191334 AGATAAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.48
Consensus pattern (58 bp):
TTTTAATGAGAAATTTTTATATTGAATAATTATATCTTTCATATCAGTTTTAAAAGAA
Found at i:11192044 original size:41 final size:41
Alignment explanation
Indices: 11191999--11192124 Score: 164
Period size: 41 Copynumber: 3.1 Consensus size: 41
11191989 TTTTTTTGTT
* *
11191999 ACCTTTTGCGGCGGTTTTCTCATAAACGCCGCTATTGCTTG
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
* * *
11192040 ACCTTTTGTGG-GTTTTTCGCATAAACGTCGCTACTGCTTG
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
* * * *
11192080 ACCTTTTGCGACATTTTTCTCATAAAAGCCGCTACTGCTTT
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
11192121 ACCT
1 ACCT
11192125 ATTGTGACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 34 0.47
41 38 0.53
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.38
Consensus pattern (41 bp):
ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTG
Found at i:11192134 original size:41 final size:41
Alignment explanation
Indices: 11192013--11192138 Score: 164
Period size: 41 Copynumber: 3.1 Consensus size: 41
11192003 TTTGCGGCGG
* **
11192013 TTTTCTCATAAACGCCGCTATTGCTTGACCTTTTGTG-GGT
1 TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
* * *
11192053 TTTTCGCATAAACGTCGCTACTGCTTGACCTTTTGCGACAT
1 TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
* * *
11192094 TTTTCTCATAAAAGCCGCTACTGCTTTACCTATTGTGACAT
1 TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
11192135 TTTT
1 TTTT
11192139 TTGTTAGCAC
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 33 0.45
41 40 0.55
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (41 bp):
TTTTCTCATAAACGCCGCTACTGCTTGACCTTTTGTGACAT
Found at i:11193972 original size:10 final size:10
Alignment explanation
Indices: 11193957--11194013 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
11193947 GTTAACATCC
11193957 ATTAATTTTA
1 ATTAATTTTA
* *
11193967 AGTAATTTTT
1 ATTAATTTTA
*
11193977 ATTAAGTTTA
1 ATTAATTTTA
*
11193987 ATTAATTTTG
1 ATTAATTTTA
11193997 ATTAA-TTTA
1 ATTAATTTTA
11194006 AGTTAATT
1 A-TTAATT
11194014 AGGTGATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
9 4 0.11
10 32 0.86
11 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:11193986 original size:20 final size:19
Alignment explanation
Indices: 11193957--11194013 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
11193947 GTTAACATCC
*
11193957 ATTAATTTTAAGTAATTTTT
1 ATTAA-TTTAAGTAATTTTG
*
11193977 ATTAAGTTTAATTAATTTTG
1 ATTAA-TTTAAGTAATTTTG
11193997 ATTAATTTAAGTTAATT
1 ATTAATTTAAG-TAATT
11194014 AGGTGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTAATTTAAGTAATTTTG
Found at i:11194485 original size:20 final size:21
Alignment explanation
Indices: 11194460--11194504 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
11194450 TGAAATTGGT
11194460 TTTAAAACCAAAGCTCAAAA-
1 TTTAAAACCAAAGCTCAAAAC
*
11194480 TTTAAAACCAAAGCTTAAAAC
1 TTTAAAACCAAAGCTCAAAAC
11194501 TTTA
1 TTTA
11194505 GGGGTATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (21 bp):
TTTAAAACCAAAGCTCAAAAC
Found at i:11194865 original size:43 final size:43
Alignment explanation
Indices: 11194801--11194885 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
11194791 GTGAGAGTTG
* *
11194801 GACTAAATTGTAAAGAGATGTTTATATGTGTTAAAAGGTGCTC
1 GACTAAATTGTAAAGAAATGTTTATATGTGTTAAAAAGTGCTC
*
11194844 GACTAAATTGTAAAGAAATGTTTATATGTTTTAAAAAGTGCT
1 GACTAAATTGTAAAGAAATGTTTATATGTGTTAAAAAGTGCT
11194886 TGGGTGAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (43 bp):
GACTAAATTGTAAAGAAATGTTTATATGTGTTAAAAAGTGCTC
Found at i:11195241 original size:31 final size:31
Alignment explanation
Indices: 11195198--11195259 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11195188 AGTTCAACAG
*
11195198 GCGATGTGGTTAATGTAAAATGAAAAATTGA
1 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
11195229 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
1 GCGAAGTGGTTAATGTAAAATGAAAAATTGA
11195260 AATGACATGA
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:0.44, C:0.03, G:0.26, T:0.27
Consensus pattern (31 bp):
GCGAAGTGGTTAATGTAAAATGAAAAATTGA
Found at i:11197068 original size:25 final size:25
Alignment explanation
Indices: 11197039--11197090 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
11197029 AGCATTTAAA
*
11197039 GTTATTTTTATTAGTTTTTGCATTG
1 GTTATTTTTATTAGTTTTGGCATTG
11197064 GTTATTTTTATTAGTTTTGGCATTG
1 GTTATTTTTATTAGTTTTGGCATTG
11197089 GT
1 GT
11197091 GTTAGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (25 bp):
GTTATTTTTATTAGTTTTGGCATTG
Found at i:11201549 original size:20 final size:20
Alignment explanation
Indices: 11201515--11201556 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11201505 AACTATTTAA
** *
11201515 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11201535 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11201555 AT
1 AT
11201557 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11201741 original size:20 final size:21
Alignment explanation
Indices: 11201704--11201742 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11201694 TTTCCTTCCT
* *
11201704 TTATTTTTTAATATTATTAGA
1 TTATTTTATAATAGTATTAGA
11201725 TTATTTTATAA-AGTATTA
1 TTATTTTATAATAGTATTA
11201743 CTGCAGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTTTATAATAGTATTAGA
Found at i:11206276 original size:3 final size:3
Alignment explanation
Indices: 11206268--11206304 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11206258 TTATAGAATG
11206268 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11206305 AACTCTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11206787 original size:16 final size:16
Alignment explanation
Indices: 11206766--11206798 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11206756 CGCTGTATTG
11206766 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
11206782 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
11206798 G
1 G
11206799 TATTCTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.33, T:0.18
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:11207066 original size:22 final size:21
Alignment explanation
Indices: 11207041--11207092 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
11207031 TAGATATTCT
*
11207041 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
11207063 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
11207085 TAAT-TTAA
1 TAATATTAA
11207093 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:11211230 original size:18 final size:18
Alignment explanation
Indices: 11211209--11211247 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11211199 GATTGAGAGT
* *
11211209 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
11211227 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
11211245 GAA
1 GAA
11211248 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:11214863 original size:24 final size:24
Alignment explanation
Indices: 11214836--11214905 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
11214826 CATTTTAACT
*
11214836 TAATCGAACATGTTCATGAACATA
1 TAATTGAACATGTTCATGAACATA
*
11214860 TAATTAAATC-TGTTCATGAACATA
1 TAATTGAA-CATGTTCATGAACATA
*
11214884 TAATTGAATATGTTCATGAACA
1 TAATTGAACATGTTCATGAACA
11214906 ATATTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (24 bp):
TAATTGAACATGTTCATGAACATA
