Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 35 of 185
Found at i:9638704 original size:189 final size:189
Alignment explanation
Indices: 9638384--9638761 Score: 756
Period size: 189 Copynumber: 2.0 Consensus size: 189
9638374 TTTGTCCATT
9638384 CTCTTCCAGTTGCATTCTCCTTTATTCTTTTGTAATTCCTCATCAGTAGATCAAATCTCTACTCT
1 CTCTTCCAGTTGCATTCTCCTTTATTCTTTTGTAATTCCTCATCAGTAGATCAAATCTCTACTCT
9638449 TGAATAAATGTATATGGCTATAATTGTTGCAAGTATTAGTCTATATCGTCTTCTTGAAATTCAAT
66 TGAATAAATGTATATGGCTATAATTGTTGCAAGTATTAGTCTATATCGTCTTCTTGAAATTCAAT
9638514 GGCTGGGCTTGAAGCACTTGCACTAAACTTACCATAGGATAATCTATTTTTATTGATCC
131 GGCTGGGCTTGAAGCACTTGCACTAAACTTACCATAGGATAATCTATTTTTATTGATCC
9638573 CTCTTCCAGTTGCATTCTCCTTTATTCTTTTGTAATTCCTCATCAGTAGATCAAATCTCTACTCT
1 CTCTTCCAGTTGCATTCTCCTTTATTCTTTTGTAATTCCTCATCAGTAGATCAAATCTCTACTCT
9638638 TGAATAAATGTATATGGCTATAATTGTTGCAAGTATTAGTCTATATCGTCTTCTTGAAATTCAAT
66 TGAATAAATGTATATGGCTATAATTGTTGCAAGTATTAGTCTATATCGTCTTCTTGAAATTCAAT
9638703 GGCTGGGCTTGAAGCACTTGCACTAAACTTACCATAGGATAATCTATTTTTATTGATCC
131 GGCTGGGCTTGAAGCACTTGCACTAAACTTACCATAGGATAATCTATTTTTATTGATCC
9638762 TACACTTTAA
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 189 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (189 bp):
CTCTTCCAGTTGCATTCTCCTTTATTCTTTTGTAATTCCTCATCAGTAGATCAAATCTCTACTCT
TGAATAAATGTATATGGCTATAATTGTTGCAAGTATTAGTCTATATCGTCTTCTTGAAATTCAAT
GGCTGGGCTTGAAGCACTTGCACTAAACTTACCATAGGATAATCTATTTTTATTGATCC
Found at i:9642634 original size:13 final size:13
Alignment explanation
Indices: 9642618--9642646 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9642608 TCTTTTCTTT
9642618 TTTATTTTTCATC
1 TTTATTTTTCATC
9642631 TTTATTTTTCATC
1 TTTATTTTTCATC
9642644 TTT
1 TTT
9642647 CCAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTTCATC
Found at i:9670453 original size:43 final size:43
Alignment explanation
Indices: 9670405--9670543 Score: 174
Period size: 43 Copynumber: 3.3 Consensus size: 43
9670395 TGTGATTTCG
* *
9670405 TGTAAGACCATGTCTGGGACATTGACATCGATATGAGATTACT
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
* *
9670448 TGTAAGAACATGTCTGGGACATTGGCATCG-TAT-ATGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGA-GATTACA
* * * * *
9670490 TATAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
9670533 TGTAAGACCAT
1 TGTAAGACCAT
9670544 ACCTGAAATA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 34 0.43
43 45 0.56
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
Found at i:9672739 original size:13 final size:13
Alignment explanation
Indices: 9672721--9672747 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9672711 TCATAAACAC
9672721 TATATAATAAAAT
1 TATATAATAAAAT
9672734 TATATAATAAAAT
1 TATATAATAAAAT
9672747 T
1 T
9672748 TACAAGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAAAT
Found at i:9674027 original size:16 final size:16
Alignment explanation
Indices: 9674006--9674041 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9673996 TTTTACATAA
*
9674006 ATATAAATATTTGTTT
1 ATATAAATATTTGCTT
9674022 ATATAAATATTTGCTT
1 ATATAAATATTTGCTT
9674038 ATAT
1 ATAT
9674042 TAAGTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTGCTT
Found at i:9684173 original size:41 final size:41
Alignment explanation
Indices: 9684128--9684256 Score: 231
Period size: 41 Copynumber: 3.1 Consensus size: 41
9684118 TCATATTCGG
9684128 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
9684169 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
9684210 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
9684251 ATCACC
1 ATCACC
9684257 AATTCCAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:9690654 original size:3 final size:3
