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 160 of 214
Found at i:47605088 original size:28 final size:28
Alignment explanation
Indices: 47605051--47605138 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
47605041 CATACAGTAG
* *
47605051 CAGTCTGGGCCTAAGCCCAATAAAGCAA
1 CAGTGTGGGCCTTAGCCCAATAAAGCAA
* * * *
47605079 TAGT-TGGGGCCTTATCCCAATACAGTAA
1 CAGTGT-GGGCCTTAGCCCAATAAAGCAA
* *
47605107 CAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTGTGGGCCTTAGCCCAATAAAGCAA
47605135 CAGT
1 CAGT
47605139 ATAATGCAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 49 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATAAAGCAA
Found at i:47605305 original size:26 final size:26
Alignment explanation
Indices: 47605276--47605325 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
47605266 TAATAATGAT
*
47605276 GCAACAAAGCTGCCAGTAACAGTAAC
1 GCAAAAAAGCTGCCAGTAACAGTAAC
47605302 GCAAAAAAGCTGCCAGTAACAGTA
1 GCAAAAAAGCTGCCAGTAACAGTA
47605326 TATGTGGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (26 bp):
GCAAAAAAGCTGCCAGTAACAGTAAC
Found at i:47605522 original size:27 final size:27
Alignment explanation
Indices: 47605500--47605810 Score: 301
Period size: 27 Copynumber: 11.5 Consensus size: 27
47605490 AGGGGTATAA
* *
47605500 CAGTCATTTTACCTTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * *
47605527 CGGTAATTTTACCCTTCCAAGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
47605554 CAGTAATCTTT-CCCTTTGAGGGTATTT
1 CAGTAAT-TTTACCCTTCGAGGGTATTT
* **
47605581 TAGTAATTTTA-CCTTTTAGGAGTATTT
1 CAGTAATTTTACCCTTCGAGG-GTATTT
*
47605608 C-GATAATTTTACCTTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
*
47605635 CAGTAATTTTACCCATCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
47605662 TAGTAATTTTACCCATCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
47605689 TAGTAATTTTACCCTTCAAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
** *
47605716 TGGTAATTTTACCCTTCAAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * *
47605743 C-GATAATTTTA-CTTATCAACGGTATTT
1 CAG-TAATTTTACCCT-TCGAGGGTATTT
* * *
47605770 TAGTAGTTTTACCCCATCGAGGGTATTT
1 CAGTAATTTTA-CCCTTCGAGGGTATTT
*
47605798 -GGTAATTTTACCC
1 CAGTAATTTTACCC
47605811 ACGAATCGTA
Statistics
Matches: 241, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
26 18 0.07
27 201 0.83
28 21 0.09
29 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (27 bp):
CAGTAATTTTACCCTTCGAGGGTATTT
Found at i:47610689 original size:32 final size:32
Alignment explanation
Indices: 47610634--47610757 Score: 140
Period size: 32 Copynumber: 3.9 Consensus size: 32
47610624 ATAAGTACAT
* * * * *
47610634 TAATATGATTGGCACAAAACCATCAATAGTAG
1 TAATATGATCGGCATAAAGCCATCAGTAATAG
* *
47610666 TAATATGATCGGCATACAGCCATCAGTAATGG
1 TAATATGATCGGCATAAAGCCATCAGTAATAG
* *
47610698 TAACATGATCGGCATAAAGCCATCAGTAACAG
1 TAATATGATCGGCATAAAGCCATCAGTAATAG
* * *
47610730 TAATATGATCGGTAAAAAACCATCAGTA
1 TAATATGATCGGCATAAAGCCATCAGTA
47610758 GCATCGCAGC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (32 bp):
TAATATGATCGGCATAAAGCCATCAGTAATAG
Found at i:47610932 original size:24 final size:24
Alignment explanation
Indices: 47610903--47610960 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
47610893 CCATTCTCAG
47610903 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* * *
47610927 ATTCAGTTATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
47610951 AATCAATCAT
1 AATCAGTCAT
47610961 TTACACTCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:47611223 original size:27 final size:27
Alignment explanation
Indices: 47610983--47611224 Score: 222
Period size: 27 Copynumber: 9.0 Consensus size: 27
47610973 AGCAAAATAG
* * * *
47610983 TCATTT-ACCCTCTAAGGGTATTATGG
1 TCATTTAACCCTATAGGGGTATTACGA
* *
47611009 TCATTTTAA-CTTATAGGGGTATTACGG
1 TCA-TTTAACCCTATAGGGGTATTACGA
* * * * *
47611036 TTATTT-TCTCTATAGGGTTATTACGG
1 TCATTTAACCCTATAGGGGTATTACGA
* *
47611062 TCATTTAACCCTATAGGGGTACTACGG
1 TCATTTAACCCTATAGGGGTATTACGA
* * * * *
47611089 TTATTTTACCCCATAGAGGCATTACGA
1 TCATTTAACCCTATAGGGGTATTACGA
* *
47611116 TCATTTTACCCTACAGGGGTATTAC-A
1 TCATTTAACCCTATAGGGGTATTACGA
* *
47611142 GTCATTTAACCCTATGGGGGTATTACAA
1 -TCATTTAACCCTATAGGGGTATTACGA
*
47611170 TCATTTTACCCTATAGGGGTATTACGA
1 TCATTTAACCCTATAGGGGTATTACGA
*
47611197 TCATTTAACCCTATGGGGGTATTACGA
1 TCATTTAACCCTATAGGGGTATTACGA
47611224 T
1 T
47611225 TGTTTTACAA
Statistics
Matches: 176, Mismatches: 34, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 27 0.15
27 147 0.84
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
TCATTTAACCCTATAGGGGTATTACGA
Found at i:47611338 original size:19 final size:19
Alignment explanation
Indices: 47611314--47611351 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47611304 CCCAATGCCA
47611314 ATTTTCGGCCCACGTAGGC
1 ATTTTCGGCCCACGTAGGC
47611333 ATTTTCGGCCCACGTAGGC
1 ATTTTCGGCCCACGTAGGC
47611352 CTACACGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.26, T:0.26
Consensus pattern (19 bp):
ATTTTCGGCCCACGTAGGC
Found at i:47612039 original size:31 final size:32
Alignment explanation
Indices: 47612004--47612145 Score: 90
Period size: 32 Copynumber: 4.5 Consensus size: 32
47611994 GAATGGCTAC
* *
47612004 AAGCCATAAGTA-CATTAATATGATTGGCACA
1 AAGCCATAAGTAGCAGTAATATGATCGGCACA
* * *
47612035 AAGCCATCAGTAGTAGTAATATGATCGGCATA
1 AAGCCATAAGTAGCAGTAATATGATCGGCACA
* * * * *
47612067 CAA-CCATCAGTAACGGTAATATGATCGGGAAA
1 -AAGCCATAAGTAGCAGTAATATGATCGGCACA
* * ** ** * *
47612099 AATCTATTCGTAATAGTAATATAATCAGCACA
1 AAGCCATAAGTAGCAGTAATATGATCGGCACA
*
47612131 AAGCCATCAGTAGCA
1 AAGCCATAAGTAGCA
47612146 TTGCAGCAAA
Statistics
Matches: 83, Mismatches: 25, Indels: 5
0.73 0.22 0.04
Matches are distributed among these distances:
31 13 0.16
32 68 0.82
33 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (32 bp):
AAGCCATAAGTAGCAGTAATATGATCGGCACA
Found at i:47612057 original size:32 final size:32
Alignment explanation
Indices: 47612019--47612142 Score: 117
Period size: 32 Copynumber: 3.9 Consensus size: 32
47612009 ATAAGTACAT
* *
47612019 TAATATGATTGGCACAAAGCCATCAGTAGTAG
1 TAATATGATCGGCACAAAGCCATCAGTAATAG
* **
47612051 TAATATGATCGGCATACAA-CCATCAGTAACGG
1 TAATATGATCGGCACA-AAGCCATCAGTAATAG
* * * *
47612083 TAATATGATCGGGAAAAATCTATTC-GTAATAG
1 TAATATGATCGGCACAAAGCCA-TCAGTAATAG
* *
47612115 TAATATAATCAGCACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
47612143 GCATTGCAGC
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
31 4 0.06
32 64 0.89
33 4 0.06
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAATAG
Found at i:47612353 original size:24 final size:24
Alignment explanation
Indices: 47612326--47612374 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
47612316 AGTTATACCA
*
47612326 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
**
47612350 ATCATGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
47612374 A
1 A
47612375 CTCGAGGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:47612441 original size:27 final size:27
Alignment explanation
Indices: 47612411--47612697 Score: 308
Period size: 27 Copynumber: 10.6 Consensus size: 27
47612401 CTCTAAGGAC
* * *
47612411 ATTATGGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
47612438 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
47612465 ATTACGGTTATTTAACCCTATAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
47612492 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
** *
47612519 ATTATAGTCA-TTTATCCCTATGGGGGGT
1 ATTACGGTCATTTTA-CCCTAT-AGGGGT
*
47612547 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
47612574 ATTACGATCATTTAACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * *
47612601 ATTACAGTTATTTAACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
47612628 ATTACGGTCATTTTACCCTACT-GGGGC
1 ATTACGGTCATTTTACCCTA-TAGGGGT
* * *
47612655 ATTACGGTTATTTAACCCTATTGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
47612682 ATTACAGTTATTTTAC
1 ATTACGGTCATTTTAC
47612698 AACCTTTTCG
Statistics
Matches: 220, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.02
27 192 0.87
28 19 0.09
29 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:47612587 original size:109 final size:108
Alignment explanation
Indices: 47612417--47612686 Score: 346
Period size: 109 Copynumber: 2.5 Consensus size: 108
47612407 GGACATTATG
* * * *
47612417 GTCATTTTACCTTACAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGGTTATTTAACC
1 GTCATTTTACCCTACTGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGATCATTTAACC
* * *
47612482 CTATAAGGGTATTACGGTCATTTTACCCTATAGGGGTATTATA
66 CTATAAGGGTATTACAGTCATTTAACCCTATAGGGGTATTACA
*
47612525 GTCA-TTTATCCCTA-TGGGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTA
1 GTCATTTTA-CCCTACT--GGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGATCATTTA
** * * *
47612588 ACCCTATGGGGGTATTACAGTTATTTAACCTTATAGGGGTATTACG
63 ACCCTATAAGGGTATTACAGTCATTTAACCCTATAGGGGTATTACA
* * **
47612634 GTCATTTTACCCTACTGGGGCATTACGGTTATTTAACCCTATTGGGGTATTAC
1 GTCATTTTACCCTACTGGGGTATTACGGTTATTTTACCCTACAGGGGTATTAC
47612687 AGTTATTTTA
Statistics
Matches: 139, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
107 4 0.03
108 40 0.29
109 90 0.65
110 5 0.04
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (108 bp):
GTCATTTTACCCTACTGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGATCATTTAACC
CTATAAGGGTATTACAGTCATTTAACCCTATAGGGGTATTACA
Found at i:47619145 original size:28 final size:28
Alignment explanation
Indices: 47619114--47619173 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
47619104 CATGCAGTAG
47619114 CAGTCTGGGCCTGAGCCCAATACAACAA
1 CAGTCTGGGCCTGAGCCCAATACAACAA
* * *
47619142 CAGTGTGGGCCTTAGCCCAATACAATAA
1 CAGTCTGGGCCTGAGCCCAATACAACAA
47619170 CAGT
1 CAGT
47619174 ACAATGCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (28 bp):
CAGTCTGGGCCTGAGCCCAATACAACAA
Found at i:47619525 original size:27 final size:27
Alignment explanation
Indices: 47619495--47619555 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
47619485 TCAACTCCTA
*
47619495 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATAACAGCCATTTTACCCTATG
*** *
47619522 GGGGTATTTTAGCCATTTTACCCTTTG
1 GGGGTATAACAGCCATTTTACCCTATG
47619549 GGGGTAT
1 GGGGTAT
47619556 TTCGATAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGGTATAACAGCCATTTTACCCTATG
Found at i:47619566 original size:27 final size:27
Alignment explanation
Indices: 47619536--47619867 Score: 400
Period size: 27 Copynumber: 12.3 Consensus size: 27
47619526 TATTTTAGCC
*
47619536 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
47619563 ATTTTACCC-TTGAGGGGTATTTCG-TA
1 ATTTTACCCTTTGA-GGGTATTTCGATA
* * *
47619589 ATCTTACCCTTTAAGGGTATTTCAATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* * *
47619616 ATCTTACCCTTTTAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTCGATA
*
47619643 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* * * *
47619670 ATTTTACCCTTCGAGGATATTTTGGTA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* * * *
47619697 AATTTAACCTTCGAGGGTATTT-TAGTA
1 ATTTTACCCTTTGAGGGTATTTCGA-TA
* * *
47619724 ATTTTACTCATTGAGGGTATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
*
47619751 ATTTTACCCTTTGAGGGCATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* *
47619778 GTTTTACCCTTTGAGGGTATTTCGATT
1 ATTTTACCCTTTGAGGGTATTTCGATA
*
47619805 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* *
47619832 ATTTTACCCTTCGAGGTTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
47619859 ATTTTACCC
1 ATTTTACCC
47619868 ACGAATCGTA
Statistics
Matches: 264, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 22 0.08
27 241 0.91
28 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTCGATA
Found at i:47623560 original size:42 final size:42
Alignment explanation
Indices: 47623493--47623587 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
47623483 TTTCGGTATA
* * *
47623493 GCACACTTGGTGCCCGTTATTCAACATCATCATTTTAATTTC
1 GCACACTTAGTGCCCATTATCCAACATCATCATTTTAATTTC