Found at i:11215723 original size:7 final size:7
Alignment explanation
Indices: 11215711--11215753 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
11215701 GAATTTATTT
11215711 ATTTTAA
1 ATTTTAA
11215718 ATTTTAA
1 ATTTTAA
11215725 ATTTTAA
1 ATTTTAA
11215732 ATTTTAA
1 ATTTTAA
11215739 ATTTTAA
1 ATTTTAA
11215746 A-TTTAA
1 ATTTTAA
11215752 AT
1 AT
11215754 AAATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTTAA
Found at i:11215888 original size:33 final size:33
Alignment explanation
Indices: 11215847--11215914 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
11215837 AATTTACATT
*
11215847 TGAAAATTAAAAATTTATTTAATTTAAATTGAA
1 TGAAAATTAAAAAATTATTTAATTTAAATTGAA
11215880 TGAAAATTAAAAAATTATTTAATTTAAATTGAA
1 TGAAAATTAAAAAATTATTTAATTTAAATTGAA
11215913 TG
1 TG
11215915 GATATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (33 bp):
TGAAAATTAAAAAATTATTTAATTTAAATTGAA
Found at i:11228114 original size:8 final size:8
Alignment explanation
Indices: 11228096--11228133 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
11228086 ATTTAGTCCC
11228096 TTTTTATTT
1 TTTTTA-TT
11228105 TTTTTATT
1 TTTTTATT
11228113 TTTTTA-T
1 TTTTTATT
*
11228120 TATTTATT
1 TTTTTATT
11228128 TTTTTA
1 TTTTTA
11228134 ATTAAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:11228620 original size:19 final size:19
Alignment explanation
Indices: 11228596--11228652 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
11228586 ATATACACAC
11228596 TTTATATTCTATTTTTTAT
1 TTTATATTCTATTTTTTAT
* *
11228615 TTTATAAT-T-TTGTTTAT
1 TTTATATTCTATTTTTTAT
*
11228632 TTTTTATTC-ATTTATTTAT
1 TTTATATTCTATTT-TTTAT
11228651 TT
1 TT
11228653 GTATTTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 13 0.43
18 3 0.10
19 14 0.47
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATATTCTATTTTTTAT
Found at i:11229079 original size:2 final size:2
Alignment explanation
Indices: 11229072--11229097 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11229062 GATGTTTTAA
11229072 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11229098 GAATAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11236519 original size:17 final size:16
Alignment explanation
Indices: 11236487--11236517 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11236477 CACGTGTCTC
11236487 TTTTTTTTAATATTTA
1 TTTTTTTTAATATTTA
11236503 TTTTTTTTAATATTT
1 TTTTTTTTAATATTT
11236518 TACTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTAATATTTA
Found at i:11237574 original size:3 final size:3
Alignment explanation
Indices: 11237568--11237625 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
11237558 ATAATAATAC
*
11237568 TGA TGA TGA TGA TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
11237616 TGA TGA TGA T
1 TGA TGA TGA T
11237626 AATTAAGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:11243262 original size:16 final size:16
Alignment explanation
Indices: 11243241--11243272 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11243231 ACAATAGAAG
11243241 AACTCCAAAAGTATAT
1 AACTCCAAAAGTATAT
11243257 AACTCCAAAAGTATAT
1 AACTCCAAAAGTATAT
11243273 TGTTCTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AACTCCAAAAGTATAT
Found at i:11250662 original size:6 final size:6
Alignment explanation
Indices: 11250651--11250677 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11250641 TAAGCCACAC
11250651 ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATA
11250678 AAAATATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:11251333 original size:25 final size:25
Alignment explanation
Indices: 11251249--11251338 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
11251239 TAAGCATAAA
* *
11251249 AACGGGAAGCTC-TTTCGAGCCACGT
1 AACGGGAAGCTCATGT-GAGCCATGT
* * *
11251274 AACGAGAAACTCATGTGAACCATGT
1 AACGGGAAGCTCATGTGAGCCATGT
* *
11251299 AACAGAAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATGTGAGCCATGT
*
11251324 AATGGGAAGCTCATG
1 AACGGGAAGCTCATG
11251339 CCAGCCAATA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 49 0.96
26 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCCATGT
Found at i:11251381 original size:24 final size:24
Alignment explanation
Indices: 11251305--11251385 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
11251295 ATGTAACAGA
* * *
11251305 AAGCTCATGTGAGCCATGTAATGGG
1 AAGCTCATGCGAGCCA-ATATTGGG
* * **
11251330 AAGCTCATGCCAGCCAATATCGAA
1 AAGCTCATGCGAGCCAATATTGGG
11251354 AAGCTCATGCGAGCCAATATTGGG
1 AAGCTCATGCGAGCCAATATTGGG
11251378 AAGCTCAT
1 AAGCTCAT
11251386 AAAAGAGCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 31 0.69
25 14 0.31
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (24 bp):
AAGCTCATGCGAGCCAATATTGGG
Found at i:11256714 original size:5 final size:5
Alignment explanation
Indices: 11256704--11256735 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11256694 ATTGATTTGC
11256704 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CC
1 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CC
11256736 GTTTCAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (5 bp):
CCTCT
Found at i:11258555 original size:22 final size:21
Alignment explanation
Indices: 11258534--11258592 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
11258524 AAAATATTAT
*
11258534 TTAATTAATTATTTTAATTTA
1 TTAATTAATTATTTTAACTTA
* **
11258555 TTAACTTAACTAAATTAACTTA
1 TTAA-TTAATTATTTTAACTTA
11258577 TTAATTAAATTATTTT
1 TTAATT-AATTATTTT
11258593 CTCAACCCGG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAATTAATTATTTTAACTTA
Found at i:11263040 original size:12 final size:12
Alignment explanation
Indices: 11263020--11263050 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11263010 CAAATTTGAC
*
11263020 ATTAATATTAAT
1 ATTATTATTAAT
11263032 ATTATTATTAAT
1 ATTATTATTAAT
11263044 ATTATTA
1 ATTATTA
11263051 GTATATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTAAT
Found at i:11264119 original size:5 final size:5
Alignment explanation
Indices: 11264109--11264133 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11264099 TGGAAAGTGA
11264109 AATTG AATTG AATTG AATTG AATTG
1 AATTG AATTG AATTG AATTG AATTG
11264134 TGATTGAATC
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
AATTG
Found at i:11269558 original size:42 final size:42
Alignment explanation
Indices: 11269499--11269581 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
11269489 TCACAAGTTC
*
11269499 CCTTATAAAAAGTTCCACATCATTTACGAAATTAAATTATGA
1 CCTTATAAAAAGTTCCACATCATTTACAAAATTAAATTATGA
*
11269541 CCTTATAAAAAGTTCCACGTCATTTACAAAATTAAATTATG
1 CCTTATAAAAAGTTCCACATCATTTACAAAATTAAATTATG
11269582 TTATATTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (42 bp):
CCTTATAAAAAGTTCCACATCATTTACAAAATTAAATTATGA
Found at i:11270488 original size:264 final size:264
Alignment explanation
Indices: 11270018--11270548 Score: 1053
Period size: 264 Copynumber: 2.0 Consensus size: 264
11270008 TTTGATATAC
11270018 TTGATTCAAGATCAACGATGACGTTTGATATCTTCAGCCCATTACCACCACAGTACTCCACTTCT
1 TTGATTCAAGATCAACGATGACGTTTGATATCTTCAGCCCATTACCACCACAGTACTCCACTTCT
11270083 CTCAGGTAAACGTTTGGGGCATACAATTTTTCTACTATGTTTAGCATACCTCTAGGTTCGAGTAA
66 CTCAGGTAAACGTTTGGGGCATACAATTTTTCTACTATGTTTAGCATACCTCTAGGTTCGAGTAA
11270148 GGAGAACATTCATCGTCACAATCACCCACAACGTGAACGCCGACACCACAAAAATATACCTCTAG