Alignment explanation
Indices: 9690646--9690678 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9690636 AAACACAACC
9690646 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9690679 TTACTATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9691800 original size:41 final size:41
Alignment explanation
Indices: 9691755--9691883 Score: 231
Period size: 41 Copynumber: 3.1 Consensus size: 41
9691745 TCATATTCGG
9691755 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
9691796 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
9691837 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
9691878 ATCACC
1 ATCACC
9691884 AATTCCAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:9698432 original size:34 final size:34
Alignment explanation
Indices: 9698347--9698505 Score: 113
Period size: 34 Copynumber: 4.6 Consensus size: 34
9698337 TTAGTATATT
* * * * *
9698347 CGACTAGCACTAGGCACAACTTTCGTCAGTTCATC
1 CGACTAGCGCTGGGCAC-ACATTCGTCGGTTTATC
* * * * *
9698382 TGATTAGTGCTAGGCACACATTCGTTGGTTTATC
1 CGACTAGCGCTGGGCACACATTCGTCGGTTTATC
* * * * *
9698416 CGACTAGCGTTGGGCACAACTTTTG-CGAGCTTGTC
1 CGACTAGCGCTGGGCAC-ACATTCGTCG-GTTTATC
* *
9698451 TGACTAGTGCTGGGCACACATTCGTCGGTTTATC
1 CGACTAGCGCTGGGCACACATTCGTCGGTTTATC
* *
9698485 CGACTAGCACTGGGCTCACAT
1 CGACTAGCGCTGGGCACACAT
9698506 CTAATATCAT
Statistics
Matches: 92, Mismatches: 29, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
34 53 0.58
35 39 0.42
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.30
Consensus pattern (34 bp):
CGACTAGCGCTGGGCACACATTCGTCGGTTTATC
Found at i:9698499 original size:69 final size:69
Alignment explanation
Indices: 9698347--9698499 Score: 202
Period size: 69 Copynumber: 2.2 Consensus size: 69
9698337 TTAGTATATT
* * *
9698347 CGACTAGCACTAGGCACAACTTTCGTCAGTTCATCTGATTAGTGCTAGGCACACATTCGTTGGTT
1 CGACTAGCACTGGGCACAACTTTCGTCAGTTCATCTGACTAGTGCTAGGCACACATTCGTCGGTT
9698412 TATC
66 TATC
** * * *
9698416 CGACTAGCGTTGGGCACAACTTTTG-CGAGCTT-GTCTGACTAGTGCTGGGCACACATTCGTCGG
1 CGACTAGCACTGGGCACAACTTTCGTC-AG-TTCATCTGACTAGTGCTAGGCACACATTCGTCGG
9698479 TTTATC
64 TTTATC
9698485 CGACTAGCACTGGGC
1 CGACTAGCACTGGGC
9698500 TCACATCTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
68 1 0.01
69 69 0.96
70 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.29
Consensus pattern (69 bp):
CGACTAGCACTGGGCACAACTTTCGTCAGTTCATCTGACTAGTGCTAGGCACACATTCGTCGGTT
TATC
Found at i:9702774 original size:70 final size:70
Alignment explanation
Indices: 9702540--9702786 Score: 257
Period size: 70 Copynumber: 3.5 Consensus size: 70
9702530 GAGAATGGCT
* * * * * * **
9702540 CATTTCAAACCTTGTATCATTAACATGGCGGGAAGAACCCTTCCAACTTTAACATGGTGGGAGGA
1 CATTTCAAACTTTGCAACATCAACATGGCGAGAAGAACCCTTGCAACTTTAACATGGTGAAAGGA
9702605 AGGCC
66 AGGCC
* * *
9702610 CA-TTCTAAGCTTTGCAACATCAACATGGCAAGAAGAACTCTTGCAACTTTAACATGGT-AAGAG
1 CATTTC-AAACTTTGCAACATCAACATGGCGAGAAGAACCCTTGCAACTTTAACATGGTGAA-AG
*
9702673 G-AGGAAC
64 GAAGG-CC
** *
9702680 CATTTCAAACTTTGCAACGCCAACATGGTGAGAAGAACCCTTGCAACTTTAACATGGTGAAAGGA
1 CATTTCAAACTTTGCAACATCAACATGGCGAGAAGAACCCTTGCAACTTTAACATGGTGAAAGGA
9702745 AGGCC
66 AGGCC
* * * * * *
9702750 CATTTCGAATTTTACACCATCAACATGGTGGGAAGAA
1 CATTTCAAACTTTGCAACATCAACATGGCGAGAAGAA
9702787 GTTTTGCAAC
Statistics
Matches: 145, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
69 6 0.04
70 131 0.90
71 8 0.06
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (70 bp):
CATTTCAAACTTTGCAACATCAACATGGCGAGAAGAACCCTTGCAACTTTAACATGGTGAAAGGA
AGGCC
Found at i:9704383 original size:70 final size:67
Alignment explanation