* *
47623535 GCACACTTAGTGCCTATTATCCAACATCATTATTTTAATTTC
1 GCACACTTAGTGCCCATTATCCAACATCATCATTTTAATTTC
*
47623577 ACACACTTAGT
1 GCACACTTAGT
47623588 TCCGTTCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.38
Consensus pattern (42 bp):
GCACACTTAGTGCCCATTATCCAACATCATCATTTTAATTTC
Found at i:47629178 original size:28 final size:29
Alignment explanation
Indices: 47629122--47629341 Score: 166
Period size: 28 Copynumber: 7.8 Consensus size: 29
47629112 TTTTTTGTAG
* * *
47629122 AATAGTGGTAAAACTGTAAAATCT-AAAA
1 AATAGTGGCAAAACTGTAAAATTTGGAAA
47629150 AATAGTGG-AAAACTGTAAAATTTGGAAA
1 AATAGTGGCAAAACTGTAAAATTTGGAAA
* * * *
47629178 AATAATGGC-AAATTATAAAATCTGGAAA
1 AATAGTGGCAAAACTGTAAAATTTGGAAA
** *
47629206 ACCAG-AGCAAAACTGTAAAATTTAGG-AA
1 AATAGTGGCAAAACTGTAAAATTT-GGAAA
* * * *
47629234 AATTGTGGTAGAACTGTAAAATTGGGAAA
1 AATAGTGGCAAAACTGTAAAATTTGGAAA
* * ** *
47629263 AATAGTGGCAGAACTATAAAAGATGTAAA
1 AATAGTGGCAAAACTGTAAAATTTGGAAA
* *
47629292 ACCTA-TGGCAAAATTGTAAAATTT-GAAA
1 A-ATAGTGGCAAAACTGTAAAATTTGGAAA
* *
47629320 AATAGTGGCAGAACTATAAAAT
1 AATAGTGGCAAAACTGTAAAAT
47629342 CTGTAAAATG
Statistics
Matches: 146, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
27 18 0.12
28 71 0.49
29 55 0.38
30 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.24
Consensus pattern (29 bp):
AATAGTGGCAAAACTGTAAAATTTGGAAA
Found at i:47632402 original size:64 final size:65
Alignment explanation
Indices: 47632295--47632424 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 65
47632285 TTTTAAAAAT
* *
47632295 ATTACTTTCCATCTTGCTTGATAGACATGAGATACATTGACAATTACCGTAAAGTATTATTAGTC
1 ATTAATTTCCATCTTGCTTGATAGACATGAGATACACTGACAATTACCGTAAAGTATTATTAGTC
*
47632360 ATTAATTTCCTTCTTGC-TGATAGACATGAGATACACTGACAATTACCGTAAAGTATTATTAGTC
1 ATTAATTTCCATCTTGCTTGATAGACATGAGATACACTGACAATTACCGTAAAGTATTATTAGTC
47632424 A
1 A
47632425 GGAACCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
64 47 0.76
65 15 0.24
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (65 bp):
ATTAATTTCCATCTTGCTTGATAGACATGAGATACACTGACAATTACCGTAAAGTATTATTAGTC
Found at i:47637378 original size:13 final size:13
Alignment explanation
Indices: 47637347--47637384 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47637337 AATTTCAAGT
47637347 ATTGT-ATAAAAA
1 ATTGTGATAAAAA
47637359 ATATGTGATAAAAA
1 AT-TGTGATAAAAA
*
47637373 CTTGTGATAAAA
1 ATTGTGATAAAA
47637385 TTAATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 13 0.57
14 8 0.35
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.32
Consensus pattern (13 bp):
ATTGTGATAAAAA
Found at i:47639113 original size:19 final size:19
Alignment explanation
Indices: 47639089--47639127 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47639079 AGCAGACCAA
*
47639089 TTAAGTCTGTTGGGGTTGT
1 TTAAGTCTGTTAGGGTTGT
*
47639108 TTAAGTTTGTTAGGGTTGT
1 TTAAGTCTGTTAGGGTTGT
47639127 T
1 T
47639128 AACTTCAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (19 bp):
TTAAGTCTGTTAGGGTTGT
Found at i:47644763 original size:27 final size:27
Alignment explanation
Indices: 47644723--47645051 Score: 328
Period size: 27 Copynumber: 12.2 Consensus size: 27
47644713 ATAATGGGCC
47644723 TAAAATGACCGAAATACCCTCGAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGA
**
47644750 TAAAATGATTGAAATACTCC-CGAAAGG-
1 TAAAATGACCGAAATAC-CCTCG-AAGGA
* *
47644777 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGA
* *
47644804 TCAAATGACCGAAATACCCTCAAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGA
* * * *
47644831 TAAAATGATCAAAATACCTTC-ACAGGT
1 TAAAATGACCGAAATACCCTCGA-AGGA
** * *
47644858 TAAAATGACTAAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGA
* ** *
47644885 TAAAAAGACTAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGA
* *
47644912 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGA
** * *
47644939 TAAAATGATTGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGA
*
47644966 TAAAATGACCGAAATA-CCTCCGAAAGA
1 TAAAATGACCGAAATACCCT-CGAAGGA
**
47644993 TAAAATGATTGAAATACCC-CTGAAGGA
1 TAAAATGACCGAAATACCCTC-GAAGGA
47645020 TAAAATGACCGAAATACCC-CGAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGA
47645046 TAAAAT
1 TAAAAT
47645052 AATTATTATA
Statistics
Matches: 259, Mismatches: 34, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.08
27 228 0.88
28 9 0.03
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGA
Found at i:47644862 original size:81 final size:80
Alignment explanation
Indices: 47644723--47645051 Score: 375
Period size: 81 Copynumber: 4.1 Consensus size: 80
47644713 ATAATGGGCC
* *
47644723 TAAAATGACCGAAATACCCTCGAAGGATAAAATGATTGAAATACTCC-CGAAAGGTAAAATGACC
1 TAAAATGACCGAAATACCCTCAAAGGATAAAATGATCGAAATAC-CCTCG-AAGGTAAAATGACC
47644787 GAAATACCCCCGAAGGG
64 GAAATACCCCCGAAGGG
* * * *
47644804 TCAAATGACCGAAATACCCTCAAAGGATAAAATGATCAAAATACCTTC-ACAGGTTAAAATGACT
1 TAAAATGACCGAAATACCCTCAAAGGATAAAATGATCGAAATACCCTCGA-AGG-TAAAATGACC
*
47644868 AAAATACCCCCGAAGGG
64 GAAATACCCCCGAAGGG
* ** * * **
47644885 TAAAAAGACTAAAATACCCTCGAAGGGTAAAATGA-CTGAAATACCCTCGAAGGGTAAAATGATT
1 TAAAATGACCGAAATACCCTCAAAGGATAAAATGATC-GAAATACCCTCGAA-GGTAAAATGACC
47644949 GAAATACCCCCGAAGGG
64 GAAATACCCCCGAAGGG
*
47644966 TAAAATGACCGAAATA-CCTCCGAAA-GATAAAATGATTGAAATACCC-CTGAAGGATAAAATGA
1 TAAAATGACCGAAATACCCT-C-AAAGGATAAAATGATCGAAATACCCTC-GAAGG-TAAAATGA
*
47645028 CCGAAATA-CCCCGAAGGA
62 CCGAAATACCCCCGAAGGG
47645046 TAAAAT
1 TAAAAT
47645052 AATTATTATA
Statistics
Matches: 211, Mismatches: 26, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
79 1 0.00
80 26 0.12
81 179 0.85
82 5 0.02
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (80 bp):
TAAAATGACCGAAATACCCTCAAAGGATAAAATGATCGAAATACCCTCGAAGGTAAAATGACCGA
AATACCCCCGAAGGG
Found at i:47645289 original size:26 final size:26
Alignment explanation
Indices: 47645230--47645304 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
47645220 TGCCACATAT
* *
47645230 ACTATTACTGGCAGCTTTACTGCATT
1 ACTATTACTGGCAGCTTTGCTGCATC
* *
47645256 GCTGTTACTGGCAGCTTTGCTGCATC
1 ACTATTACTGGCAGCTTTGCTGCATC
* *
47645282 ATTATTACTGGTAGCTTTGCTGC
1 ACTATTACTGGCAGCTTTGCTGC
47645305 GATTTTGGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
ACTATTACTGGCAGCTTTGCTGCATC
Found at i:47653868 original size:17 final size:18
Alignment explanation
Indices: 47653846--47653879 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47653836 TGTGGTTGGT
47653846 AGGAAA-AAAATGAAAAG
1 AGGAAAGAAAATGAAAAG
47653863 AGGAAAGAAAATGAAAA
1 AGGAAAGAAAATGAAAA
47653880 AAATGAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (18 bp):
AGGAAAGAAAATGAAAAG
Found at i:47669506 original size:18 final size:19
Alignment explanation
Indices: 47669483--47669519 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47669473 TTTTTAAAAA
47669483 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
47669501 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
47669520 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:47669520 original size:18 final size:18
Alignment explanation
Indices: 47669483--47669536 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
47669473 TTTTTAAAAA
47669483 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAA-TTT
47669501 TATAAATATTTAGAATTT
1 TATAAATATTTAGAATTT
* *
47669519 TAAAAATTATTTTGAATT
1 TATAAA-TATTTAGAATT
47669537 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TATAAATATTTAGAATTT
Found at i:47670770 original size:5 final size:5
Alignment explanation
Indices: 47670760--47670785 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47670750 TTCTTCGTGT
47670760 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
47670786 ATATATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:47670794 original size:15 final size:15
Alignment explanation
Indices: 47670760--47670793 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
47670750 TTCTTCGTGT
*
47670760 TTTTATTTTATTTTA
1 TTTTATTTTATTATA
47670775 TTTTATTTTATATATA
1 TTTTATTTTAT-TATA
47670791 TTT
1 TTT
47670794 AAAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTATTATA
Found at i:47671047 original size:30 final size:30
Alignment explanation
Indices: 47670976--47671106 Score: 115
Period size: 30 Copynumber: 4.4 Consensus size: 30
47670966 AAAAAAATAT
* * *
47670976 AAATTACA-TTCGGACTCCTAAATTTTCTTT
1 AAATTACATTTTGGAC-CCTAAACTTTCTTA
* **
47671006 GAATTGTATTTTGGACCCTAAACTTTCTTA
1 AAATTACATTTTGGACCCTAAACTTTCTTA
* * *
47671036 AAATTTCATTTT-GACCACTTAACTTTCTAA
1 AAATTACATTTTGGACC-CTAAACTTTCTTA
* * *
47671066 AAATTACATTTTGG-CCCCATATTTTCTTA
1 AAATTACATTTTGGACCCTAAACTTTCTTA
47671095 AAATTACATTTT
1 AAATTACATTTT
47671107 TTCCCAGAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
29 24 0.30
30 50 0.62
31 7 0.09
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (30 bp):
AAATTACATTTTGGACCCTAAACTTTCTTA
Found at i:47671829 original size:19 final size:20
Alignment explanation
Indices: 47671796--47671841 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
47671786 TTGGGTTTTC
*
47671796 GAAAGAAGAAAAAAGTAGAA
1 GAAAGAAGAAAAAAGAAGAA
*
47671816 GGAAGAAG-AAAAAGAAGAA
1 GAAAGAAGAAAAAAGAAGAA
47671835 GAAAGAA
1 GAAAGAA
47671842 AATAAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (20 bp):
GAAAGAAGAAAAAAGAAGAA
Found at i:47671840 original size:16 final size:16
Alignment explanation
Indices: 47671798--47671843 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47671788 GGGTTTTCGA
*
47671798 AAGAAGAAA-AAAGTAG
1 AAGAAGAAAGAAA-AAG
47671814 AAGGAAG-AAGAAAAAG
1 AA-GAAGAAAGAAAAAG
47671830 AAGAAGAAAGAAAA
1 AAGAAGAAAGAAAA
47671844 TAAAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 15 0.58
17 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (16 bp):
AAGAAGAAAGAAAAAG
Found at i:47671852 original size:19 final size:19
Alignment explanation
Indices: 47671812--47671861 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
47671802 AGAAAAAAGT
* *
47671812 AGAAGGAAGAAGAA-AAAGA
1 AGAAGAAAGAA-AATAAAAA
47671831 AGAAGAAAGAAAATAAAAA
1 AGAAGAAAGAAAATAAAAA
47671850 AG-AGAAA-AAAAT
1 AGAAGAAAGAAAAT
47671862 TTAAATCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 16 0.57
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (19 bp):
AGAAGAAAGAAAATAAAAA
Found at i:47672063 original size:17 final size:19
Alignment explanation
Indices: 47672041--47672083 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
47672031 AGGCCAACTA
*
47672041 CCAGGCCAG-CA-CAGCGC
1 CCAGGCCAGCCAGCAGCCC
*
47672058 CCAGGCGAGCCAGCAGCCC
1 CCAGGCCAGCCAGCAGCCC
47672077 CCAGGCC
1 CCAGGCC
47672084 CAGCGTAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 11 0.52
ACGTcount: A:0.21, C:0.49, G:0.30, T:0.00
Consensus pattern (19 bp):
CCAGGCCAGCCAGCAGCCC
Found at i:47672753 original size:17 final size:16
Alignment explanation
Indices: 47672667--47672931 Score: 91
Period size: 17 Copynumber: 14.9 Consensus size: 16
47672657 AAAAAATCAA
47672667 AAAAATTTCGTGTTTC
1 AAAAATTTCGTGTTTC
* *
47672683 AAAAATCTTTGTGCTTC
1 AAAAAT-TTCGTGTTTC
* *
47672700 CAAAATTTCGGTATTTC
1 AAAAATTTC-GTGTTTC
* *
47672717 AAAAATTTTTCATATTTTC
1 AAAAA--TTTCGT-GTTTC
*
47672736 AAAAATTTCCGTGCTTC
1 AAAAATTT-CGTGTTTC
* *
47672753 AAAAAAAAATTCGTCCTTTC
1 ---AAAAATTTCGT-GTTTC
* *
47672773 AACAATTTTCGTG-TTA
1 AA-AAATTTCGTGTTTC
*
47672789 AAAAAATTCGTGTTTC
1 AAAAATTTCGTGTTTC
47672805 AAAAAAATTCTCGTGTTTC
1 --AAAAATT-TCGTGTTTC
* *
47672824 ATAAATTTTTGTGTTTTC
1 A-AAAATTTCGTG-TTTC
*
47672842 AAAAAAAAAATTTCTCGTGCTTC
1 -----AAAAA-TT-TCGTGTTTC
*
47672865 GAAAATTTCGTGTTTTC
1 AAAAATTTCGTG-TTTC
* *
47672882 AAAAGTTTTTGTGTTTC
1 AAAA-ATTTCGTGTTTC
* * *
47672899 GAAATTTTCGTGTCTC
1 AAAAATTTCGTGTTTC
47672915 AATAAATTCTCGTGTTT
1 AA-AAATT-TCGTGTTT
47672932 TTTAAATATT
Statistics
Matches: 182, Mismatches: 39, Indels: 54
0.66 0.14 0.20
Matches are distributed among these distances:
15 8 0.04
16 30 0.16
17 54 0.30
18 42 0.23
19 25 0.14
20 10 0.05
22 3 0.02
23 6 0.03
24 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:47672773 original size:37 final size:32