131 GGAGAACATTCATCGTCACAATCACCCACAACGTGAACGCCGACACCACAAAAATATACCTCTAG
11270213 GACCACACCATCAAACCATCAATTTTAGGGGTTTCTATAATTTAAATAGTCAACTTTGTATTTGT
196 GACCACACCATCAAACCATCAATTTTAGGGGTTTCTATAATTTAAATAGTCAACTTTGTATTTGT
11270278 TTAA
261 TTAA
11270282 TTGATTCAAGATCAACGATGACGTTTGATATCTTCAGCCCATTACCACCACAGTACTCCACTTCT
1 TTGATTCAAGATCAACGATGACGTTTGATATCTTCAGCCCATTACCACCACAGTACTCCACTTCT
11270347 CTCAGGTAAACGTTTGGGGCATACAATTTTTCTACTATGTTTAGCATACCTCTAGGTTCGAGTAA
66 CTCAGGTAAACGTTTGGGGCATACAATTTTTCTACTATGTTTAGCATACCTCTAGGTTCGAGTAA
*
11270412 GGAGAACATTCATCGTCACGATCACCCACAACGTGAACGCCGACACCACAAAAATATACCTCTAG
131 GGAGAACATTCATCGTCACAATCACCCACAACGTGAACGCCGACACCACAAAAATATACCTCTAG
11270477 GACCACACCATCAAACCATCAATTTTAGGGGTTTCTATAATTTAAATAGTCAACTTTGTATTTGT
196 GACCACACCATCAAACCATCAATTTTAGGGGTTTCTATAATTTAAATAGTCAACTTTGTATTTGT
11270542 TTAA
261 TTAA
11270546 TTG
1 TTG
11270549 TAGTAAAAGA
Statistics
Matches: 266, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 266 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (264 bp):
TTGATTCAAGATCAACGATGACGTTTGATATCTTCAGCCCATTACCACCACAGTACTCCACTTCT
CTCAGGTAAACGTTTGGGGCATACAATTTTTCTACTATGTTTAGCATACCTCTAGGTTCGAGTAA
GGAGAACATTCATCGTCACAATCACCCACAACGTGAACGCCGACACCACAAAAATATACCTCTAG
GACCACACCATCAAACCATCAATTTTAGGGGTTTCTATAATTTAAATAGTCAACTTTGTATTTGT
TTAA
Found at i:11274348 original size:26 final size:24
Alignment explanation
Indices: 11274303--11274350 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
11274293 GTCATCACTA
*
11274303 ACTAACAATTAATTTAAAATAATT
1 ACTAACAAATAATTTAAAATAATT
11274327 ACTAACAAAATAACTTTAAAATAA
1 ACTAAC-AAATAA-TTTAAAATAA
11274351 ATTAAAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 5 0.24
26 10 0.48
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.31
Consensus pattern (24 bp):
ACTAACAAATAATTTAAAATAATT
Found at i:11276527 original size:11 final size:11
Alignment explanation
Indices: 11276511--11276535 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11276501 CATAATAGTG
11276511 AAATGGTAGCA
1 AAATGGTAGCA
11276522 AAATGGTAGCA
1 AAATGGTAGCA
11276533 AAA
1 AAA
11276536 AAACAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (11 bp):
AAATGGTAGCA
Found at i:11276577 original size:26 final size:28
Alignment explanation
Indices: 11276534--11276585 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
11276524 ATGGTAGCAA
*
11276534 AAAAACAAGAAAGTAGCAACAAAACAGT
1 AAAAACAAGAAAGAAGCAACAAAACAGT
*
11276562 AAAAA-AA-AAAGAAGCAAGAAAACA
1 AAAAACAAGAAAGAAGCAACAAAACA
11276586 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 2 0.09
28 5 0.23
ACGTcount: A:0.71, C:0.12, G:0.13, T:0.04
Consensus pattern (28 bp):
AAAAACAAGAAAGAAGCAACAAAACAGT
Found at i:11277205 original size:31 final size:29
Alignment explanation
Indices: 11277161--11277247 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 29
11277151 TCTTTAAATG
*
11277161 TGTATGATTGAATCAAAATTAAAGTT-TCA
1 TGTATGATTGAATCAAAATCAAAGTTAT-A
*
11277190 TGTATGCATATGAATCACAATCAAAGTTATA
1 TGTATG-AT-TGAATCAAAATCAAAGTTATA
11277221 TGTATATGATT-ACATC-AAATCAAAGTT
1 TG--TATGATTGA-ATCAAAATCAAAGTT
11277248 CATGTATCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
29 6 0.12
30 13 0.27
31 23 0.47
32 3 0.06
33 4 0.08
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (29 bp):
TGTATGATTGAATCAAAATCAAAGTTATA
Found at i:11279926 original size:22 final size:23
Alignment explanation
Indices: 11279887--11279931 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11279877 AAACTAAATC
11279887 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
11279910 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
11279932 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:11279934 original size:19 final size:19
Alignment explanation
Indices: 11279887--11279963 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
11279877 AAACTAAATC
*
11279887 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
11279907 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
11279929 TCTAAGATTGCATACCATA
1 TCTAAGATTACATATCATA
*
11279948 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11279964 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11280592 original size:44 final size:45
Alignment explanation
Indices: 11280273--11281260 Score: 359
Period size: 44 Copynumber: 22.7 Consensus size: 45
11280263 CTCTAATCCA
* * * * * * *
11280273 CTCCACTACAACTT-AGGA-AGACAGGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * * * *
11280316 CCCCACTGCAATTTCAGG-GGGATAAGGCTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTT-AGTCTG
* * *
11280361 CTCCACTGCAACTTCAGG-GAGATAAGACTCGA-TA-TGA-TCTA
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
** * * * *
11280402 CTGTACTGCAACTTCA-GAGAGATAATATCTGTGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * * * *
11280446 CTCCACTGCAACTTTAGG-GAGACATGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
*
11280490 CCCCACTGCAACTTCAGG-GAGATAAGA-TTCGCCA-T-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTT-G--ATTACTT-AGTCTG
11280535 C-CTCACTGCAACTTCAGGAG-GATAAGACTTGATTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * **
11280579 CTCCACTGCAACTTCA-GAGAGATAAGATCTAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * ** *
11280623 CTCCACTACTACTTTAGGA-AGATAGGA-TT-ATCGGCTTTA-ACTTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGAT-TAC-TTAGTC-TG
* *
11280667 CTCCACTGCAACTTCAGG-GAGATAAGATTTG-TCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTA-CTT-AGTCTG
* *
11280712 C-CTCACTGCAACTTCAGGAG-GATAAGACTTGA-TGC-GA-TCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * ** * **
11280753 CT-CTCTGTAACTTCA-GAGAGATAAGATCTAAAGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CTTGA-TTACTTAGTCTG
* * * **
11280796 CTCCACTGTAACTTCAGGA-AGATAGGA-TT-ATTGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATT-AC-TTAGTCTG
* *
11280840 TTCCACTGCAACTTCAGG-GAGATAAGA-TT-TTTCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATT-A-CTT-AGTCTG
* * *
11280885 C-CTCACTGTAACTTCAGGAG-GATAAGACTTGCTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * *
11280929 CTCCATTGCAACTTCAGG-GAGATAAGACTAGA-TAC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * *
11280970 CT-CTCTACAACTTCA-GAAAGATAAGATCTGTGATT--TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGATTACTTAGTCTG
* * * ** *
11281013 CTCCACTACAACTTCAAG-GAGATAGGA-TTG-TCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGAT-TAC-TTAGTCTG
*
11281057 CTCCACTGCAACCTT-AGG-GAGATAAGATTTGCCA-T-CTTCAGTCTG
1 CTCCACTGCAA-CTTCAGGAGAGATAAGACTTG--ATTACTT-AGTCTG
* * *
11281102 C-CTCACTACAACTTCAGGAG-GATAAGACTTGCTTACTTAGTTTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * *
11281146 CTCTACTGCAACTTCAGG-GAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* ** * * *
11281187 CT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA--CTTGATTACTTAGTCTG
*
11281230 CTCCACTGCAACTTCAGG-GAGATAAGGCTTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG
11281261 GTGGCTTGAA
Statistics
Matches: 711, Mismatches: 140, Indels: 189
0.68 0.13 0.18
Matches are distributed among these distances:
39 5 0.01
40 61 0.09
41 49 0.07
42 23 0.03
43 47 0.07
44 338 0.48
45 174 0.24
46 12 0.02
47 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
Found at i:11280847 original size:173 final size:173
Alignment explanation
Indices: 11280313--11280915 Score: 721