Indices: 9704269--9704455 Score: 205
Period size: 70 Copynumber: 2.7 Consensus size: 67
9704259 TAATGACAGG
* * * *
9704269 TTAACATGGTGAGACGAGGGCTCATTCCTAACTTTGTAACATCAACATGACATGAAGAACTCTTG
1 TTAACATGGTGAGAGGAGGGCCCATTCC-AAATTTGTAACATCAACATGACAGGAAGAAC-CTT-
9704334 T-AAC
63 TAAAC
* **
9704338 TGTAACATGGTGAGAGGAGGGCCCAATCCGAAATTTGTAACATCAACATGATGGGAAGAACCTTT
1 T-TAACATGGTGAGAGGAGGGCCCATTCC-AAATTTGTAACATCAACATGACAGGAAGAACCTTT
9704403 ACAAC
64 A-AAC
** *
9704408 TTCAACATGGTGAGAGGAATGCCCATTCCAAACATTGTAACATCAACA
1 TT-AACATGGTGAGAGGAGGGCCCATTCCAAA-TTTGTAACATCAACA
9704456 AGGCAAAAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
68 1 0.01
69 8 0.08
70 92 0.91
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (67 bp):
TTAACATGGTGAGAGGAGGGCCCATTCCAAATTTGTAACATCAACATGACAGGAAGAACCTTTAA
AC
Found at i:9704475 original size:70 final size:70
Alignment explanation
Indices: 9704401--9704537 Score: 168
Period size: 70 Copynumber: 2.0 Consensus size: 70
9704391 GGAAGAACCT
* * * * *
9704401 TTACAACTTCAACATGGTGAGAGGAATG-CCCATTCCAAACATTGTAACATCAACAAGGCAAAAA
1 TTACAACTTCAACATGGCGAGA-AAAGGTCCAATTCCAAACATTGCAACATCAACAAGGCAAAAA
9704465 TAATCC
65 TAATCC
* * * * *
9704471 TTACAAGTTCAACATGGCGAGAAAAGGTCCAATTCCAAACTTTGCATCATCAACATGGCAAGAAT
1 TTACAACTTCAACATGGCGAGAAAAGGTCCAATTCCAAACATTGCAACATCAACAAGGCAAAAAT
9704536 AA
66 AA
9704538 ATTTTCCACC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
69 3 0.05
70 53 0.95
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (70 bp):
TTACAACTTCAACATGGCGAGAAAAGGTCCAATTCCAAACATTGCAACATCAACAAGGCAAAAAT
AATCC
Found at i:9705323 original size:58 final size:59
Alignment explanation
Indices: 9705214--9705361 Score: 171
Period size: 58 Copynumber: 2.6 Consensus size: 59
9705204 TTAAGGCGTT
* *
9705214 CAATGAAGGATTTT-AAGCTTAA--CGATTTTTTTTACCTTAACTTTTGTTTAAGTAATC
1 CAATGAAGGATTTTCAA-CTTAATGAGATTTTTTTTACCTTAACTTTTGCTTAAGTAATC
* * *
9705271 CATTGAAGGATTTTCAACTTAATGAGATTTTTTTT-CTTTAACTTTTGCTTAAGTCATC
1 CAATGAAGGATTTTCAACTTAATGAGATTTTTTTTACCTTAACTTTTGCTTAAGTAATC
** * *
9705329 CAAAAAAGGATTTTCAGCTTAATGA-ACTTTTTT
1 CAATGAAGGATTTTCAACTTAATGAGATTTTTTT
9705362 GTGTGTAAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
57 25 0.32
58 43 0.55
59 10 0.13
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (59 bp):
CAATGAAGGATTTTCAACTTAATGAGATTTTTTTTACCTTAACTTTTGCTTAAGTAATC
Found at i:9708498 original size:45 final size:45
Alignment explanation
Indices: 9708400--9708651 Score: 409
Period size: 45 Copynumber: 5.6 Consensus size: 45
9708390 TTTGAGTACT
* *
9708400 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
9708446 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
9708491 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCAAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
* * *
9708536 TCTGATCAAGTGTCGAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
9708582 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
9708627 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
9708652 ATCATACGTA
Statistics
Matches: 194, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 105 0.54
46 72 0.37
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
Found at i:9708574 original size:91 final size:89
Alignment explanation
Indices: 9708400--9708651 Score: 407
Period size: 91 Copynumber: 2.8 Consensus size: 89
9708390 TTTGAGTACT
* *
9708400 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGAC-AAGT
9708465 GATAAGTGGTAGCCTAGCTACACTTA
64 GATAAGTGGTAGCCTAGCTACACTTA
* *
9708491 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCAAGCTACACTTATCTGATCAAGTGTCGAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGAC-AAGTG