Alignment explanation
Indices: 47672732--47672809 Score: 84
Period size: 37 Copynumber: 2.3 Consensus size: 32
47672722 TTTTTCATAT
47672732 TTTCAAAAATTTCCGTGCTTCAAAAAAAAATTCGTCC
1 TTTCAAAAATTTCCGTG-TT---AAAAAAATTCGT-C
* * *
47672769 TTTCAACAATTTTCGTGTTAAAAAAATTCGTG
1 TTTCAAAAATTTCCGTGTTAAAAAAATTCGTC
47672801 TTTCAAAAA
1 TTTCAAAAA
47672810 AATTCTCGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 8 0.22
33 12 0.32
36 2 0.05
37 15 0.41
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (32 bp):
TTTCAAAAATTTCCGTGTTAAAAAAATTCGTC
Found at i:47672818 original size:19 final size:18
Alignment explanation
Indices: 47672663--47672848 Score: 86
Period size: 18 Copynumber: 10.5 Consensus size: 18
47672653 AAGAAAAAAA
47672663 TCAAAAAAATTTCGTGTT
1 TCAAAAAAATTTCGTGTT
** *
47672681 TCAAAAATCTTT-GTGCT
1 TCAAAAAAATTTCGTGTT
* *
47672698 TC--CAAAATTTCGGTATT
1 TCAAAAAAATTTC-GTGTT
** * *
47672715 TCAAAAATTTTTCATATTT
1 TCAAAAAAATTTCGT-GTT
*
47672734 TC--AAAAATTTCCGTGCT
1 TCAAAAAAATTT-CGTGTT
* *
47672751 TCAAAAAAAAATTCGTCCTT
1 TC-AAAAAAATTTCGT-GTT
* *
47672771 TC-AACAATTTTCGTG-T
1 TCAAAAAAATTTCGTGTT
47672787 T-AAAAAAA-TTCGTGTT
1 TCAAAAAAATTTCGTGTT
47672803 TCAAAAAAATTCTCGTGTT
1 TCAAAAAAATT-TCGTGTT
* * *
47672822 TC-ATAAATTTTTGTGTTT
1 TCAAAAAAATTTCGTG-TT
47672840 TCAAAAAAA
1 TCAAAAAAA
47672849 AAATTTCTCG
Statistics
Matches: 119, Mismatches: 32, Indels: 33
0.65 0.17 0.18
Matches are distributed among these distances:
15 11 0.09
16 8 0.07
17 31 0.26
18 33 0.28
19 26 0.22
20 10 0.08
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (18 bp):
TCAAAAAAATTTCGTGTT
Found at i:47672878 original size:40 final size:40
Alignment explanation
Indices: 47672805--47672885 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
47672795 TTCGTGTTTC
* *
47672805 AAAAAAATTCTCGTGTTTCATAAATTTTTGTGTTTTCAAA
1 AAAAAAATTCTCGTGCTTCATAAATTTTCGTGTTTTCAAA
47672845 AAAAAAATTTCTCGTGCTTCGA-AAA-TTTCGTGTTTTCAAA
1 AAAAAAA-TTCTCGTGCTTC-ATAAATTTTCGTGTTTTCAAA
47672885 A
1 A
47672886 GTTTTTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 22 0.59
41 14 0.38
42 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (40 bp):
AAAAAAATTCTCGTGCTTCATAAATTTTCGTGTTTTCAAA
Found at i:47681374 original size:75 final size:76
Alignment explanation
Indices: 47681161--47681827 Score: 736
Period size: 75 Copynumber: 8.7 Consensus size: 76
47681151 AGAATTATAT
47681161 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-CT
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-
*
47681225 ATACACCGAGGTA
65 AT-CACTGAGGTA
* *
47681238 TTTTTAATTTATGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
47681302 TC-CTAAGGTA
66 TCACTGAGGTA
*
47681312 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTAAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
47681377 TC-CTGAGGTA
66 TCACTGAGGTA
* * *
47681387 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
47681452 TC-CTGAGGTA
66 TCACTGAGGTA
* * * *
47681462 TTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGTCTCGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
47681526 -CGCTGAGGTA
66 TCACTGAGGTA
* * *
47681536 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCTG
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-T-
*
47681601 CA-CGCTGAGGTA
64 CATCACTGAGGTA
* * * *
47681613 TTTTTTTAATTTAT-TTTAAAAAAAATCAAATCAAAACCAACTCATAATGCGAGAGGTGAGTTGA
1 --TTTTCAATTTCTGTTT-------TTCAAA--AAAATCAACTCATAATGCGAGAGGTGAGTTGA
* *
47681677 GACTTGGG-CTATACACTGAGGTA
55 GCCTCGGGTC-AT-CACTGAGGTA
* * * * *
47681700 TTTTTAATTTCTGTTTTTC--AAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTTGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
47681763 T-ATGCCGAGGTA
66 TCA--CTGAGGTA
* ** *
47681775 TTTTTCAATTTCTATTTTTC--AAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 -TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC-GAGAGGTGAGTTGA
47681828 ACTTCGAATC
Statistics
Matches: 520, Mismatches: 44, Indels: 53
0.84 0.07 0.09
Matches are distributed among these distances:
73 2 0.00
74 92 0.18
75 227 0.44
76 89 0.17
77 31 0.06
78 2 0.00
79 12 0.02
84 1 0.00
85 17 0.03
86 3 0.01
87 44 0.08
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
TCACTGAGGTA
Found at i:47681523 original size:149 final size:152
Alignment explanation
Indices: 47681158--47681797 Score: 766
Period size: 149 Copynumber: 4.2 Consensus size: 152
47681148 TCAAGAATTA
*
47681158 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAATTGAGCCTCGGG
* * * * *
47681223 CTATACACCGAGGTATTTTTAATTTATGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGT
66 CTATACACTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
47681288 TGAGCCTCGGGTCATCCTAAGG
131 TGAGCCTCGGGTCATCCTGAGG
47681310 TA-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGT-AAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAA-TTGAGCCTCGG
*
47681373 G-TCAT-C-CTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTTATATTGCGAGAGGTG
65 GCT-ATACACTGAGGTATTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTG
47681435 AGTTGAGCCTCGGGTCATCCTGAGG
128 AGTTGAGCCTCGGGTCATCCTGAGG
* * *
47681460 TA-TTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGTCTCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAATTGAGCCTCGGG
* * *
47681523 -T-CACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAG
66 CTATACACTGAGGTATTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAG
47681586 TTGAGCCTCGGGCTGCA-CGCTGAGG
130 TTGAGCCTCGGG-T-CATC-CTGAGG
* * * * *
47681611 TATTTTTTTAATTTAT-TTTAAAAAAAATCAAATCAAAACCAACTCATAATGCGAGAGGTGAGTT
1 TA-TTTTTCAATTTCTGTTT-------TTCAAA--AAAATCAACTCATAATGCGAGAGGTGAATT
* * * * * *
47681675 GAGACTTGGGCTATACACTGAGGTATTTTTAATTTCTGTTTTTC-AAAAATCAACTTATATTGTG
56 GAGCCTCGGGCTATACACTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCG
*
47681739 AGAGGTGAGTTGAGCCTTGGGTCATATGCC-GAGG
121 AGAGGTGAGTTGAGCCTCGGGTC--AT-CCTGAGG
*
47681773 TATTTTTCAATTTCTATTTTTCAAA
1 TATTTTTCAATTTCTGTTTTTCAAA
47681798 GGTCAACTCA
Statistics
Matches: 426, Mismatches: 34, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
148 1 0.00
149 129 0.30
150 77 0.18
151 71 0.17
152 4 0.01
153 10 0.02
155 5 0.01
159 2 0.00
160 3 0.01
161 12 0.03
162 82 0.19
163 2 0.00
164 28 0.07
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (152 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAATTGAGCCTCGGG
CTATACACTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGGGTCATCCTGAGG
Found at i:47681556 original size:224 final size:228
Alignment explanation
Indices: 47681158--47681827 Score: 817
Period size: 224 Copynumber: 2.9 Consensus size: 228
47681148 TCAAGAATTA
47681158 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* * *
47681223 CTATACACCGAGGTATTTTTAATTTATGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGT
65 CTATACACTGAGGTATTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
47681288 TGAGCCTCGGGTCATC-CTAAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC
130 TGAGCCTCGGGTCA-CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC
*
47681352 GAGAGGTAAGTTGAGCCTCGGG-T-CATC-CTGAGG
194 GAGAAGTAAGTTGAGCCTCGGGCTGCA-CGCTGAGG
* *
47681385 TA-TTTTCAATTTCTGCTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* * *
47681449 -TCAT-C-CTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAA
65 CT-ATACACTGAGGTATTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
47681511 TTGAGTCTCGGGTCACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGC
129 TTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC
*
47681576 GAGAAGTGAGTTGAGCCTCGGGCTGCACGCTGAGG
194 GAGAAGTAAGTTGAGCCTCGGGCTGCACGCTGAGG
* * *
47681611 TATTTTTTTAATTTAT-TTTAAAAAAAATCAAATCAAAACCAACTCATAATGCGAGAGGTGAGTT
1 TA-TTTTTCAATTTCTGTTT--------TCAAA--AAAATCAACTCATAATGCGAGAGGTGAGTT
* * * *
47681675 GAGACTTGGGCTATACACTGAGGTATTTTTAATTTCTGTTTTTC-AAAAATCAACTTATATTGTG
55 GAGCCTCGGGCTATACACTGAGGTATTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCG
* * * * **
47681739 AGAGGTGAGTTGAGCCTTGGGTCATATGCCGAGGTATTTTTCAATTTCTATTTTTC--AAAGGTC
120 AGAGGTGAGTTGAGCCTCGGGTC--ACGCTGAGGTA-TTTTCAATTTCTGTTTTTCAAAAAAATC
*
47681802 AACTCATAAT-CTGAGAAGTGAGTTGA
182 AACTCATAATGC-GAGAAGTAAGTTGA
47681828 ACTTCGAATC
Statistics
Matches: 383, Mismatches: 36, Indels: 37
0.84 0.08 0.08
Matches are distributed among these distances:
223 1 0.00
224 130 0.34
225 4 0.01
226 74 0.19
227 2 0.01
228 10 0.03
234 5 0.01
236 37 0.10
237 41 0.11
238 53 0.14
239 9 0.02
240 17 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (228 bp):
TATTTTTCAATTTCTGTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
TATACACTGAGGTATTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGA
GAAGTAAGTTGAGCCTCGGGCTGCACGCTGAGG
Found at i:47681775 original size:162 final size:160
Alignment explanation
Indices: 47681483--47681779 Score: 391
Period size: 162 Copynumber: 1.8 Consensus size: 160
47681473 TGCTTTTCAA
* * * *
47681483 AAAATCAACTCATATTGCGAGAGGTGAATTGAGTCTCGGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAACCAACTCATAATGCGAGAGGTGAATTGAGACTCGGGTCACACTGAGGTATTTTCAATTTCT
*
47681548 GCTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCTGCACGCTGAGGTA
66 GCTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCT-CACGCCGAGGTA
47681613 TTTTTTTAATTTATTTTAAAAAAAATCAAATC
129 TTTTTTTAATTTATTTTAAAAAAAATCAAATC
* * * *
47681645 AAAACCAACTCATAATGCGAGAGGTGAGTTGAGACTTGGGCTATACACTGAGGTATTTTTAATTT
1 AAAACCAACTCATAATGCGAGAGGTGAATTGAGACTCGGG-T-CACACTGAGGTATTTTCAATTT
* * * * * *
47681710 CTGTTTTTC-AAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTTGGG-TCATATGCCGAGG
64 CTGCTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCTC--ACGCCGAGG
47681773 TATTTTT
127 TATTTTT
47681780 CAATTTCTAT
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
160 1 0.01
161 1 0.01
162 86 0.74
163 1 0.01
164 27 0.23
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (160 bp):
AAAACCAACTCATAATGCGAGAGGTGAATTGAGACTCGGGTCACACTGAGGTATTTTCAATTTCT
GCTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCTCACGCCGAGGTATT
TTTTTAATTTATTTTAAAAAAAATCAAATC
Found at i:47682309 original size:30 final size:29
Alignment explanation
Indices: 47682275--47682346 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
47682265 AAACTTTTTT
* *
47682275 AAAATTTCATTTTGACCCCTTAATTTTCTA
1 AAAATTACATTTTGACCCCAT-ATTTTCTA
* * *
47682305 AAAATTACATTTTGGCCTCATATTTTTTA
1 AAAATTACATTTTGACCCCATATTTTCTA
47682334 AAAATTACATTTT
1 AAAATTACATTTT
47682347 CCCCAGAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.47
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCATATTTTCTA
Found at i:47682877 original size:18 final size:19
Alignment explanation
Indices: 47682851--47682901 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
47682841 GCCAAAATAG
*
47682851 AAGAGAAAGAGAAAGAA-A
1 AAGAAAAAGAGAAAGAACA
*
47682869 AAGAAAAAGGGAAA-AACA
1 AAGAAAAAGAGAAAGAACA
*
47682887 AAAAAAAAGAGAAAG
1 AAGAAAAAGAGAAAG
47682902 CTTTTCGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAGAAAGAACA
Found at i:47683047 original size:10 final size:10
Alignment explanation
Indices: 47683029--47683093 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
47683019 AGGGTTTTCG
47683029 AAAGAAGAAA
1 AAAGAAGAAA
* *
47683039 AAAGTAGAAG
1 AAAGAAGAAA
*
47683049 GAAGAAGAAAA
1 AAAGAAG-AAA
47683060 AGAAGAAGAAAGA
1 A-AAGAAG-AA-A
47683073 AAAGAA-AAA
1 AAAGAAGAAA
47683082 AAAG-AGAAA
1 AAAGAAGAAA
47683091 AAA
1 AAA
47683094 ATTTAAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 1 0.02
9 11 0.24
10 15 0.33
11 2 0.04
12 14 0.31
13 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:47683061 original size:19 final size:20
Alignment explanation
Indices: 47683028--47683090 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
47683018 TAGGGTTTTC
*
47683028 GAAAGAAGAAAAAAGTAGAA
1 GAAAGAAGAAAAAAGAAGAA
*
47683048 GGAAGAAG-AAAAAGAAGAA
1 GAAAGAAGAAAAAAGAAGAA
47683067 GAAAGAAAAGAAAAAA-AAG-A
1 GAAAG--AAGAAAAAAGAAGAA