Period size: 173 Copynumber: 3.5 Consensus size: 173
11280303 TTTATTTAGT
* * * ** * *
11280313 ATGCCCCACTGCAATTTCAGGGGGATAAGGCTTG-CTTTCTTGAGTCTG-CTCCACTGCAACTTC
1 ATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTC-ATCTTCAGTCTGCCT-CACTGCAACTTC
* * * * * **
11280376 AGG-GAGATAAGACTCGATATGATCTACTGTACTGCAACTTCAGAGAGATAATATCTGTGGTTTT
64 AGGAG-GATAAGACTTGATACGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGTTTT
* * * * * *** **
11280440 AATCCGCTCCACTGCAACTTTAGGGAGACATGATT-TGTTTATTTAGT
127 AATCCACTCCACTGTAACTTTAGGAAGATAGGATTAT-TGGCTTTAAC
* * *
11280487 ATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAG
1 ATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAG
* *
11280552 GAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTT
66 GAGGATAAGACTTGA-TAC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTT
* *
11280617 AATCCACTCCACTACT-ACTTTAGGAAGATAGGATTATCGGCTTTAAC
127 AATCCACTCCACT-GTAACTTTAGGAAGATAGGATTATTGGCTTTAAC
*
11280664 TTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAG
1 ATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAG
* * *
11280729 GAGGATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATC
66 GAGGATAAGACTTGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
*
11280794 CACTCCACTGTAACTTCAGGAAGATAGGATTATTGGCTTTAAC
131 CACTCCACTGTAACTTTAGGAAGATAGGATTATTGGCTTTAAC
* * * *
11280837 CTGTTCCACTGCAACTTCAGGGAGATAAGATTTTTCATCTTCAGTCTGCCTCACTGTAACTTCAG
1 ATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAG
11280902 GAGGATAAGACTTG
66 GAGGATAAGACTTG
11280916 CTTGCTTAGT
Statistics
Matches: 375, Mismatches: 44, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
172 1 0.00
173 149 0.40
174 71 0.19
175 7 0.02
176 3 0.01
177 143 0.38
178 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (173 bp):
ATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAG
GAGGATAAGACTTGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
CACTCCACTGTAACTTTAGGAAGATAGGATTATTGGCTTTAAC
Found at i:11280882 original size:350 final size:350
Alignment explanation
Indices: 11280266--11280955 Score: 863
Period size: 350 Copynumber: 2.0 Consensus size: 350
11280256 TCCATCACTC
** * * *
11280266 TAATCCACTCCACTACAACTTAGGAAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAATTTC
1 TAATCCACTCCACTACAACTTAGGAAGACAGGATTTGGCTATTAACTATGCCCCACTGCAACTTC
* * * * *
11280331 AGGGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATAT
66 AGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATAC
* * *** * *
11280396 GATCTACTGTACTGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCCGCTCCACTGCAACTTT
131 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCACTCCACTGCAACTTC
* * ** **
11280461 AGGGAGACATGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCATC
196 AGGAAGACAGGATTTGTGGATTTAACATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCATC
11280526 TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAAC
261 TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAAC
11280591 TTCAGAGAGATAAGATCTAAGGTTT
326 TTCAGAGAGATAAGATCTAAGGTTT
* * *
11280616 TAATCCACTCCACTACTACTTTAGGAAGATAGGATTATCGGCT-TTAACT-TGCTCCACTGCAAC
1 TAATCCACTCCACTACAAC-TTAGGAAGACAGGATT-T-GGCTATTAACTATGCCCCACTGCAAC
*
11280679 TTCAGGGAGATAAGATTTG-TCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACT
63 TTCAGGGAGATAAGACTTGCT-ATCTTCAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACT
* * * * *
11280741 TGATGCGATCTGCTCT-CTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCACTCCACTGT
125 CGATACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCACTCCACTGC
* * * **
11280805 AACTTCAGGAAGATAGGATTAT-TGGCTTTAACCTGTTCCACTGCAACTTCAGGGAGATAAGATT
190 AACTTCAGGAAGACAGGATT-TGTGGATTTAACATGCCCCACTGCAACTTCAGGGAGATAAGATT
*** * * *
11280869 TTTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCA
254 CGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCA
* *
11280934 TTGCAACTTCAGGGAGATAAGA
319 CTGCAACTTCAGAGAGATAAGA
11280956 CTAGATACGA
Statistics
Matches: 288, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
350 193 0.67
351 88 0.31
352 5 0.02
353 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (350 bp):
TAATCCACTCCACTACAACTTAGGAAGACAGGATTTGGCTATTAACTATGCCCCACTGCAACTTC
AGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATAC
GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCACTCCACTGCAACTTC
AGGAAGACAGGATTTGTGGATTTAACATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCATC
TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAAC
TTCAGAGAGATAAGATCTAAGGTTT
Found at i:11280985 original size:173 final size:175
Alignment explanation
Indices: 11280266--11280955 Score: 702
Period size: 173 Copynumber: 3.9 Consensus size: 175
11280256 TCCATCACTC
* *** *** * *
11280266 TAATCCACTCCACTACAACTT-AGGAAGACAGGATT-TGTTTATTTAGTATGCCCCACTGCAATT
1 TAATCCACTCCACTACAACTTCAGGAAGATAGGATTAT-TGGCTTTAACCTGCTCCACTGCAACT
* ** * * *
11280329 TCAGGGGGATAAGGCTTG-CTTTCTTGAGTCTG-CTCCACTGCAACTTCAGG-GAGATAAGACTC
65 TCAGGGAGATAAGATTTGTC-ATCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTT
* * * * ** * * **
11280391 GAT-ATGA-TCTACTGTACTGCAACTTCAGAGAGATAATATCTGTGGTTT
127 GTTGCTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGATCT-AAGTTT
* * * * * * *** *** *
11280439 TAATCCGCTCCACTGCAACTTTAGGGAGACATGATT-TGTTTATTTAGTATGCCCCACTGCAACT
1 TAATCCACTCCACTACAACTTCAGGAAGATAGGATTAT-TGGCTTTAACCTGCTCCACTGCAACT
* *
11280503 TCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
65 TCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG-T
* *
11280568 TACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTT
129 TGCTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGATCTAA-GTTT
* * * *
11280616 TAATCCACTCCACTACTACTTTAGGAAGATAGGATTATCGGCTTTAACTTGCTCCACTGCAACTT
1 TAATCCACTCCACTACAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTT
*
11280681 CAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATG
66 CAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTG
* *
11280746 C-GA-TCTGCT-C-TCTGTAACTTCAGAGAGATAAGATCTAAAGTTT
131 CTTAGTCTGCTCCAT-TGCAACTTCAGAGAGATAAGATCT-AAGTTT
** *
11280789 TAATCCACTCCACTGTAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGTTCCACTGCAACTT
1 TAATCCACTCCACTACAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTT
* *
11280854 CAGGGAGATAAGATTTTTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTT
66 CAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG-TT
*
11280919 GCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGA
130 GCTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGA
11280956 CTAGATACGA
Statistics
Matches: 446, Mismatches: 55, Indels: 28
0.84 0.10 0.05
Matches are distributed among these distances:
173 165 0.37
174 99 0.22
175 7 0.02
176 10 0.02
177 163 0.37
178 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (175 bp):
TAATCCACTCCACTACAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTT
CAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTG
CTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGATCTAAGTTT
Found at i:11281306 original size:217 final size:216
Alignment explanation
Indices: 11280670--11281279 Score: 800
Period size: 217 Copynumber: 2.8 Consensus size: 216
11280660 TAACTTGCTC
* * *
11280670 CACTGCAACTTCAGG-GAGATAAGATTTG-TCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGA
1 CACTACAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGGA
* * * *
11280731 GGATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCA
62 -GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
* * * *
11280796 CTCCACTGTAACTTCAGGAAGATAGGATTATTGGCTTTAACCTG-TTCCACTGCAACTTCAGGGA
126 CTCCACTGCAACTTCAGGGAGATAGGATT-GTGGCTTTAATCTGCTTCCACTGCAACTT-AGGGA
**
11280860 GATAAGATTTTTCATCTTCAGTCTGCCT
189 GATAAGATTTGCCATCTTCAGTCTGCCT
** * *
11280888 CACTGTAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
1 CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * ** * *
11280953 AGACTAGATACGATCTGCTCTCTACAACTTCAGAAAGATAAGATCTGTGATTTTAATCTGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* *
11281018 CTACAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGC-TCCACTGCAACCTTAGGGAGATAA
131 CTGCAACTTCAGGGAGATAGGATTGT-GGCTTTAATCTGCTTCCACTGCAA-CTTAGGGAGATAA
11281082 GATTTGCCATCTTCAGTCTGCCT
194 GATTTGCCATCTTCAGTCTGCCT
* *
11281105 CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTTTGCTCTACTGCAACTTCAGGGAGATA
1 CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
*
11281170 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* *
11281235 CTGCAACTTCAGGGAGATAAGGCTTGGTGGCTTGAATCTGCTTCC
131 CTGCAACTTCAGGGAGAT-AGGATT-GTGGCTTTAATCTGCTTCC
11281280 CTCTATCTTG
Statistics
Matches: 340, Mismatches: 42, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
216 1 0.00
217 281 0.83
218 51 0.15
219 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (216 bp):
CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
CTGCAACTTCAGGGAGATAGGATTGTGGCTTTAATCTGCTTCCACTGCAACTTAGGGAGATAAGA
TTTGCCATCTTCAGTCTGCCT
Found at i:11281418 original size:132 final size:132
Alignment explanation
Indices: 11281243--11281655 Score: 655
Period size: 132 Copynumber: 3.1 Consensus size: 132
11281233 CACTGCAACT
* * * * **
11281243 TCAGGGAGATAAGGCTTGGTGGCTTGAATCTGCTTCCCTCTATCTTGGAAAGATATGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
* * *
11281308 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCT
66 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
11281373 GC
131 GC
*
11281375 TCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
* * *
11281440 TCCTCGATCTTCTCCACTACTGTTTAGGGATATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
11281505 GC
131 GC
11281507 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
* ** * * *
11281572 TCCTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTATGATCCTCAACCTATTCCGCTGTT
66 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
11281637 GC
131 GC
11281639 TCAGGGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
11281656 AGTGTTTCAC
Statistics
Matches: 259, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 259 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:11288423 original size:19 final size:21
Alignment explanation
Indices: 11288385--11288423 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11288375 CCTTTTTTAA
*
11288385 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
11288406 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
11288424 CAGTAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:11288647 original size:19 final size:19
Alignment explanation
Indices: 11288623--11288695 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
11288613 TCATATTTTT
11288623 TAAGATTACATATCATATC
1 TAAGATTACATATCATATC
*
11288642 TAAGATTGCATATATCATATC
1 TAAGATT--ACATATCATATC
* *
11288663 TAAGATTGCATATCATAAC
1 TAAGATTACATATCATATC
*
11288682 TAAGATTGCATATC
1 TAAGATTACATATC
11288696 CTCGAAGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
TAAGATTACATATCATATC
Found at i:11288658 original size:21 final size:21
Alignment explanation
Indices: 11288632--11288694 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
11288622 TTAAGATTAC
11288632 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
11288653 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
11288672 ATATCATAACTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
11288693 AT
1 AT
11288695 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:11288705 original size:17 final size:18
Alignment explanation
Indices: 11288624--11288705 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
11288614 CATATTTTTT
* *
11288624 AAGATTACATATCATATCT
1 AAGATTGCATATCATA-CG
*
11288643 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCATA-CG
*
11288664 AAGATTGCATATCATAACT
1 AAGATTGCATATCAT-ACG
*
11288683 AAGATTGCATATCCT-CG
1 AAGATTGCATATCATACG
11288700 AAGATT
1 AAGATT
11288706 ATATTTCCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.12
19 30 0.53
20 1 0.02
21 19 0.33
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (18 bp):
AAGATTGCATATCATACG
Found at i:11289411 original size:44 final size:44
Alignment explanation
Indices: 11289323--11289408 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
11289313 GTTGGTCAAA
* * *
11289323 TAATATTAAAATAACCTACACTAATCATATTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
*
11289367 TAATATTAAAATAGCCTACACTAATAAGAGTTTAAGTG-GAAA
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAA
11289409 ACTTAAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 4 0.11
44 34 0.89
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
Found at i:11296141 original size:44 final size:44
Alignment explanation
Indices: 11296093--11296183 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
11296083 GTAGGTCAAA
* * *
11296093 TAATATTAAAATAACCTACATTGACCAGAGTTTAAGTGAGAAAC
1 TAATACTAAAATAACCTACACTAACCAGAGTTTAAGTGAGAAAC
*
11296137 TAATACTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAAC
1 TAATACTAAAATAACCTACACTAACCAGAGTTTAAGTGAGAAAC
11296181 TAA
1 TAA
11296184 AAATAGAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (44 bp):
TAATACTAAAATAACCTACACTAACCAGAGTTTAAGTGAGAAAC
Found at i:11306416 original size:128 final size:128
Alignment explanation
Indices: 11306188--11306441 Score: 400
Period size: 128 Copynumber: 2.0 Consensus size: 128
11306178 ATTGGACAGT
* * *
11306188 GTTTGATGCAATAGTTGGTTCCACAAAATCAATTCCTGATGGGAAAAGATTGCTCCATGCTTCAT
1 GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
* *
11306253 TGAAGAAACATCTGTCAGGTGTTTCTTATATGAACTCATCGTTGAAACCACAGTTTGACCAGC
66 TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCACAGTTTGACCAGC
* * *
11306316 GTTTGATGCAATAGTTGGTTCCGCAAAATCAACTCCTCATGCGAAACGATTTCTCCATGCTTCAT
1 GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
* * * *
11306381 TGAAGAGACATCTATTAGGTGTTTCTTATATGAACTTATCATTGAAACCATAGTTTGACCA
66 TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCACAGTTTGACCA
11306442 CGTAAGGAAC
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 114 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (128 bp):
GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCACAGTTTGACCAGC
Found at i:11311645 original size:22 final size:23
Alignment explanation
Indices: 11311620--11311663 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
11311610 ACCAAAATGA
11311620 TAGCAAAACAATGA-AAAAACAG
1 TAGCAAAACAATGAGAAAAACAG
*
11311642 TAGCAAAACAATTAGAAAAACA
1 TAGCAAAACAATGAGAAAAACA
11311664 ACAGCAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (23 bp):
TAGCAAAACAATGAGAAAAACAG
Found at i:11312578 original size:24 final size:23
Alignment explanation