47683087 GAAA
1 GAAA
47683091 AAAATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 14 0.38
20 12 0.32
21 6 0.16
22 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (20 bp):
GAAAGAAGAAAAAAGAAGAA
Found at i:47683066 original size:12 final size:12
Alignment explanation
Indices: 47683049--47683094 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
47683039 AAAGTAGAAG
47683049 GAAGAAGAAAAA
1 GAAGAAGAAAAA
47683061 GAAGAAGAAAGAA
1 GAAGAAGAAA-AA
*
47683074 -AAGAAAAAAAA
1 GAAGAAGAAAAA
47683085 G-AGAA-AAAAA
1 GAAGAAGAAAAA
47683095 TTTAAATCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 18 0.58
13 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:47683072 original size:16 final size:16
Alignment explanation
Indices: 47683030--47683075 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47683020 GGGTTTTCGA
*
47683030 AAGAAGAAA-AAAGTAG
1 AAGAAGAAAGAAA-AAG
47683046 AAGGAAG-AAGAAAAAG
1 AA-GAAGAAAGAAAAAG
47683062 AAGAAGAAAGAAAA
1 AAGAAGAAAGAAAA
47683076 GAAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 15 0.58
17 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (16 bp):
AAGAAGAAAGAAAAAG
Found at i:47683433 original size:16 final size:16
Alignment explanation
Indices: 47683412--47683448 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
47683402 GCAGCAGCAA
47683412 AAAAAAAAGAGA-AAAG
1 AAAAAAAAG-GACAAAG
47683428 AAAAAAAAGGACAAAG
1 AAAAAAAAGGACAAAG
47683444 AAAAA
1 AAAAA
47683449 GAAAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGGACAAAG
Found at i:47683433 original size:17 final size:17
Alignment explanation
Indices: 47683411--47683453 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
47683401 GGCAGCAGCA
47683411 AAAAAAAAAGAGA-AAAG
1 AAAAAAAAAG-GACAAAG
47683428 -AAAAAAAAGGACAAAG
1 AAAAAAAAAGGACAAAG
47683444 AAAAAGAAAA
1 AAAAA-AAAA
47683454 AGGAAAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 4 0.17
18 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGGACAAAG
Found at i:47683460 original size:17 final size:16
Alignment explanation
Indices: 47683410--47683460 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
47683400 CGGCAGCAGC
47683410 AAAAAAAAAAGAGAAA-
1 AAAAAAAAAAG-GAAAG
*
47683426 AGAAAAAAAAGGACAAAG
1 AAAAAAAAAAGG--AAAG
47683444 AAAAAGAAAAAGGAAAG
1 AAAAA-AAAAAGGAAAG
47683461 GCCCAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 10 0.34
17 7 0.24
18 4 0.14
19 7 0.24
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGGAAAG
Found at i:47683975 original size:18 final size:17
Alignment explanation
Indices: 47683915--47684169 Score: 148
Period size: 17 Copynumber: 14.5 Consensus size: 17
47683905 ATAAAAAAAA
47683915 TTCGTGTTTCAAAAATCT
1 TTCGTGTTTCAAAAAT-T
*
47683933 TT-GTGTTTCCAAAA-T
1 TTCGTGTTTCAAAAATT
*
47683948 TTCGGTATTTCAAAAATTT
1 TTC-GTGTTTCAAAAA-TT
* *
47683967 TTCGTATTTTTAAAAATT
1 TTCGT-GTTTCAAAAATT
* **
47683985 TCCGTGTTTCAAAAAAAA
1 TTCGTGTTTC-AAAAATT
*
47684003 TT-GTGTTTTCAACAATT
1 TTCGTG-TTTCAAAAATT
*
47684020 TTCGTGTTT-AAAAA-A
1 TTCGTGTTTCAAAAATT
47684035 TTCGTGTTTCAAAAAATT
1 TTCGTGTTTC-AAAAATT
* *
47684053 CTCGTGTTTCATAAATT
1 TTCGTGTTTCAAAAATT
47684070 TTCGTGTTTTCAAAAAAAAATT
1 TTCGTG-TTTC----AAAAATT
* *
47684092 TCCCGTGCTTT-GAAAA-T
1 T-TCGTG-TTTCAAAAATT
*
47684109 TTCGTGTTTTCAAAAGTT
1 TTCGTG-TTTCAAAAATT
* *
47684127 TTTGTGTTTC-GAAATT
1 TTCGTGTTTCAAAAATT
*
47684143 TTCGTGTCTCAATAAATT
1 TTCGTGTTTCAA-AAATT
*
47684161 CTCGTGTTT
1 TTCGTGTTT
47684170 TTTTTAAATA
Statistics
Matches: 180, Mismatches: 36, Indels: 42
0.70 0.14 0.16
Matches are distributed among these distances:
15 12 0.07
16 23 0.13
17 61 0.34
18 58 0.32
19 12 0.07
22 7 0.04
23 7 0.04
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (17 bp):
TTCGTGTTTCAAAAATT
Found at i:47684063 original size:50 final size:51
Alignment explanation
Indices: 47683975--47684078 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 51
47683965 TTTTCGTATT
*
47683975 TTTAAAAATTTCCGTGTTTCAAAAAAAATTGTGTTTTCA-ACAATTTTCGTG
1 TTTAAAAAATTCCGTGTTTCAAAAAAAATTGTGTTTTCATA-AATTTTCGTG
*
47684026 TTTAAAAAATT-CGTGTTTC--AAAAAATTCTCGTGTTTCATAAATTTTCGTG
1 TTTAAAAAATTCCGTGTTTCAAAAAAAATTGT-GT-TTTCATAAATTTTCGTG
47684076 TTT
1 TTT
47684079 TCAAAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
48 9 0.19
49 2 0.04
50 26 0.54
51 11 0.23
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (51 bp):
TTTAAAAAATTCCGTGTTTCAAAAAAAATTGTGTTTTCATAAATTTTCGTG
Found at i:47686003 original size:16 final size:16
Alignment explanation
Indices: 47685970--47686003 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47685960 GGCTTATGTT
* *
47685970 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47685986 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47686002 AA
1 AA
47686004 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47699640 original size:112 final size:113
Alignment explanation
Indices: 47699380--47699915 Score: 784
Period size: 112 Copynumber: 4.8 Consensus size: 113
47699370 CGCCTCCAAT
*
47699380 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATAAAAAA
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTAAAAA
*
47699445 CG-CGCTAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCGC-AATC
66 CGCCGCTAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCGCAAATC
*
47699491 ATCTT-ACCAAAACGCAGAGTTTTGGTCTTTAGAAGTATTAGAATTAGT-GCGCTTGATTAAAAA
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTAAAAA
*
47699554 CGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGAATGCCGCCGCAAATC
66 CGCCGCT-AAGTATATCATCAGCGGCGTTTTTCGGATG-CGCCGCAAATC
*
47699604 ATCTTAA-CAAAAC-CAGAGTTTGGGTCTTTAGGAGTATTAGAA-TAGTGGCGCTTGA-TAAAAA
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTAAAAA
* *
47699665 --CCGCTAAGTATATCATCGGCGGCG--TTTCGGATGCACCGCAAATC
66 CGCCGCTAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCGCAAATC
*
47699709 ATC-TAACCAAAACGTAGAGTTTTGGTCTTT-GGAGTATTAGAAATTAGTGGCGCTTGA-TAAAA
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAG-AATTAGTGGCGCTTGATTAAAA
*
47699771 ACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCG-CGCAAATC
65 ACGCCGCT-AAGTATATCATCAGCGGCGTTTTTCGGATGCGCCGCAAATC
*
47699820 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAA-TAGTGGCGTTTGATTAAAAA
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTAAAAA
* *
47699884 CGCCGCTGAAGTATAGT-ATTAGCGGCGCTTTT
66 CGCCGCT-AAGTATA-TCATCAGCGGCGTTTTT
47699916 ACGAAAACGC
Statistics
Matches: 386, Mismatches: 20, Indels: 37
0.87 0.05 0.08
Matches are distributed among these distances:
104 3 0.01
105 29 0.08
106 24 0.06
107 19 0.05
108 18 0.05
109 26 0.07
110 64 0.17
111 66 0.17
112 110 0.28
113 26 0.07
114 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (113 bp):
ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTAAAAA
CGCCGCTAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCGCAAATC
Found at i:47699735 original size:218 final size:219
Alignment explanation
Indices: 47699380--47699898 Score: 807
Period size: 218 Copynumber: 2.3 Consensus size: 219
47699370 CGCCTCCAAT
47699380 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATAAAAAA
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAA-TAGTGGCGCTTGAT-AAAAA
* *
47699445 CGCGCTAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCGCAATCATCTTACCAAAACGCAGAG
64 C-CGCTAAGTATATCATCAGCGGCGTTTGTCGGATGCACCGCAATCATCTAACCAAAACGCAGAG
47699510 TTTTGGTCTTTAGAAGTATTAG-AATTAGT-GCGCTTGATTAAAAACGCCGCTAAAGTATATCAT
128 TTTTGGTCTTT-GAAGTATTAGAAATTAGTGGCGCTTGA-TAAAAACGCCGCTAAAGTATATCAT
*
47699573 CAGCGGCGTTTTTCGAATGCCGCCGCAAATC
191 CAGCGGCGTTTGTCGAATG-CG-CGCAAATC
*
47699604 ATCTTAA-CAAAAC-CAGAGTTTGGGTCTTTAGGAGTATTAGAATAGTGGCGCTTGATAAAAACC
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATAGTGGCGCTTGATAAAAACC
* *
47699667 GCTAAGTATATCATCGGCGGCG-TT-TCGGATGCACCGCAAATCATCTAACCAAAACGTAGAGTT
66 GCTAAGTATATCATCAGCGGCGTTTGTCGGATGCACCGC-AATCATCTAACCAAAACGCAGAGTT
*
47699730 TTGGTCTTTGGAGTATTAGAAATTAGTGGCGCTTGATAAAAACGCCGCTAAAGTATATCATCAGC
130 TTGGTCTTTGAAGTATTAGAAATTAGTGGCGCTTGATAAAAACGCCGCTAAAGTATATCATCAGC
*
47699795 GGCGTTTGTCGGATGCGCGCAAATC
195 GGCGTTTGTCGAATGCGCGCAAATC
*
47699820 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATAGTGGCGTTTGATTAAAAAC
1 ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATAGTGGCGCTTGA-TAAAAA-
47699885 GCCGCTGAAGTATA
64 -CCGCT-AAGTATA
47699899 GTATTAGCGG
Statistics
Matches: 276, Mismatches: 10, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
216 15 0.05
217 29 0.11
218 123 0.45
219 36 0.13
220 6 0.02
221 19 0.07
222 35 0.13
223 6 0.02
224 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (219 bp):
ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATAGTGGCGCTTGATAAAAACC
GCTAAGTATATCATCAGCGGCGTTTGTCGGATGCACCGCAATCATCTAACCAAAACGCAGAGTTT
TGGTCTTTGAAGTATTAGAAATTAGTGGCGCTTGATAAAAACGCCGCTAAAGTATATCATCAGCG
GCGTTTGTCGAATGCGCGCAAATC
Found at i:47700048 original size:18 final size:19
Alignment explanation
Indices: 47700014--47700050 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
47700004 TCATTTTATA
*
47700014 TGTTTTTTTATATTTAATT
1 TGTTTATTTATATTTAATT
47700033 TGTTTATTTATA-TTAATT
1 TGTTTATTTATATTTAATT
47700051 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TGTTTATTTATATTTAATT
Found at i:47700964 original size:7 final size:7
Alignment explanation
Indices: 47700952--47701028 Score: 95
Period size: 7 Copynumber: 11.3 Consensus size: 7
47700942 TTATTGCTTC
47700952 GGGGTTT
1 GGGGTTT
47700959 GGGG-TT
1 GGGGTTT
*
47700965 AGGGTTT
1 GGGGTTT
*
47700972 GGGATTT
1 GGGGTTT
47700979 GGGG-TT
1 GGGGTTT
*
47700985 AGGGTTT
1 GGGGTTT
47700992 GGGGTTT
1 GGGGTTT
47700999 GGGGTTT
1 GGGGTTT
47701006 GGGGTTT
1 GGGGTTT
*
47701013 GAGGTTT
1 GGGGTTT
*
47701020 GGGGATT
1 GGGGTTT
47701027 GG
1 GG
47701029 TTTTTGAGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
6 10 0.17
7 49 0.83
ACGTcount: A:0.06, C:0.00, G:0.55, T:0.39
Consensus pattern (7 bp):
GGGGTTT
Found at i:47700981 original size:20 final size:19
Alignment explanation
Indices: 47700953--47701023 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 19
47700943 TATTGCTTCG
47700953 GGGTTTGGGGTTAGGGTTT
1 GGGTTTGGGGTTAGGGTTT
47700972 GGGATTTGGGGTTAGGGTTT
1 GGG-TTTGGGGTTAGGGTTT
*
47700992 GGGGTTTGGGGTTTGGGGTTT
1 -GGGTTTGGGG-TTAGGGTTT
47701013 GAGGTTTGGGG
1 G-GGTTTGGGG
47701024 ATTGGTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
19 3 0.06
20 24 0.51
21 20 0.43
ACGTcount: A:0.06, C:0.00, G:0.55, T:0.39
Consensus pattern (19 bp):
GGGTTTGGGGTTAGGGTTT
Found at i:47701034 original size:21 final size:21
Alignment explanation
Indices: 47700954--47701040 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
47700944 ATTGCTTCGG
*
47700954 GGTTTGGGG-TTAGGGTTTG-
1 GGTTTGGGGATTGGGGTTTGA
* *
47700973 GGATTTGGGG-TTAGGGTTTGG
1 GG-TTTGGGGATTGGGGTTTGA
*
47700994 GGTTTGGGGTTTGGGGTTTGA
1 GGTTTGGGGATTGGGGTTTGA
**
47701015 GGTTTGGGGATTGGTTTTTGA
1 GGTTTGGGGATTGGGGTTTGA
47701036 GGTTT
1 GGTTT
47701041 AAGGATTAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
19 2 0.03
20 24 0.40
21 34 0.57
ACGTcount: A:0.07, C:0.00, G:0.49, T:0.44
Consensus pattern (21 bp):
GGTTTGGGGATTGGGGTTTGA
Found at i:47702889 original size:15 final size:15
Alignment explanation
Indices: 47702869--47702904 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
47702859 TTAATATATA
47702869 TATTTTAAAATTAAT
1 TATTTTAAAATTAAT
* *
47702884 TATTTTAAATTTTAT
1 TATTTTAAAATTAAT
47702899 TATTTT
1 TATTTT
47702905 TTAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTAAAATTAAT
Found at i:47702934 original size:27 final size:26
Alignment explanation
Indices: 47702879--47702941 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
47702869 TATTTTAAAA
*
47702879 TTAATTATTTTAAATTTTATTATTTT
1 TTAATTATTTTAAATTTTATTATTAT
47702905 TTAATATATTTTTACAATTTT-TT-TTAT
1 TTAAT-TA-TTTTA-AATTTTATTATTAT
47702932 TTAACTTATT
1 TTAA-TTATT
47702942 AATAATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 7 0.22
27 11 0.34