Indices: 11312551--11312623 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
11312541 TGAAGTAAAA
11312551 TAAAAGTTGTGATAATTATACATT
1 TAAAAGTTGTGATAATTATACA-T
** *
11312575 TAAAAGTAATTATAATT-TA-A-
1 TAAAAGTTGTGATAATTATACAT
*
11312595 TAAAAGTTGTGATAATTACACAT
1 TAAAAGTTGTGATAATTATACAT
11312618 CTAAAA
1 -TAAAA
11312624 ATAATTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 14 0.37
21 1 0.03
22 2 0.05
23 2 0.05
24 19 0.50
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (23 bp):
TAAAAGTTGTGATAATTATACAT
Found at i:11312600 original size:44 final size:44
Alignment explanation
Indices: 11312549--11312639 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
11312539 GTTGAAGTAA
* * *
11312549 AATAAAAGTTGTGATAATTATACATTTAAAAGTAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
11312593 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
11312637 AAT
1 AAT
11312640 TTACAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
Found at i:11312609 original size:20 final size:21
Alignment explanation
Indices: 11312549--11312612 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
11312539 GTTGAAGTAA
11312549 AATAAAAGTTGTGATAATTAT
1 AATAAAAGTTGTGATAATTAT
** *
11312570 ACATTTAAAAGTAATTATAATT-T
1 A-A--TAAAAGTTGTGATAATTAT
11312593 AATAAAAGTTGTGATAATTA
1 AATAAAAGTTGTGATAATTA
11312613 CACATCTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 2 0.06
23 2 0.06
24 14 0.42
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (21 bp):
AATAAAAGTTGTGATAATTAT
Found at i:11314991 original size:17 final size:17
Alignment explanation
Indices: 11314966--11314999 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11314956 TGAATTTTCA
*
11314966 TTTGGCGAACTTTAAGG
1 TTTGACGAACTTTAAGG
11314983 TTTGACGAACTTTAAGG
1 TTTGACGAACTTTAAGG
11315000 GTTTAGCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (17 bp):
TTTGACGAACTTTAAGG
Found at i:11326889 original size:20 final size:20
Alignment explanation
Indices: 11326864--11326903 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11326854 GATATGGACT
11326864 TAATTTTTGCATACAAAGTC
1 TAATTTTTGCATACAAAGTC
11326884 TAATTTTTGCATACAAAGTC
1 TAATTTTTGCATACAAAGTC
11326904 AAAGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TAATTTTTGCATACAAAGTC
Found at i:11328467 original size:40 final size:40
Alignment explanation
Indices: 11328369--11328671 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
11328359 TCCTCGTTCA
* * * * *
11328369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11328408 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
11328448 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11328488 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11328528 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11328568 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11328608 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11328648 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11328672 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11336460 original size:40 final size:40
Alignment explanation
Indices: 11336362--11336664 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
11336352 TCCTCGTTCA
* * * * *
11336362 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11336401 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
11336441 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11336481 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11336521 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11336561 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11336601 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11336641 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11336665 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11340707 original size:28 final size:28
Alignment explanation
Indices: 11340675--11340737 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
11340665 AGTCTGAATA
11340675 TTGTTTTAGCTTTCGACATTTTCATTTC
1 TTGTTTTAGCTTTCGACATTTTCATTTC
*
11340703 TTGTTTTAGCTTTTGACATTTTCATTTC
1 TTGTTTTAGCTTTCGACATTTTCATTTC
*
11340731 TTCTTTT
1 TTGTTTT
11340738 TCTTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.13, C:0.16, G:0.10, T:0.62
Consensus pattern (28 bp):
TTGTTTTAGCTTTCGACATTTTCATTTC
Found at i:11341411 original size:16 final size:17
Alignment explanation
Indices: 11341378--11341416 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11341368 GCGATATGAT
*
11341378 ATTTTATTTAAAACTTA
1 ATTTAATTTAAAACTTA
*
11341395 ATTTAATTTAATA-TTA
1 ATTTAATTTAAAACTTA
11341411 ATTTAA
1 ATTTAA
11341417 CATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAATTTAAAACTTA
Found at i:11342017 original size:43 final size:43
Alignment explanation
Indices: 11341897--11342077 Score: 121
Period size: 43 Copynumber: 4.2 Consensus size: 43
11341887 GTTTACAAAC
* ** * ** *
11341897 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGCATTTTTTAT
1 AAAAACGCCGCTAAAGAACATAATCTTTAGCGGCGCTTTGTAT
* * * * ** **
11341940 -TAAGCGCCGCGAAAGAAGATGTTCTTTAATGGCGCTTTGTAT
1 AAAAACGCCGCTAAAGAACATAATCTTTAGCGGCGCTTTGTAT
* * * * * *
11341982 AAAAATGCCGCTAGAGATCATAATCTTTCGCGGCGCTTTTTTT
1 AAAAACGCCGCTAAAGAACATAATCTTTAGCGGCGCTTTGTAT
* ** *
11342025 ATAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTAC
1 AAAAACGCCGCTAAAGAACATAATCTTTAGCGGCGC-TTTGTAT
11342069 AAAAACGCC
1 AAAAACGCC
11342078 ACTATTTTTG
Statistics
Matches: 102, Mismatches: 34, Indels: 3
0.73 0.24 0.02
Matches are distributed among these distances:
42 33 0.32
43 57 0.56
44 12 0.12
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATAATCTTTAGCGGCGCTTTGTAT
Found at i:11342483 original size:21 final size:21
Alignment explanation
Indices: 11342443--11342494 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11342433 TTTCTTTTGA
*
11342443 ACCTCTGCTTCTCTCACTG-C
1 ACCTCTGCTTCCCTCACTGCC
**
11342463 AGCCTCTGCTTCCCTTGCTGCC
1 A-CCTCTGCTTCCCTCACTGCC
11342485 ACCTCTGCTT
1 ACCTCTGCTT
11342495 TAAGTTATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.08, C:0.44, G:0.13, T:0.35
Consensus pattern (21 bp):
ACCTCTGCTTCCCTCACTGCC
Found at i:11346977 original size:835 final size:835
Alignment explanation
Indices: 11345368--11347045 Score: 3178
Period size: 835 Copynumber: 2.0 Consensus size: 835
11345358 GCCTTCAGCA
*
11345368 ATCGATCCTTCTGGATATCGCTTGTTACGGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
1 ATCGATCCTTCTGGATATCGCTTGTTACAGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
11345433 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
66 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
11345498 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
131 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
* * *
11345563 TTGTGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAGGAAGGTGGGAAAATTTTCTC
196 TCGTGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAAGAAGGTGGGAAAATTTTCAC
*
11345628 CATGTTGCATAAAGTCAAAACGGCTCGATCCTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
261 CATATTGCATAAAGTCAAAACGGCTCGATCCTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
11345693 TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
326 TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
* *
11345758 CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTTATGTGATTTTAGCGA
391 CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTAATTTTAGCGA
11345823 ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
456 ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
11345888 TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAGAAGGC
521 TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAGAAGGC
11345953 GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
586 GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
11346018 TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
651 TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
*
11346083 TGTTCTCGCATACATTTTTCTCAATGTGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
716 TGTTCTCGCAGACATTTTTCTCAATGTGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
*
11346148 CAATAAGCCAACTGAAAAAAATACTTATTTTTTTCCACAAGTCTGCCTTATTAGG
781 CAATAAGCCAACTGAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
* *
11346203 ATCGATCCTTCTGGATATCGCTTGTTGCAGCAGTAAGACTTTAATTTGGATAGGAATCTAAACAC
1 ATCGATCCTTCTGGATATCGCTTGTTACAGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
*
11346268 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAGAAGTGAATGAAGGAAAATTTTAAAA
66 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
*
11346333 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTGCT
131 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
11346398 TCGTGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAAGAAGGTGGGAAAATTTTCAC
196 TCGTGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAAGAAGGTGGGAAAATTTTCAC
* *
11346463 CATATTGCATAAAGTCAAAACGGCTCGATCCTGTACCTTTTGAAGTTCTTGAACATCCAAAACTT
261 CATATTGCATAAAGTCAAAACGGCTCGATCCTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
11346528 TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
326 TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
11346593 CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTAATTTTAGCGA
391 CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTAATTTTAGCGA
11346658 ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
456 ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
11346723 TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAGAAGGC
521 TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAGAAGGC
*
11346788 GGCAACCGATATTTCCCATTCGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
586 GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
* * *
11346853 TAAATCAAGTGGACTCTGAATATTGTCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
651 TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
11346918 TGTTCTCGCAGACATTTTTCTCAATGTGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
716 TGTTCTCGCAGACATTTTTCTCAATGTGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
11346983 CAATAAGCCAACTGAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
781 CAATAAGCCAACTGAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
11347038 ATCG-TCCT
1 ATCGATCCT
11347046 CTTCGTCGGA
Statistics
Matches: 824, Mismatches: 19, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
834 4 0.00
835 820 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (835 bp):
ATCGATCCTTCTGGATATCGCTTGTTACAGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
TCGTGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAAGAAGGTGGGAAAATTTTCAC
CATATTGCATAAAGTCAAAACGGCTCGATCCTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTAATTTTAGCGA
ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAGAAGGC
GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
TGTTCTCGCAGACATTTTTCTCAATGTGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
CAATAAGCCAACTGAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
Found at i:11348764 original size:9 final size:9
Alignment explanation
Indices: 11348750--11349297 Score: 515
Period size: 9 Copynumber: 62.4 Consensus size: 9
11348740 TTTTTATGTA
11348750 TTATGTAAG
1 TTATGTAAG
11348759 TTATGTAAG
1 TTATGTAAG
11348768 TTATGT-A-
1 TTATGTAAG
11348775 TTATGT-A-
1 TTATGTAAG
*
11348782 CTATGTAAG
1 TTATGTAAG
*
11348791 -TACTGTGAG
1 TTA-TGTAAG
*
11348800 TAATGTAAG
1 TTATGTAAG
*
11348809 TTATCT-A-
1 TTATGTAAG
11348816 TTATGT-A-
1 TTATGTAAG
11348823 TTATGTAAG
1 TTATGTAAG
11348832 TTATGTAAG
1 TTATGTAAG
11348841 TTATGTAAG
1 TTATGTAAG
11348850 TTATGT-A-
1 TTATGTAAG
11348857 TTATGT-A-
1 TTATGTAAG
11348864 TTATGTAAG
1 TTATGTAAG
11348873 -TACTGTAAG
1 TTA-TGTAAG
11348882 -TACTGTAAG
1 TTA-TGTAAG
11348891 -TACTGTAAG
1 TTA-TGTAAG
*
11348900 TAATGT-A-
1 TTATGTAAG
11348907 TTATGTAAG
1 TTATGTAAG
* *
11348916 TTGTGTATAATA
1 TTATG--TAA-G
11348928 TTAATGTAAG
1 TT-ATGTAAG
11348938 TTATGTAAG
1 TTATGTAAG
* *
11348947 TTATTTAAT
1 TTATGTAAG
*
11348956 TTTTGTAAG
1 TTATGTAAG
11348965 TTATGTAA-
1 TTATGTAAG
11348973 TTAATGTAAG
1 TT-ATGTAAG
* *
11348983 TTATTTAAT
1 TTATGTAAG
11348992 TTATGTAAG
1 TTATGTAAG
11349001 TTATGTAAG
1 TTATGTAAG
11349010 TTATGTAAG
1 TTATGTAAG
*
11349019 TTACT-TAAT
1 TTA-TGTAAG
11349028 TTATGTAAG
1 TTATGTAAG
11349037 TTATGTAAG
1 TTATGTAAG
* *
11349046 TTATTTAAT
1 TTATGTAAG
11349055 TTATGTAAG
1 TTATGTAAG
11349064 TTATGTAAG
1 TTATGTAAG
11349073 TTATGTAAG
1 TTATGTAAG
11349082 TTAAT-T---
1 TT-ATGTAAG
11349088 TT-TGTAAG
1 TTATGTAAG
11349096 TTATGTAAG
1 TTATGTAAG
* *
11349105 TTATTTAAT
1 TTATGTAAG
11349114 TTATGTAAG
1 TTATGTAAG
11349123 TTATGTAAG
1 TTATGTAAG
* *
11349132 TTATTTAAT
1 TTATGTAAG
*
11349141 TTTTGTAAG
1 TTATGTAAG
11349150 TTATGTAA-
1 TTATGTAAG
11349158 TTAATGTAAG
1 TT-ATGTAAG
* *
11349168 TTATTTAAT
1 TTATGTAAG
11349177 TTATGTAAG
1 TTATGTAAG
11349186 TTATGTAAG
1 TTATGTAAG
11349195 TTATGTAAG
1 TTATGTAAG
11349204 TTACT-TAA-
1 TTA-TGTAAG
11349212 TCTATGTAAG
1 T-TATGTAAG
11349222 TTATGTAAG
1 TTATGTAAG
* *
11349231 TTATTTAAT
1 TTATGTAAG
11349240 TTATGTAAG
1 TTATGTAAG
11349249 TTATGTAAG
1 TTATGTAAG
* *
11349258 TTATTTAAT
1 TTATGTAAG
*
11349267 TTTTGTAAG
1 TTATGTAAG
11349276 TTATGTAA-
1 TTATGTAAG
11349284 TTAATGTAAG
1 TT-ATGTAAG
11349294 TTAT
1 TTAT
11349298 TTAAATTGTG
Statistics
Matches: 452, Mismatches: 53, Indels: 68
0.79 0.09 0.12
Matches are distributed among these distances:
4 1 0.00
5 1 0.00
6 2 0.00
7 42 0.09
8 23 0.05
9 358 0.79
10 15 0.03
11 6 0.01
12 2 0.00
13 2 0.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11352925 original size:14 final size:15
Alignment explanation
Indices: 11352894--11352928 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
11352884 TCTGACCCCA
*
11352894 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
11352909 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
11352923 AAATCC
1 AAATCC
11352929 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:11354050 original size:115 final size:115
Alignment explanation
Indices: 11353843--11354070 Score: 316
Period size: 115 Copynumber: 2.0 Consensus size: 115
11353833 GTTAAGACCA
* *
11353843 AAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGTGCCGCTAATACTATGCTT
1 AAACGCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTT
* * * *
11353908 TAGCGGCGATTTCTCGTGGACGCCACTAATTCTAGTATACATCAAGACTT
66 TAGCGGCGATTTCCCATAGACGCCACTAATTCTAATATACATCAAGACTT
* * * *
11353958 AAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCTT
1 AAACGCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTT
* *
11354023 TAGCGGCG-TTCTCCCATA-AGCGTCACTAATTCTAATATACCTCAAGAC