28 8 0.25
29 6 0.19
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (26 bp):
TTAATTATTTTAAATTTTATTATTAT
Found at i:47703030 original size:78 final size:77
Alignment explanation
Indices: 47702935--47703149 Score: 300
Period size: 77 Copynumber: 2.8 Consensus size: 77
47702925 TTTTTATTTA
*
47702935 ACTTATTAATA-ATATATTTAAGTAATGTAAGAATATCAATTTTAAATATATATATTCATTAATA
1 ACTTAATAATATA-ATATTTAAGTAATGTAAG-ATATCAATTTTAAA-ATATATATTCATTAATA
47702999 AGTC-TGTAAAAT-AT
63 A-TCATGTAAAATAAT
47703013 ACTTAATAATATAATATTTAAGTAATGTAAGATATCAATTTTAAAATATATAATTCATTAATAAT
1 ACTTAATAATATAATATTTAAGTAATGTAAGATATCAATTTTAAAATATAT-ATTCATTAATAAT
47703078 CATGTAAAATAAT
65 CATGTAAAATAAT
47703091 ACTTAAT-ATAT-ATATTTAA-TAAATGTTTAAGATAT-AATTTTAAAATATATATTCATTAA
1 ACTTAATAATATAATATTTAAGT-AATG--TAAGATATCAATTTTAAAATATATATTCATTAA
47703150 AGTTAAATGA
Statistics
Matches: 129, Mismatches: 1, Indels: 16
0.88 0.01 0.11
Matches are distributed among these distances:
75 1 0.01
76 29 0.22
77 53 0.41
78 45 0.35
79 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (77 bp):
ACTTAATAATATAATATTTAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAATAATC
ATGTAAAATAAT
Found at i:47703141 original size:37 final size:35
Alignment explanation
Indices: 47703093--47703184 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 35
47703083 AAAATAATAC
*
47703093 TTAATATATATATTTAATAAATGTTTAAGAT-ATAATT
1 TTAAAATATATATTTAATAAATG-TTAA-ATGA-AATT
* *
47703130 TTAAAATATATATTCATTAAA-GTTAAATGAAATT
1 TTAAAATATATATTTAATAAATGTTAAATGAAATT
* *
47703164 GTAAAA-ATATATTTAAAAAAT
1 TTAAAATATATATTTAATAAAT
47703185 AATAATTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
33 11 0.24
34 11 0.24
35 5 0.11
36 1 0.02
37 18 0.39
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (35 bp):
TTAAAATATATATTTAATAAATGTTAAATGAAATT
Found at i:47703502 original size:15 final size:16
Alignment explanation
Indices: 47703472--47703507 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
47703462 ATTAATTGAA
*
47703472 ATAAAATTGTAAATCG
1 ATAAAATTGCAAATCG
47703488 ATAAAA-TGCAAATCG
1 ATAAAATTGCAAATCG
47703503 ATAAA
1 ATAAA
47703508 CCCTAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (16 bp):
ATAAAATTGCAAATCG
Found at i:47705109 original size:7 final size:6
Alignment explanation
Indices: 47705097--47705160 Score: 65
Period size: 7 Copynumber: 9.5 Consensus size: 6
47705087 AAAACCAATC
47705097 CCCAAA CCTCAAA CCCAAA CCCCAAA CCCCAAA CCCTAAA CCCCAAA TCCCAAA
1 CCCAAA CC-CAAA CCCAAA -CCCAAA -CCCAAA CCC-AAA -CCCAAA -CCCAAA
47705151 CCCTAAA CCC
1 CCC-AAA CCC
47705161 CAAAACCCCG
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
6 12 0.23
7 37 0.71
8 3 0.06
ACGTcount: A:0.42, C:0.52, G:0.00, T:0.06
Consensus pattern (6 bp):
CCCAAA
Found at i:47705129 original size:14 final size:14
Alignment explanation
Indices: 47705091--47705169 Score: 97
Period size: 14 Copynumber: 5.6 Consensus size: 14
47705081 ACCTCAAAAA
*
47705091 CCAATCCCCAAACC
1 CCAAACCCCAAACC
*
47705105 TCAAA-CCCAAACC
1 CCAAACCCCAAACC
47705118 CCAAACCCCAAACC
1 CCAAACCCCAAACC
* *
47705132 CTAAACCCCAAATC
1 CCAAACCCCAAACC
*
47705146 CCAAACCCTAAACC
1 CCAAACCCCAAACC
47705160 CCAAAACCCC
1 CC-AAACCCC
47705170 GAGCAATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
13 12 0.22
14 36 0.67
15 6 0.11
ACGTcount: A:0.42, C:0.52, G:0.00, T:0.06
Consensus pattern (14 bp):
CCAAACCCCAAACC
Found at i:47705139 original size:21 final size:21
Alignment explanation
Indices: 47705096--47705169 Score: 114
Period size: 21 Copynumber: 3.5 Consensus size: 21
47705086 AAAAACCAAT
*
47705096 CCCCAAACCTCAAACCC-AAA
1 CCCCAAACCCCAAACCCTAAA
47705116 CCCCAAACCCCAAACCCTAAA
1 CCCCAAACCCCAAACCCTAAA
*
47705137 CCCCAAATCCCAAACCCTAAA
1 CCCCAAACCCCAAACCCTAAA
47705158 CCCCAAAACCCC
1 CCCC-AAACCCC
47705170 GAGCAATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
20 16 0.33
21 27 0.55
22 6 0.12
ACGTcount: A:0.42, C:0.53, G:0.00, T:0.05
Consensus pattern (21 bp):
CCCCAAACCCCAAACCCTAAA
Found at i:47705738 original size:13 final size:13
Alignment explanation
Indices: 47705720--47705745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47705710 CTTAATCTAT
47705720 AACCCTAAATTAA
1 AACCCTAAATTAA
47705733 AACCCTAAATTAA
1 AACCCTAAATTAA
47705746 TCGAATCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AACCCTAAATTAA
Found at i:47706745 original size:114 final size:113
Alignment explanation
Indices: 47706186--47706706 Score: 832
Period size: 114 Copynumber: 4.7 Consensus size: 113
47706176 ATACATATTC
*
47706186 AGCGGCGTTTTTATCAAACGCCACTAATT-TAATACTCCTAAAGACC-AAACTCTGCGTTTTGGT
1 AGCGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGT
* *
47706249 TAAGATGATTTGGGGCGCATCCGACAAACGCCGCTGATGAAATACTTT
66 TAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTT
*
47706297 AGC-GCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGA-CAAAA--CTACGTTTTGG
1 AGCGGCGTTTTT-ATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGG
*
47706358 TT-AGATGATTTGCGGTGCAT-CGACAAACGCCCGC-GATGATATAC-TT
65 TTAAGATGATTTGCGGCGCATCCGACAAACG-CCGCTGATGATATACTTT
47706404 AGC-GCGTTTTTATGCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGG
1 AGCGGCGTTTTTAT-CAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGG
* *
47706468 TTAAGATGATTTGCGGCGCATTCGAAAAACGCCGCTGATGATATACTTT
65 TTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTT
*
47706517 AGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTTCTAAAGACCAAAACTCTGCGTTTTGG
1 AGCGGCGTTTTT-ATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGG
* *
47706582 GTAAGATGATTTGCGGCGCATCCGAAAAACGCCGCTGATGATATACTTT
65 TTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTT
47706631 AGCGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGT
1 AGCGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGT
47706696 TAAGAT-ATTTG
66 TAAGATGATTTG
47706707 GAGGCGCTTC
Statistics
Matches: 383, Mismatches: 13, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
106 2 0.01
107 44 0.11
108 23 0.06
109 20 0.05
110 32 0.08
111 41 0.11
112 41 0.11
113 62 0.16
114 116 0.30
115 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (113 bp):
AGCGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGT
TAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTT
Found at i:47732605 original size:73 final size:74
Alignment explanation
Indices: 47732365--47733022 Score: 662
Period size: 74 Copynumber: 8.7 Consensus size: 74
47732355 AGAATTATAT
*
47732365 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCTAT
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTC-AT
*
47732430 ACACCGAGGTA
65 -CACTGAGGTA
*
47732441 TTTT-AATTTATGTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTG-TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
47732505 TC-CTAAGGTA
64 TCACTGAGGTA
*
47732515 TTTTCAATTTCTG-TTTTCAAAAAATCAACTCATAATGCGAGAGGTAAGTTGAGCCTCGGTCATC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCATC
47732579 -CTGAGGTA
66 ACTGAGGTA
* * *
47732587 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTTTATATTGCGAGAGGTGAGTTGAGCCTCGGTCA
1 TTTTCAATTTCTGTTTTTC-AAAAAATCAAC-TCATAATGCGAGAGGTGAGTTGAGCCTCGGTCA
47732652 TC-CTGAGGTA
64 TCACTGAGGTA
* * * *
47732662 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAATTGAGTCTCGGGTCA
1 TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
47732726 -CGCTGAGGTA
64 TCACTGAGGTA
* * *
47732736 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCTGC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GG-T-C
*
47732801 A-CGCTGAGGTA
63 ATCACTGAGGTA
* * * *
47732812 TTTTTTAATTTAT-TTTAAAAAAAATCAAATCAAAACCAACTCATAATGCGAGAGGTGAGTTGAG
1 -TTTTCAATTTCTGTTT-------TTC-AA--AAAATCAACTCATAATGCGAGAGGTGAGTTGAG
* * *
47732876 ACTTGGGCTATACACTGAGGTA
55 CCTCGGTC-AT-CACTGAGGTA
* * * *
47732898 TTTTTAATTTCTGTTTTTC-AAAAATCAACTTAT-ATGTGAGAGGTGAGTTGAGCCTTGGTCAT-
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCATC
*
47732960 A-TGCCGAGTA
66 ACTG-AG-GTA
* ** *
47732970 TTTTTCAATTTCTATTTTTC-AAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 -TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGC-GAGAGGTGAGTTGA
47733023 ACTTCGAATC
Statistics
Matches: 510, Mismatches: 41, Indels: 64
0.83 0.07 0.10
Matches are distributed among these distances:
70 2 0.00
71 2 0.00
72 30 0.06
73 115 0.23
74 119 0.23
75 98 0.19
76 65 0.13
77 14 0.03
79 2 0.00
83 3 0.01
84 3 0.01
85 13 0.03
86 44 0.09
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCATC
ACTGAGGTA
Found at i:47732686 original size:149 final size:149
Alignment explanation
Indices: 47732365--47732952 Score: 680
Period size: 149 Copynumber: 3.9 Consensus size: 149
47732355 AGAATTATAT
*
47732365 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCTAT
1 TTTTCAATTTCTG-TTTTCAAAAAATCAACTCATAATGCGAGAGGTAAGTTGAGCCTCGGGCTAT
* * * *
47732430 ACACCGAGGTATTTT-AATTTATGTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
65 ACACTGAGGTATTTTCAATTTCTG-CTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
47732494 GCCTCGGGTCATCCTAAGGTA
129 GCCTCGGGTCATCCTGAGGTA
*
47732515 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATAATGCGAGAGGTAAGTTGAGCCTCGGTC-AT-
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATAATGCGAGAGGTAAGTTGAGCCTCGGGCTATA
*
47732578 C-CTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTTTATATTGCGAGAGGTGAGTTGA
66 CACTGAGGTATTTTCAATTTCTGCTTTTC-AAAAAATCAAC-TCATATTGCGAGAGGTGAGTTGA
47732642 GCCTC-GGTCATCCTGAGGTA
129 GCCTCGGGTCATCCTGAGGTA
* *
47732662 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAA-TTGAGTCTCGGG-T
1 TTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATAATGCGAGAGGT-AAGTTGAGCCTCGGGCT
* * *
47732724 -CACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
63 ATACACTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
47732788 AGCCTCGGGCTGCA-CGCTGAGGTA
128 AGCCTCGGG-T-CATC-CTGAGGTA
* * * *
47732812 TTTTTTAATTTAT-TTTAAAAAAAATCAAATCAAAACCAACTCATAATGCGAGAGGTGAGTTGAG
1 -TTTTCAATTTCTGTTT--------TC-AA--AAAATCAACTCATAATGCGAGAGGTAAGTTGAG
* * * * * *
47732876 ACTTGGGCTATACACTGAGGTATTTTTAATTTCTGTTTTTC-AAAAATCAACTTATA-TGTGAGA
54 CCTCGGGCTATACACTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGA
47732939 GGTGAGTTGAGCCT
119 GGTGAGTTGAGCCT
47732953 TGGTCATATG
Statistics
Matches: 382, Mismatches: 28, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
146 16 0.04
147 72 0.19
148 59 0.15
149 103 0.27
150 23 0.06
151 10 0.03
157 5 0.01
159 21 0.05
160 31 0.08
161 15 0.04
162 27 0.07
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (149 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATAATGCGAGAGGTAAGTTGAGCCTCGGGCTATA
CACTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCGGGTCATCCTGAGGTA
Found at i:47733508 original size:30 final size:28
Alignment explanation
Indices: 47733461--47733537 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 28
47733451 GACCCTAAAC
* * *
47733461 TTTTTTAAAATTTCATTTTGACCCCTTAA
1 TTTTTAAAAATTACATTTTGACCCCAT-A
* *
47733490 TTTTCTAAAAATTACATTTTGGCCTCATA
1 TTTT-TAAAAATTACATTTTGACCCCATA
*
47733519 TTTTTTAAAATTACATTTT
1 TTTTTAAAAATTACATTTT
47733538 CCCCAGAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.34
29 9 0.22
30 18 0.44
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTTTAAAAATTACATTTTGACCCCATA
Found at i:47733534 original size:28 final size:29
Alignment explanation
Indices: 47733411--47733537 Score: 100
Period size: 28 Copynumber: 4.4 Consensus size: 29
47733401 AAAAAAATAT
**
47733411 AAATTACATTCGGACCCC-TAATTTATTT-
1 AAATTACATTTTGACCCCATAATTT-TTTA
* * * *
47733439 GAATTATATTTAGACCCTA-AACTTTTTTA
1 AAATTACATTTTGACCCCATAA-TTTTTTA
* * *
47733468 AAATTTCATTTTGACCCCTTAATTTTCTAA
1 AAATTACATTTTGACCCCATAATTTT-TTA
* *
47733498 AAATTACATTTTGGCCTCAT-ATTTTTTA
1 AAATTACATTTTGACCCCATAATTTTTTA
47733526 AAATTACATTTT
1 AAATTACATTTT
47733538 CCCCAGAAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
28 32 0.42
29 25 0.32
30 20 0.26
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.46
Consensus pattern (29 bp):
AAATTACATTTTGACCCCATAATTTTTTA
Found at i:47734066 original size:18 final size:19
Alignment explanation
Indices: 47734040--47734085 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
47734030 AAATAGAAGG
*
47734040 AAAGAGAAAGAA-AAAGAA
1 AAAGAGAAAGAACAAAAAA
*
47734058 AAAGGGAAA-AACAAAAAA
1 AAAGAGAAAGAACAAAAAA
47734076 AAAGAGAAAG
1 AAAGAGAAAG
47734086 CTTTTCGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAGAGAAAGAACAAAAAA
Found at i:47734230 original size:10 final size:10
Alignment explanation
Indices: 47734212--47734276 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
47734202 AGGGTTTTCG
47734212 AAAGAAGAAA
1 AAAGAAGAAA
* *
47734222 AAAGTAGAAG
1 AAAGAAGAAA
*
47734232 GAAGAAGAAAA
1 AAAGAAG-AAA
47734243 AGAAGAAGAAAGA
1 A-AAGAAG-AA-A
47734256 AAAGAA-AAA
1 AAAGAAGAAA
47734265 AAAG-AGAAA
1 AAAGAAGAAA
47734274 AAA
1 AAA
47734277 ATTTAAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 1 0.02
9 11 0.24
10 15 0.33
11 2 0.04
12 14 0.31
13 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:47734244 original size:19 final size:20
Alignment explanation
Indices: 47734211--47734273 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
47734201 TAGGGTTTTC
*
47734211 GAAAGAAGAAAAAAGTAGAA
1 GAAAGAAGAAAAAAGAAGAA
*
47734231 GGAAGAAG-AAAAAGAAGAA
1 GAAAGAAGAAAAAAGAAGAA
47734250 GAAAGAAAAGAAAAAA-AAG-A
1 GAAAG--AAGAAAAAAGAAGAA
47734270 GAAA
1 GAAA
47734274 AAAATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 14 0.38
20 12 0.32
21 6 0.16
22 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (20 bp):
GAAAGAAGAAAAAAGAAGAA
Found at i:47734249 original size:12 final size:12
Alignment explanation
Indices: 47734232--47734277 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
47734222 AAAGTAGAAG
47734232 GAAGAAGAAAAA
1 GAAGAAGAAAAA
47734244 GAAGAAGAAAGAA
1 GAAGAAGAAA-AA
*
47734257 -AAGAAAAAAAA
1 GAAGAAGAAAAA
47734268 G-AGAA-AAAAA
1 GAAGAAGAAAAA
47734278 TTTAAATCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 18 0.58
13 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:47734255 original size:16 final size:16
Alignment explanation
Indices: 47734213--47734258 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47734203 GGGTTTTCGA
*
47734213 AAGAAGAAA-AAAGTAG
1 AAGAAGAAAGAAA-AAG
47734229 AAGGAAG-AAGAAAAAG
1 AA-GAAGAAAGAAAAAG
47734245 AAGAAGAAAGAAAA
1 AAGAAGAAAGAAAA
47734259 GAAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 15 0.58
17 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (16 bp):
AAGAAGAAAGAAAAAG
Found at i:47734617 original size:15 final size:15
Alignment explanation
Indices: 47734593--47734631 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
47734583 CCGGCAGCAG
47734593 CAAA-AAAAAAAGAGA
1 CAAAGAAAAAAAG-GA
47734608 -AAAGAAAAAAAGGA
1 CAAAGAAAAAAAGGA
47734622 CAAAGAAAAA
1 CAAAGAAAAA
47734632 GAAAAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (15 bp):
CAAAGAAAAAAAGGA
Found at i:47735181 original size:17 final size:16
Alignment explanation
Indices: 47735093--47735354 Score: 109
Period size: 17 Copynumber: 14.9 Consensus size: 16
47735083 GAAAAAATAA
*
47735093 AAAAAATTCGTGTTTC
1 AAAAATTTCGTGTTTC
*
47735109 -AAAATCTTTGTGTTTC
1 AAAAAT-TTCGTGTTTC
* *
47735125 CAAAATTTCGGTATTTC
1 AAAAATTTC-GTGTTTC
* *
47735142 AAAAATTTTTCGTATTTTT
1 AAAAA--TTTCGT-GTTTC
47735161 AAAAATTTCCGTGTTTC
1 AAAAATTT-CGTGTTTC
*
47735178 AAAAAAAATT-GTGTTTTC
1 --AAAAATTTCGTG-TTTC
*
47735196 AACAATTTTCGTGTTT-
1 AA-AAATTTCGTGTTTC
*
47735212 AAAAAATTCGTGTTTC
1 AAAAATTTCGTGTTTC
47735228 AAAAAAATTCTCGTGTTTC
1 --AAAAATT-TCGTGTTTC
*
47735247 ATAAATTTTCGTGTTTTC
1 A-AAAATTTCGTG-TTTC
47735265 AAAAAAAAAATTTCCCGTGCTTT-
1 -----AAAAATTT--CGTG-TTTC
*
47735288 GAAAATTTCGTGTTTTC
1 AAAAATTTCGTG-TTTC
* *
47735305 AAAAGTTTTTGTGTTTC
1 AAAA-ATTTCGTGTTTC
* * *
47735322 GAAATTTTCGTGTCTC
1 AAAAATTTCGTGTTTC
47735338 AATAAATTCTCGTGTTT
1 AA-AAATT-TCGTGTTT
47735355 TTTTAAATAT
Statistics
Matches: 188, Mismatches: 29, Indels: 56
0.69 0.11 0.21
Matches are distributed among these distances:
15 15 0.08
16 33 0.18
17 51 0.27
18 47 0.25
19 28 0.15
22 6 0.03
23 1 0.01
24 7 0.04
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:47735247 original size:51 final size:51
Alignment explanation
Indices: 47735158--47735262 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
47735148 TTTTCGTATT
*
47735158 TTTAAAAATTTCCGTGTTTCAAAAAAAATTGTGTTTTCA-ACAATTTTCGTG
1 TTTAAAAAATTCCGTGTTTCAAAAAAAATTGTGTTTTCATA-AATTTTCGTG
*
47735209 TTTAAAAAATT-CGTGTTTC-AAAAAAATTCTCGTGTTTCATAAATTTTCGTG
1 TTTAAAAAATTCCGTGTTTCAAAAAAAATTGT-GT-TTTCATAAATTTTCGTG
47735260 TTT
1 TTT
47735263 TCAAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
49 10 0.20
50 10 0.20
51 28 0.57
52 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (51 bp):
TTTAAAAAATTCCGTGTTTCAAAAAAAATTGTGTTTTCATAAATTTTCGTG
Found at i:47735297 original size:40 final size:40
Alignment explanation
Indices: 47735228--47735308 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
47735218 TTCGTGTTTC
*
47735228 AAAAAAATTCTCGTGTTTCATAAATTTTCGTGTTTTCAAA
1 AAAAAAATTCCCGTGTTTCATAAATTTTCGTGTTTTCAAA
*
47735268 AAAAAAATTTCCCGTGCTTTGA-AAA-TTTCGTGTTTTCAAA
1 AAAAAAA-TTCCCGTG-TTTCATAAATTTTCGTGTTTTCAAA
47735308 A
1 A
47735309 GTTTTTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 23 0.62
41 10 0.27
42 4 0.11
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (40 bp):
AAAAAAATTCCCGTGTTTCATAAATTTTCGTGTTTTCAAA
Found at i:47737197 original size:16 final size:16
Alignment explanation
Indices: 47737164--47737197 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47737154 GCTTATTGTT
* *
47737164 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47737180 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47737196 AA
1 AA
47737198 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47740020 original size:21 final size:21
Alignment explanation
Indices: 47739994--47740034 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47739984 AGACGAGCAA
*
47739994 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47740015 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
47740035 TTGAGCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47741973 original size:16 final size:16
Alignment explanation
Indices: 47741940--47741973 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47741930 GGAGATTGTT
* *
47741940 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47741956 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47741972 AA
1 AA
47741974 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47750581 original size:114 final size:114
Alignment explanation
Indices: 47750347--47751279 Score: 927
Period size: 114 Copynumber: 8.2 Consensus size: 114
47750337 CGATTCTAAT
* * * ** ** *
47750347 AAAACGCCGCTATAGAATATCATTAGCGGCGTTTACCACACAGCGCCGCAAAAT-ATC-AAGACC
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGA-AGCGCCGC-AAATCATCTTA-ACC
* * * * * * * *
47750410 AACACGCAGCGTTCTGGTCTTGATGTA-TATTGGCATTTGTGGCGCTT-ACGAA
63 AAAACGCAGAGTTTTGGTCTTGA-GGAGTATTAGAATTAGTGGCGCTTGA-TAA
* * * * * * *
47750462 AAAACGCCGGTAATGTATAGT-ATTAGCGGCGCTTATGGGAAGCGCCGCAAA-CGATGTTAACCA
1 AAAACGCCGCTAAAGTATA-TCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATC-ATCTTAACCA
*
47750525 AAACGCAGAG-TTTGGTCTTGATGTA-TATT-GCAATTAGTGGCGCTT-ATAAA
64 AAACGCAGAGTTTTGGTCTTGA-GGAGTATTAG-AATTAGTGGCGCTTGAT-AA
* * * * ** * *
47750575 TAAAACGCCGCTAATGTATAGT-ATTAGCGGCGCATAG-CATTAAACGCCGCAAGAT-ATCCTAA
1 -AAAACGCCGCTAAAGTATA-TCATCAGCGGCG-TTTGTC-GGAAGCGCCGCAA-ATCATCTTAA
* *** * * *
47750637 TCAAAACGCTCCGTTTTGGTCTTGATGTA-TACTATAATTAGTGGCG-TT--TAA
61 CCAAAACGCAGAGTTTTGGTCTTGA-GGAGTATTAGAATTAGTGGCGCTTGATAA
* * ** * *
47750688 GGAAAACGCCAG-TAAAGGATAGTTAT-AGTAGCGTTTGGTGGGAAGCGCCTCCAAAT-ATCTTA
1 --AAAACGCC-GCTAAAGTATA-TCATCAGCGGCGTTT-GTCGGAAGCGCC-GCAAATCATCTTA
*
47750750 ACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATAA
60 ACCAAAACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
* * *
47750805 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCGCAAATCATCTTACCCAAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
* * *
47750870 ACGCAGAGTTTTGGTCTTTAGAAGTATTAGAATTAGTGGCGCTTGATTA
66 ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
*
47750919 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTC-GAATGCGCCGCAAATCATCTTAACCAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAA-GCGCCGCAAATCATCTTAACCAA
*
47750983 AACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATAA
65 AACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
* * *
47751033 AAAACGCCGCTAAAGTATATCATCGGCGGCGTTTGTCGGATGCACCGCAAATCATCTTAACCAAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
* * *
47751098 ACGTAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTA
66 ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
*
47751147 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCGCAAATCATCTTAACCAAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
* * *
47751212 ACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGTTTGATTA
66 ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
*
47751261 AAAACGCCGCTGAAGTATA
1 AAAACGCCGCTAAAGTATA
47751280 GTATTAGCGG
Statistics
Matches: 710, Mismatches: 80, Indels: 57
0.84 0.09 0.07
Matches are distributed among these distances:
112 1 0.00
113 48 0.07
114 536 0.75
115 91 0.13
116 31 0.04
117 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (114 bp):
AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
Found at i:47751291 original size:114 final size:114
Alignment explanation
Indices: 47750739--47751279 Score: 958
Period size: 114 Copynumber: 4.8 Consensus size: 114
47750729 GAAGCGCCTC
47750739 CAAAT-ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
*
47750803 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
* *
47750852 CAAATCATCTTACCCAAAACGCAGAGTTTTGGTCTTTAGAAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
* * *
47750917 TAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGAATGCGCCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
47750966 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
* *
47751031 AAAAAACGCCGCTAAAGTATATCATCGGCGGCGTTTGTCGGATGCACCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
*
47751080 CAAATCATCTTAACCAAAACGTAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
*
47751145 TAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
*
47751194 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGTTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
* *
47751259 TAAAAACGCCGCTGAAGTATA
66 AAAAAACGCCGCTAAAGTATA
47751280 GTATTAGCGG
Statistics
Matches: 409, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
113 5 0.01
114 404 0.99
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (114 bp):
CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
Found at i:47751418 original size:18 final size:18
Alignment explanation
Indices: 47751397--47751432 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
47751387 TCATTTTATA
47751397 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
47751415 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
47751433 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:47752363 original size:7 final size:7
Alignment explanation
Indices: 47752342--47752421 Score: 106
Period size: 7 Copynumber: 11.3 Consensus size: 7
47752332 TTTATTGCTC
47752342 GGGGTTTT
1 GGGG-TTT
47752350 GGGGTTT
1 GGGGTTT
*
47752357 AGGGTTT
1 GGGGTTT
*
47752364 GGGATTT
1 GGGGTTT
47752371 GGGGTTT
1 GGGGTTT
*
47752378 AGGGTTT
1 GGGGTTT
47752385 GGGGTTT
1 GGGGTTT
47752392 GGGGTTT
1 GGGGTTT
47752399 GGGGTTT
1 GGGGTTT
*
47752406 GAGGTTT
1 GGGGTTT
*
47752413 GGGGATT
1 GGGGTTT
47752420 GG
1 GG
47752422 TTTTTGAGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
7 59 0.94
8 4 0.06
ACGTcount: A:0.06, C:0.00, G:0.53, T:0.41
Consensus pattern (7 bp):
GGGGTTT