66 TAGCGGCGATT-TCCCATAGA-CGCCACTAATTCTAATATACATCAAGAC
11354071 AAAACTTTGC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
114 3 0.03
115 96 0.97
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (115 bp):
AAACGCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTT
TAGCGGCGATTTCCCATAGACGCCACTAATTCTAATATACATCAAGACTT
Found at i:11354581 original size:112 final size:112
Alignment explanation
Indices: 11354323--11354585 Score: 298
Period size: 112 Copynumber: 2.3 Consensus size: 112
11354313 GGCGTTTACC
* * * ** *
11354323 CATAAGCGCCACAAATTCTAATATACCTCTAGACCAAACTCTGCGTTTTGGTTAACATATATTGC
1 CATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGATGCGTTTTCGTTAACATATATTGC
* * * *
11354388 GGCGCTTTTTGTAAGCGCCGCTAATACTTGCTTTAGTGGCGGGTTTT
66 GGCGCTTTTCGCAAGCGCCGCTAATACTTCCTTTAGCGGCGGGTTTT
* * * ** * * *
11354435 CGTAAGCGCCGCTAATGCTAATATACAGCGAGACAAAACGATGCGTTTTCGTTAAGAT-TGTTGC
1 CATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGATGCGTTTTCGTTAACATATATTGC
* *
11354499 GGTGC-TTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGC-GTTTTAT
66 GGCGCTTTTCG-CAA-GCGCCGCTAATACTTCCTTTAGCGGCGGGTTT-T
11354547 CATAAGCGCCACTAATTCTAATATACCTCAAGACAAAAC
1 CATAAGCGCCACTAATTCTAATATACCTCAAGACAAAAC
11354586 TCTGCATTTT
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
110 4 0.03
111 15 0.12
112 104 0.85
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (112 bp):
CATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGATGCGTTTTCGTTAACATATATTGC
GGCGCTTTTCGCAAGCGCCGCTAATACTTCCTTTAGCGGCGGGTTTT
Found at i:11354979 original size:510 final size:510
Alignment explanation
Indices: 11353837--11355081 Score: 2082
Period size: 510 Copynumber: 2.4 Consensus size: 510
11353827 TGCATGGTTA
* * * **** *
11353837 AGACCAAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGTGCCGCTAATACT
1 AGACC-AAACTCTGCGTTTTGGTTAACATATATTGCGGCGCTT-TTTGTAAGCGCCGCTAATACT
* * * * * * * * * *
11353902 ATGCTTTAGCGGC-GATTTCTCGT-GGACGCCACTAATTCTAGTATACATCAAGACTTAAACGCT
64 -TGCTTTAGTGGCGGGTTT-TCGTAAG-CGCCGCTAATGCTAATATACAGCGAGAC-AAAACGAT
* * * * * * * *
11353965 GCGTTTTGGTTAATATATTTTGCGGCGCTTCTC-AAAACGCGCCGCTAATAGTATGCTTTAGCGG
125 GCGTTTTCGTTAAGAT-TGTTGCGGTGCTT-TCGACAATGCGCCGCTAATACT-TCCTTTAGCGG
* ** * *
11354029 CGTTCTCCCATAAGCGTCACTAATTCTAATATACCTCAAGACAAAACTTTGCATTTTGGTGTGCA
187 CGTTTTATCATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACTCTGCATTTTGGTGTGCA
11354094 TATTTTGCAGCGCTTACTATGCTTTAGCGGCGTTTTCCAGTATGCGCCACTAATTACTGTATACA
252 TATTTTGCAGCGCTTACTATGCTTTAGCGGCGTTTTCCAGTATGCGCCACTAATTACTGTATACA
11354159 TCAAGACAAAAACGTTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCACAAAACGCCGTTAAT
317 TCAAGACAAAAACGTTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCACAAAACGCCGTTAAT
11354224 ATTATGCTTTAGCGGCGTTTTCCCTTAAGCGCCATTAACTGTAACATACACCAAGACCAAAATGG
382 ATTATGCTTTAGCGGCGTTTTCCCTTAAGCGCCATTAACTGTAACATACACCAAGACCAAAATGG
11354289 TGCGCTTTGGTTAGGATATTTTGCGGCGTTTACCCATAAGCGCCACAAATTCTAATATACCTCT
447 TGCGCTTTGGTTAGGATATTTTGCGGCGTTTACCCATAAGCGCCACAAATTCTAATATACCTCT
11354353 AGACCAAACTCTGCGTTTTGGTTAACATATATTGCGGCGCTTTTTGTAAGCGCCGCTAATACTTG
1 AGACCAAACTCTGCGTTTTGGTTAACATATATTGCGGCGCTTTTTGTAAGCGCCGCTAATACTTG
11354418 CTTTAGTGGCGGGTTTTCGTAAGCGCCGCTAATGCTAATATACAGCGAGACAAAACGATGCGTTT
66 CTTTAGTGGCGGGTTTTCGTAAGCGCCGCTAATGCTAATATACAGCGAGACAAAACGATGCGTTT
11354483 TCGTTAAGATTGTTGCGGTGCTTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGCGTTTTATC
131 TCGTTAAGATTGTTGCGGTGCTTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGCGTTTTATC
11354548 ATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACTCTGCATTTTGGTGTGCATATTTTGCA
196 ATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACTCTGCATTTTGGTGTGCATATTTTGCA
11354613 GCGCTTACTATGCTTTAGCGGCGTTTTCCAGTATGCGCCACTAATTACTGTATACATCAAGACAA
261 GCGCTTACTATGCTTTAGCGGCGTTTTCCAGTATGCGCCACTAATTACTGTATACATCAAGACAA
11354678 AAACGTTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCACAAAACGCCGTTAATATTATGCTT
326 AAACGTTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCACAAAACGCCGTTAATATTATGCTT
11354743 TAGCGGCGTTTTCCCTTAAGCGCCATTAACTGTAACATACACCAAGACCAAAATGGTGCGCTTTG
391 TAGCGGCGTTTTCCCTTAAGCGCCATTAACTGTAACATACACCAAGACCAAAATGGTGCGCTTTG
11354808 GTTAGGATATTTTGCGGCGTTTACCCATAAGCGCCACAAATTCTAATATACCTCT
456 GTTAGGATATTTTGCGGCGTTTACCCATAAGCGCCACAAATTCTAATATACCTCT
*
11354863 AGACCGAACTCTGCGTTTTGGTTAACATATATTGCGGCGCTTTTTGTAAGCGCCGCTAATACTTG
1 AGACCAAACTCTGCGTTTTGGTTAACATATATTGCGGCGCTTTTTGTAAGCGCCGCTAATACTTG
*
11354928 CTTTAGTGGCGGGTTTTTGTAAGCGCCGCTAATGCTAATATACAGCGAGACAAAACGATGCGTTT
66 CTTTAGTGGCGGGTTTTCGTAAGCGCCGCTAATGCTAATATACAGCGAGACAAAACGATGCGTTT
11354993 TCGTTAAGATTGTTGCGGTGCTTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGCGTTTTATC
131 TCGTTAAGATTGTTGCGGTGCTTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGCGTTTTATC
*
11355058 ATAAGCGCCACTAATTCTAGTATA
196 ATAAGCGCCACTAATTCTAATATA
11355082 TCTTGAGATT
Statistics
Matches: 692, Mismatches: 34, Indels: 12
0.94 0.05 0.02
Matches are distributed among these distances:
510 547 0.79
511 27 0.04
512 20 0.03
513 38 0.05
514 21 0.03
515 34 0.05
516 5 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (510 bp):
AGACCAAACTCTGCGTTTTGGTTAACATATATTGCGGCGCTTTTTGTAAGCGCCGCTAATACTTG
CTTTAGTGGCGGGTTTTCGTAAGCGCCGCTAATGCTAATATACAGCGAGACAAAACGATGCGTTT
TCGTTAAGATTGTTGCGGTGCTTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGCGTTTTATC
ATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACTCTGCATTTTGGTGTGCATATTTTGCA
GCGCTTACTATGCTTTAGCGGCGTTTTCCAGTATGCGCCACTAATTACTGTATACATCAAGACAA
AAACGTTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCACAAAACGCCGTTAATATTATGCTT
TAGCGGCGTTTTCCCTTAAGCGCCATTAACTGTAACATACACCAAGACCAAAATGGTGCGCTTTG
GTTAGGATATTTTGCGGCGTTTACCCATAAGCGCCACAAATTCTAATATACCTCT
Found at i:11359803 original size:112 final size:110
Alignment explanation
Indices: 11359509--11359935 Score: 592
Period size: 110 Copynumber: 3.9 Consensus size: 110
11359499 TGGATTAAGA
* * * *
11359509 TTTAAGAGGATATTTG-GTCATTTGGTCAAACGAG--AAGTCGAAACCCAGCACATTAGGGCGCG
1 TTTAAAAGGATATTTGACT-ATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
* * *
11359571 -TTTCTCGAATTTCCAAACGTAGAACATTGCCTTATTTTGAAATTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTT
* * * *
11359616 TTAAAAAGAATGTTTGACTATTTGGTCAAATGAGAAAAAATCGAAACCCAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGACTATTTGGTCAAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACG
*
11359681 TTTTCTCGAATTTCCAAACGCAAAACATCACCTTATTTTGAAATTTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA-TTT
* *
11359728 CTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
1 -TTTAAAAGGATATTTGACTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
*
11359793 TTTTCTCGAATTTCCAAACGCAAAATATTACCTTATTTTGAAATTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTT
* * * *
11359839 TTTAAAAAGATATTTGACGATTCGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
11359904 TCTCTCGAATTTACAAACGCAAAATATTACCT
66 TTTCTCGAATTTCCAAACGCAAAACATTACCT
11359936 CGTTTAAAAA
Statistics
Matches: 287, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
107 26 0.09
108 1 0.00
110 117 0.41
111 41 0.14
112 74 0.26
113 28 0.10
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (110 bp):
TTTAAAAGGATATTTGACTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTT
Done.