Found at i:47752421 original size:21 final size:21
Alignment explanation
Indices: 47752347--47752433 Score: 106
Period size: 21 Copynumber: 4.1 Consensus size: 21
47752337 TGCTCGGGGT
47752347 TTTGGGGTTTAGGGTTTG-GG
1 TTTGGGGTTTAGGGTTTGAGG
*
47752367 ATTTGGGGTTTAGGGTTTGGGG
1 -TTTGGGGTTTAGGGTTTGAGG
*
47752389 TTTGGGGTTTGGGGTTTGAGG
1 TTTGGGGTTTAGGGTTTGAGG
* *
47752410 TTTGGGGATT-GGTTTTTGAGG
1 TTTGGGGTTTAGG-GTTTGAGG
47752431 TTT
1 TTT
47752434 AAGGATTAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.46
Consensus pattern (21 bp):
TTTGGGGTTTAGGGTTTGAGG
Found at i:47754038 original size:16 final size:16
Alignment explanation
Indices: 47754017--47754053 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47754007 GTATTTAGGG
*
47754017 TTTATCGATTTGCAAT
1 TTTATCGATTTACAAT
47754033 TTTATCGATTTACAAT
1 TTTATCGATTTACAAT
47754049 TTTAT
1 TTTAT
47754054 TTCAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTATCGATTTACAAT
Found at i:47754190 original size:67 final size:67
Alignment explanation
Indices: 47754113--47754251 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
47754103 ATTAATTGAT
*
47754113 TGAATGTCAATGAATTATCAATTTTGGTTA-TGTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
47754177 TAA
65 TAA
47754180 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
47754245 AA
66 AA
47754247 TGAAT
1 TGAAT
47754252 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:47754469 original size:76 final size:76
Alignment explanation
Indices: 47754375--47754832 Score: 877
Period size: 76 Copynumber: 6.1 Consensus size: 76
47754365 ATTTCATTTA
47754375 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
47754440 TATTTTACATG
66 TATTTTACATG
47754451 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
47754516 TATTTTACATG
66 TATTTTACATG
47754527 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
47754592 TATTTTACATG
66 TATTTTACATG
47754603 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
*
47754668 TATTTTACACG
66 TATTTTACATG
47754679 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
47754744 TATTTTACATG
66 TATTTTACATG
47754755 ACTTATTAAT--ATAT-TATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
*
47754817 CATTTTACATG
66 TATTTTACATG
47754828 ACTTA
1 ACTTA
47754833 CATTACTTAC
Statistics
Matches: 379, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
73 63 0.17
74 4 0.01
76 312 0.82
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (76 bp):
ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
TATTTTACATG
Found at i:47754941 original size:16 final size:16
Alignment explanation
Indices: 47754920--47754962 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
47754910 ACACTTATTA
47754920 AACTTACATAATACAT
1 AACTTACATAATACAT
47754936 AACTTACATAATACAT
1 AACTTACATAATACAT
* *
47754952 GACTTATATAA
1 AACTTACATAA
47754963 AATTCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:47755062 original size:9 final size:9
Alignment explanation
Indices: 47755003--47755210 Score: 130
Period size: 9 Copynumber: 23.8 Consensus size: 9
47754993 AGTTACATAT
*
47755003 TAACTTATA
1 TAACTTACA
47755012 TAAGCTTACA
1 TAA-CTTACA
*
47755022 TAA-TACACA
1 TAACT-TACA
*
47755031 TTACTTACA
1 TAACTTACA
* * *
47755040 TAGCATCCA
1 TAACTTACA
47755049 TAACTTACA
1 TAACTTACA
* *
47755058 CAACTTAAA
1 TAACTTACA
47755067 TAA--TACA
1 TAACTTACA
*
47755074 AAACTTACA
1 TAACTTACA
47755083 TAACTTACA
1 TAACTTACA
*
47755092 TAACCTACA
1 TAACTTACA
*
47755101 TAATACATA-A
1 T-A-ACTTACA
47755111 TAACTTAC-
1 TAACTTACA
47755119 -AACTTACA
1 TAACTTACA
*
47755127 TAACATACA
1 TAACTTACA
* **
47755136 TTACTTTGA
1 TAACTTACA
*
47755145 AAACTTACA
1 TAACTTACA
47755154 TAACTTACA
1 TAACTTACA
47755163 T-AC-TACA
1 TAACTTACA
* *
47755170 CAACTTAAA
1 TAACTTACA
* *
47755179 TAGCTTACT
1 TAACTTACA
47755188 TAA--TACA
1 TAACTTACA
47755195 TAACTTACA
1 TAACTTACA
47755204 TAACTTA
1 TAACTTA
47755211 TACACGTACA
Statistics
Matches: 147, Mismatches: 38, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
7 22 0.15
8 9 0.06
9 100 0.68
10 12 0.08
11 4 0.03
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
TAACTTACA
Found at i:47755135 original size:62 final size:61
Alignment explanation
Indices: 47755048--47755169 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 61
47755038 CATAGCATCC
*
47755048 ATAACTTACACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATACATA
1 ATAACTTA-ACAACTTAAATAATACAAAACTTACAAAACTTACATAACCTACATAATACATA
* ** ** * *
47755110 ATAACTT-ACAACTTACATAACATACATTACTTTGAAAACTTACATAACTTACATACTACA
1 ATAACTTAACAACTTAAAT-A-ATACAAAACTTACAAAACTTACATAACCTACATAATACA
47755170 CAACTTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 10 0.20
61 1 0.02
62 39 0.78
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (61 bp):
ATAACTTAACAACTTAAATAATACAAAACTTACAAAACTTACATAACCTACATAATACATA
Found at i:47755185 original size:25 final size:25
Alignment explanation
Indices: 47755070--47755210 Score: 88
Period size: 25 Copynumber: 5.4 Consensus size: 25
47755060 ACTTAAATAA
* * *
47755070 TACAAAACTTACATAACTTACATAACC
1 TACATAACTTACATAA--TACACAACT
47755097 TACATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
47755123 TACATAACATACATTACTTTGAAAACT
1 TACATAACTTACA-TA-ATACACAACT
*
47755150 TACATAACTTACATACTACACAACT
1 TACATAACTTACATAATACACAACT
* * * *
47755175 TAAATAGCTTACTTAATACATAACT
1 TACATAACTTACATAATACACAACT
47755200 TACATAACTTA
1 TACATAACTTA
47755211 TACACGTACA
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 42 0.48
26 13 0.15
27 23 0.26
28 4 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:47760780 original size:21 final size:21
Alignment explanation
Indices: 47760754--47760823 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
47760744 CAACAACTTA
* *
47760754 AAGCAGAGGCGACAGCGCGAG
1 AAGCAGAAGCGACAGCGAGAG
*
47760775 AAGCAGAAGCTACAGCGAGAG
1 AAGCAGAAGCGACAGCGAGAG
*
47760796 AAGCAGAAGCTG-CAGCAAGAG
1 AAGCAGAAGC-GACAGCGAGAG
47760817 AAGCAGA
1 AAGCAGA
47760824 GCAGGCCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.36, T:0.03
Consensus pattern (21 bp):
AAGCAGAAGCGACAGCGAGAG
Found at i:47761265 original size:37 final size:37
Alignment explanation
Indices: 47761166--47761414 Score: 304
Period size: 34 Copynumber: 6.8 Consensus size: 37
47761156 TGAAAATGCC
47761166 CTAAAG-ACATTTCTTTAGCGGCG-TTTTTAACG-CG
1 CTAAAGAACATTTCTTTAGCGGCGTTTTTTAACGCCG
47761200 CTAAAG-ACATTTCTTTAGCGGCGTTTTTTAAGCGCCG
1 CTAAAGAACATTTCTTTAGCGGCGTTTTTTAA-CGCCG
*
47761237 CTAAAGAACATTTCTTTAGTGGCGTTTTTTTAA-GCCG
1 CTAAAGAACATTTCTTTAGCGGCG-TTTTTTAACGCCG
*
47761274 CTAAAGAACA-TTCTTTAG-GGCTTTTTTTAACG-CG
1 CTAAAGAACATTTCTTTAGCGGCGTTTTTTAACGCCG
47761308 CTAAAGAACATGTTC-TTAGCGGCGTTTTTTAAGCGCCG
1 CTAAAGAACAT-TTCTTTAGCGGCGTTTTTTAA-CGCCG
*
47761346 CT-AAGAACATGTCTTTAGCGGCGTTTTTTCTAAGCGCCG
1 CTAAAGAACATTTCTTTAGCGGCG-TTTTT-TAA-CGCCG
* *
47761385 CTAAAGAACATGGTCTTTA-CGGCCTTTTTT
1 CTAAAGAACAT-TTCTTTAGCGGCGTTTTTT
47761415 TTAAACGCTG
Statistics
Matches: 194, Mismatches: 5, Indels: 28
0.85 0.02 0.12
Matches are distributed among these distances:
34 43 0.22
35 15 0.08
36 26 0.13
37 41 0.21
38 26 0.13
39 24 0.12
40 12 0.06
41 7 0.04
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (37 bp):
CTAAAGAACATTTCTTTAGCGGCGTTTTTTAACGCCG
Found at i:47761303 original size:108 final size:110
Alignment explanation
Indices: 47761166--47761415 Score: 350
Period size: 108 Copynumber: 2.3 Consensus size: 110
47761156 TGAAAATGCC
*
47761166 CTAAAG-ACATTTCTTTAGCGGC-GTTTTTAACGCGCTAAAG-ACAT-TTCTTTAGCGGCGTTTT
1 CTAAAGAACA-TTCTTTAG-GGCTTTTTTTAACGCGCTAAAGAACATGTTC-TTAGCGGCGTTTT
* *
47761227 TTAAGCGCCGCTAAAGAACATTTCTTTAGTGGCGTTTTTT-TAA-GCCG
63 TTAAGCGCCGCT-AAGAACATGTCTTTAGCGGCGTTTTTTCTAACGCCG
47761274 CTAAAGAACATTCTTTAGGGCTTTTTTTAACGCGCTAAAGAACATGTTCTTAGCGGCGTTTTTTA
1 CTAAAGAACATTCTTTAGGGCTTTTTTTAACGCGCTAAAGAACATGTTCTTAGCGGCGTTTTTTA
47761339 AGCGCCGCTAAGAACATGTCTTTAGCGGCGTTTTTTCTAAGCGCCG
66 AGCGCCGCTAAGAACATGTCTTTAGCGGCGTTTTTTCTAA-CGCCG
*
47761385 CTAAAGAACATGGTCTTTACGGCCTTTTTTT
1 CTAAAGAACAT--TCTTTA-GGGCTTTTTTT
47761416 TAAACGCTGC
Statistics
Matches: 128, Mismatches: 4, Indels: 14
0.88 0.03 0.10
Matches are distributed among these distances:
107 3 0.02
108 56 0.44
109 35 0.27
110 3 0.02
111 15 0.12
113 6 0.05
114 10 0.08
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (110 bp):
CTAAAGAACATTCTTTAGGGCTTTTTTTAACGCGCTAAAGAACATGTTCTTAGCGGCGTTTTTTA
AGCGCCGCTAAGAACATGTCTTTAGCGGCGTTTTTTCTAACGCCG
Found at i:47761488 original size:1 final size:1
Alignment explanation
Indices: 47761482--47761567 Score: 154
Period size: 1 Copynumber: 86.0 Consensus size: 1
47761472 ACGCCGCTAC
*
47761482 TTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
47761547 TTTTTTTTATTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
47761568 ATATCGTCAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.01, C:0.01, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:47774265 original size:21 final size:21
Alignment explanation
Indices: 47774239--47774308 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
47774229 CAACAACTTA
* *
47774239 AAGCAGAGGCGACAGCGCGAG
1 AAGCAGAAGCGACAGCGAGAG
*
47774260 AAGCAGAAGCTACAGCGAGAG
1 AAGCAGAAGCGACAGCGAGAG
*
47774281 AAGCAGAAGCTG-CAGCAAGAG
1 AAGCAGAAGC-GACAGCGAGAG
47774302 AAGCAGA
1 AAGCAGA
47774309 GCAGGCCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.36, T:0.03
Consensus pattern (21 bp):
AAGCAGAAGCGACAGCGAGAG
Found at i:47774895 original size:42 final size:42
Alignment explanation
Indices: 47774669--47774953 Score: 394
Period size: 43 Copynumber: 6.7 Consensus size: 42
47774659 AAGAATAAAT
*
47774669 GCCGCTAAAAGAGCAT-TGTCTTTAGCGGCGTTTCTTTTCTAAGC
1 GCCGCT-AAAGAACATGT-TCTTTAGCGGCGTTTC-TTTCTAAGC
* *
47774713 GTCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCT-AAGC
* * *
47774756 GCCGCTAAAGAACATTTTCTTTAGTGGCGTTTCTTTTTAAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCT-AAGC
* *
47774799 ACCGCTAAAGAACATTTTCTTTAGCGGCGTTTCTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTC-TTTCTAAGC
*
47774842 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCGTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAGC
*
47774884 GCCGCTGAAGAACATGTTCTTTAGCGGCGTTT-TTTCCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTT-CTAAGC
*
47774926 GCCGCTAAAGAACATGGTCTTTAGCGGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGC
47774954 ACTTTTATTT
Statistics
Matches: 221, Mismatches: 16, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
41 2 0.01
42 75 0.34
43 134 0.61
44 10 0.05
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAGC
Found at i:47779348 original size:89 final size:89
Alignment explanation
Indices: 47779141--47779370 Score: 277
Period size: 92 Copynumber: 2.6 Consensus size: 89
47779131 AAGCCCTTTT
* * *
47779141 TTTTTGTTTGCACTCAATTGGGTATTTGAACTTTCAAAATGCATCAAAAAAGCCCTCAAACTATT
1 TTTTT-TTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCAT-TAAAAAGCCCGCAAAC--TT
*
47779206 TTAAAAAAAAAAGCAATTAAGCCCCTAC
62 TTAAAAAAAAAAGCAATTAAGCCACTAC
* *
47779234 TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGCTCGCAAGC-TTTAA
1 TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGCCCGCAAACTTTTAA
* *
47779298 AAAATAAAA-CAATTAAGCCATTGAG
66 AAAA-AAAAGCAATTAAGCCACT-AC
* ** *
47779323 TTTTTTTGGCACTCAATTTAGTACTTGAACTGT-AAAATGCATTAAAAA
1 TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAA
47779371 TACTCTCTGA
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
88 35 0.28
89 34 0.28
91 12 0.10
92 37 0.30
93 5 0.04
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (89 bp):
TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGCCCGCAAACTTTTAA
AAAAAAAAGCAATTAAGCCACTAC
Found at i:47779985 original size:77 final size:77
Alignment explanation
Indices: 47779858--47780010 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
47779848 TTTAGAGGAG
*
47779858 TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAGGGGTGTAGTAGTA
1 TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAAGGGTGTAGTAGTA
47779923 GTTGGCTGAAAT
66 GTTGGCTGAAAT
* *
47779935 TTTGAAAGTGTTTCAAATTAGGGGTGTTGAGAGATTTGGGGAGTGGAATTAAGGGTGTAGTAGTA
1 TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAAGGGTGTAGTAGTA
47780000 GTTGGCTGAAA
66 GTTGGCTGAAA
47780011 GTAGGTTTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.28, C:0.03, G:0.36, T:0.33
Consensus pattern (77 bp):
TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAAGGGTGTAGTAGTA
GTTGGCTGAAAT
Found at i:47781393 original size:27 final size:27
Alignment explanation
Indices: 47781342--47781866 Score: 586
Period size: 27 Copynumber: 19.5 Consensus size: 27
47781332 AAAGGTTATT
* *
47781342 AAATGACCATAATGTCCCTTGTAGGGTA
1 AAATGACCGTAATG-CCCCTGTAGGGTA
* * * * *
47781370 AAATTATCGTAATACCCCTATAGGGAA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* **
47781397 AAATGACCGTAATACCCCCATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * * * **
47781424 AAATAACCGTAATACTCCTATAGAATA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
47781451 AAATGACCGTAATACCCC-ATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
47781477 AAATAACCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * ** * * *
47781504 AATTAATTGTAATACCTCTATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * * *
47781531 AAATGATCGTAATACCCTTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
47781558 AAATGACCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
47781585 AAATGACCGTAATGCCCCTGTAGGGT-
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
47781611 AAATGTCCGTAATGCCTCTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
47781638 AAATGACCGTAATGCCTCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
47781665 AAATAATCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
47781692 AAATGACCGTAATGCCCTTATAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
47781719 AAATGACCATAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
47781746 AAATGACCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
47781773 AAATGATCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
47781800 AAATGATCGTAATGCCCTTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
47781827 AAATGACCGTAATGCCCCTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
47781854 AAATGATCGTAAT
1 AAATGACCGTAAT
47781867 ACCCTCGAGG
Statistics
Matches: 429, Mismatches: 66, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
26 45 0.10
27 374 0.87
28 10 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:47781931 original size:24 final size:24
Alignment explanation
Indices: 47781903--47781961 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
47781893 TCTACAGTTA
* *
47781903 AATGACTGATTTTTTTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
* *
47781927 TATGATTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
47781951 AATGACTGATT
1 AATGACTGATT
47781962 CTGAGCATGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:47782115 original size:26 final size:26
Alignment explanation
Indices: 47782086--47782136 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
47782076 TATACTATAT
*
47782086 TGGCAGCTTTGCTGCGATACTACTGC
1 TGGCAACTTTGCTGCGATACTACTGC
* *
47782112 TGGCAACTTTGTTGCGATGCTACTG
1 TGGCAACTTTGCTGCGATACTACTG
47782137 ATGCCTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (26 bp):
TGGCAACTTTGCTGCGATACTACTGC
Found at i:47782177 original size:32 final size:31
Alignment explanation
Indices: 47782132--47782320 Score: 189
Period size: 32 Copynumber: 5.9 Consensus size: 31
47782122 GTTGCGATGC
* *
47782132 TACTGATGCCTTTGTGCCGATCATATTATCAT
1 TACTGATG-CTTTGTGCCGATCATATTACCGT
* *
47782164 CACTGATAGCTTTGTGCCAATCATATTACCGT
1 TACTGAT-GCTTTGTGCCGATCATATTACCGT
* *
47782196 TATTGATGATTTTGTGCCGATCATATTACCGT
1 TACTGATG-CTTTGTGCCGATCATATTACCGT
*
47782228 TACTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGAT-GCTTTGTGCCGATCATATTACCGT
* * * * *
47782260 TATTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGAT-GCTTTGTGCCGATCATATTACCGT
* * *
47782292 TATTGATGGCTTTGTGCCAAACATATTAC
1 TACTGAT-GCTTTGTGCCGATCATATTAC
47782321 TGTACTTATG
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.01
32 130 0.98
33 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (31 bp):
TACTGATGCTTTGTGCCGATCATATTACCGT
Found at i:47782240 original size:64 final size:64
Alignment explanation
Indices: 47782135--47782320 Score: 237
Period size: 64 Copynumber: 2.9 Consensus size: 64
47782125 GCGATGCTAC
* * * * *
47782135 TGATGCCTTTGTGCCGATCATATTATCATCACTGATAGCTTTGTGCCAATCATATTACCGTTAT
1 TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTACCGTTAT
* * *
47782199 TGATGATTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTACCGATCATATTACCGTTAT
1 TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTACCGTTAT
* * * * * * *
47782263 TGATGGCTGTGTGCCGATCATATCACTGCTATTGATGGCTTTGTGCCAAACATATTAC
1 TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTAC
47782321 TGTACTTATG
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 104 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (64 bp):
TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTACCGTTAT
Found at i:47782296 original size:96 final size:95
Alignment explanation
Indices: 47782132--47782334 Score: 235
Period size: 96 Copynumber: 2.1 Consensus size: 95
47782122 GTTGCGATGC
* * * * * *
47782132 TACTGATGCCTTTGTGCCGATCATATTATCATCACTGATAGCTTTGTGCCAATCATATTACCGTT
1 TACTGATGGCTTTGTACCGATCATATTACCATCACTGATAGCTGTGTGCCAATCATATCACCGCT
* * *
47782197 ATTGATGATTTTGTGCCGATCATATTACCG
66 ATTGATGACTTTGTGCCAAACATATTACCG
* * * * * *
47782227 TTACTGATGGCTTTGTACCGATCATATTACCGTTATTGATGGCTGTGTGCCGATCATATCACTGC
1 -TACTGATGGCTTTGTACCGATCATATTACCATCACTGATAGCTGTGTGCCAATCATATCACCGC
* *
47782292 TATTGATGGCTTTGTGCCAAACATATTACTG
65 TATTGATGACTTTGTGCCAAACATATTACCG
*
47782323 TACTTATGGCTT
1 TACTGATGGCTT
47782335 GTAGCCATTC
Statistics
Matches: 89, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
95 11 0.12
96 78 0.88
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (95 bp):
TACTGATGGCTTTGTACCGATCATATTACCATCACTGATAGCTGTGTGCCAATCATATCACCGCT
ATTGATGACTTTGTGCCAAACATATTACCG
Found at i:47782351 original size:22 final size:22
Alignment explanation
Indices: 47782326--47782372 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
47782316 ATTACTGTAC
* * *
47782326 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
47782348 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
47782370 TTA
1 TTA
47782373 CGACTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:47783348 original size:9 final size:9
Alignment explanation
Indices: 47783336--47783407 Score: 63
Period size: 9 Copynumber: 7.4 Consensus size: 9
47783326 AAATTAGGAA
47783336 AAAAATTAT
1 AAAAATTAT
*
47783345 AAAAATCGTAA
1 AAAAAT--TAT
47783356 AAGAAATTAT
1 AA-AAATTAT
*
47783366 AAAATATTGT
1 AAAA-ATTAT
47783376 AAAAATTTAT
1 AAAAA-TTAT
* *
47783386 AAAAGTCAT
1 AAAAATTAT
47783395 AAAAATTAT
1 AAAAATTAT
47783404 AAAA
1 AAAA
47783408 GGCATCAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 23 0.46
10 19 0.38
11 4 0.08
12 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:47783362 original size:21 final size:21
Alignment explanation
Indices: 47783312--47783389 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
47783302 AATACAAATA
* *
47783312 TAAAAATATTATTAAAAT-TAG
1 TAAAAAAATTA-TAAAATATCG
*
47783333 GAAAAAAATTATAAAA-ATCG
1 TAAAAAAATTATAAAATATCG
*
47783353 TAAAAGAAATTATAAAATATTG
1 TAAAA-AAATTATAAAATATCG
*
47783375 T-AAAAATTTATAAAA
1 TAAAAAAATTATAAAA
47783390 GTCATAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 21 0.44
21 23 0.48
22 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAAAAAATTATAAAATATCG
Found at i:47783385 original size:20 final size:20
Alignment explanation
Indices: 47783334--47783407 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
47783324 TAAAATTAGG
47783334 AAAAAAATTATAAAAATCGT
1 AAAAAAATTATAAAAATCGT
*
47783354 AAAAGAAATTATAAAATATTGT
1 AAAA-AAATTATAAAA-ATCGT
* *
47783376 -AAAAATTTATAAAAGTC--
1 AAAAAAATTATAAAAATCGT
*
47783393 ATAAAAATTATAAAA
1 AAAAAAATTATAAAA
47783408 GGCATCAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.27
19 1 0.02
20 14 0.31
21 14 0.31
22 4 0.09
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAAAATTATAAAAATCGT
Found at i:47783408 original size:18 final size:19
Alignment explanation
Indices: 47783375--47783418 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
47783365 TAAAATATTG
*
47783375 TAAAAATTTATAAAAGTCA
1 TAAAAATTTATAAAAGGCA
47783394 TAAAAA-TTATAAAAGGCA
1 TAAAAATTTATAAAAGGCA
47783412 TCAAAAA
1 T-AAAAA
47783419 GACTAACGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (19 bp):
TAAAAATTTATAAAAGGCA
Found at i:47783590 original size:9 final size:10
Alignment explanation
Indices: 47783559--47783734 Score: 72
Period size: 9 Copynumber: 18.3 Consensus size: 10
47783549 AGTACGATAA
47783559 TTTTATAATT
1 TTTTATAATT
47783569 TTTTATGAA--
1 TTTTAT-AATT
47783578 TTTTAT-ATT
1 TTTTATAATT
47783587 TTTTATAATT
1 TTTTATAATT
*
47783597 TTCTTACAA--
1 TT-TTATAATT
* **
47783606 CTTTATAAAA
1 TTTTATAATT
47783616 TTTTATAATT
1 TTTTATAATT
47783626 TTTT-T-ATAT
1 TTTTATAAT-T
* *
47783635 TTCTAT-ATA
1 TTTTATAATT
*
47783644 TTTTCTAA-T
1 TTTTATAATT
*
47783653 TTTTATGA-T
1 TTTTATAATT
**
47783662 TTTTATAAAA
1 TTTTATAATT
*
47783672 TTTTACAA-T
1 TTTTATAATT
47783681 TTTTATATATT
1 TTTTATA-ATT
47783692 TTTTA-AGA-T
1 TTTTATA-ATT
*
47783701 TTTCATAACTT
1 TTTTATAA-TT
* *
47783712 TTTTGTAATA
1 TTTTATAATT
*
47783722 TTTAATAATT
1 TTTTATAATT
47783732 TTT
1 TTT
47783735 AAATATTATT
Statistics
Matches: 124, Mismatches: 26, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 7 0.06
9 48 0.39
10 48 0.39
11 20 0.16
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:47783592 original size:28 final size:28
Alignment explanation
Indices: 47783558--47783684 Score: 109
Period size: 28 Copynumber: 4.5 Consensus size: 28
47783548 TAGTACGATA
47783558 ATTTTATAATTTTTTATGAATTTTATAT
1 ATTTTATAATTTTTTATGAATTTTATAT
* * * *
47783586 TTTTTATAATTTTCTTA-CAACTTTATAAA
1 ATTTTATAATTTT-TTATGAATTTTAT-AT
47783615 ATTTTATAATTTTTT-T-ATATTTCTATAT
1 ATTTTATAATTTTTTATGA-ATTT-TATAT
* * *
47783643 ATTTTCTAA-TTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTATGAATTTTAT-AT
*
47783671 ATTTTACAATTTTT
1 ATTTTATAATTTTT
47783685 ATATATTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
27 9 0.12
28 45 0.58
29 24 0.31
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTATAATTTTTTATGAATTTTATAT
Found at i:47783685 original size:28 final size:27
Alignment explanation
Indices: 47783607--47783703 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
47783597 TTCTTACAAC
*
47783607 TTTATAAAATTTTATAATTTTTTTATATT
1 TTTATAAAATTTTACAA--TTTTTATATT
* *
47783636 TCTAT-ATATTTT-CTAATTTTTATGATT
1 TTTATAAAATTTTAC-AATTTTTAT-ATT
47783663 TTTATAAAATTTTACAATTTTTATATAT
1 TTTATAAAATTTTACAATTTTTATAT-T
* *
47783691 TTTTTAAGATTTT
1 TTTATAAAATTTT
47783704 CATAACTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
26 7 0.12
27 9 0.16
28 35 0.62
29 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTATAAAATTTTACAATTTTTATATT
Found at i:47783694 original size:19 final size:19
Alignment explanation
Indices: 47783559--47783694 Score: 84
Period size: 19 Copynumber: 7.2 Consensus size: 19
47783549 AGTACGATAA
*
47783559 TTTTATAATTTTT-TATGAA
1 TTTTATAATTTTTATAT-AT
*
47783578 TTTTATATTTTTTATA-AT
1 TTTTATAATTTTTATATAT
** * *
47783596 TTTCT-TACAACTTTATAAAA
1 TTT-TATA-ATTTTTATATAT
*
47783616 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTTATATAT
* *
47783635 TTCTAT-ATATTTTCTA-AT
1 TTTTATAAT-TTTTATATAT
* * *
47783653 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTTATATAT
*
47783672 TTTTACAATTTTTATATAT
1 TTTTATAATTTTTATATAT
47783691 TTTT
1 TTTT
47783695 TAAGATTTTC
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
18 21 0.24
19 60 0.67
20 8 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Done.