*
9708556 ATAAGTGGTAGCTTTAGCTACACTTA
65 ATAAGTGGTAGC-CTAGCTACACTTA
*
9708582 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAGTGA
9708646 TAAGTG
66 TAAGTG
9708652 ATCATACGTA
Statistics
Matches: 151, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
89 12 0.08
90 45 0.30
91 94 0.62
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (89 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAGTGA
TAAGTGGTAGCCTAGCTACACTTA
Found at i:9712799 original size:21 final size:21
Alignment explanation
Indices: 9712775--9712820 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
9712765 TGTTCAAAAA
*
9712775 ATACAAGTATGCAAAATTAAT
1 ATACAAGTATGCAAAATGAAT
9712796 ATACAAGTATGCAAAATGAAT
1 ATACAAGTATGCAAAATGAAT
9712817 ATAC
1 ATAC
9712821 TATACTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (21 bp):
ATACAAGTATGCAAAATGAAT
Found at i:9716486 original size:21 final size:19
Alignment explanation
Indices: 9716431--9716473 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
9716421 AATCTTTAAG
9716431 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9716450 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9716469 GATAT
1 GATAT
9716474 ATGCAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9716491 original size:19 final size:19
Alignment explanation
Indices: 9716432--9716492 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
9716422 ATCTTTAAGG
*
9716432 ATATGCAATCTTAG-ATAT
1 ATATGCAATCTTAGAAGAT
9716450 GATATGCAATCTTAGATATGAT
1 -ATATGCAATCTTAGA-A-GAT
*
9716472 ATATGCAATTTTAGAAGAT
1 ATATGCAATCTTAGAAGAT
9716491 AT
1 AT
9716493 GATTTTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 19 0.51
20 1 0.03
21 15 0.41
22 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGAAGAT
Found at i:9716757 original size:23 final size:23
Alignment explanation
Indices: 9716713--9716757 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9716703 TCTTATTTTG
* *
9716713 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
9716736 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
9716758 CAATTCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:9717256 original size:25 final size:25
Alignment explanation
Indices: 9717194--9717256 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
9717184 TTTTTTATTT
* * *
9717194 TTTTTATAATTCACATACATATATA
1 TTTTTATATTTTATATACATATATA
* *
9717219 -TTTT-TCTTATATATACATATATA
1 TTTTTATATTTTATATACATATATA
9717242 TTTTTATATTTTATA
1 TTTTTATATTTTATA
9717257 ATTTTTATCT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 14 0.48
24 8 0.28
25 7 0.24
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTTATATTTTATATACATATATA
Found at i:9721694 original size:20 final size:20
Alignment explanation
Indices: 9721669--9721711 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9721659 CTTCGTGGAT
9721669 ATTTGCACGATTTTTATGAA
1 ATTTGCACGATTTTTATGAA
* *
9721689 ATTTGCATGGTTTTTATGAA
1 ATTTGCACGATTTTTATGAA
9721709 ATT
1 ATT
9721712 AAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (20 bp):
ATTTGCACGATTTTTATGAA
Found at i:9721790 original size:13 final size:12
Alignment explanation
Indices: 9721758--9721791 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9721748 AAGCCAATAG
9721758 TTTTAAAATATT
1 TTTTAAAATATT
9721770 TTTTAAAATATT
1 TTTTAAAATATT
9721782 TTTTCAAAAT
1 TTTT-AAAAT
9721792 TCTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:9727587 original size:27 final size:27
Alignment explanation
Indices: 9727547--9727609 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
9727537 TTTAAAATAC
* *
9727547 TTTTAAAATAAATTTTTTATTTTTTTAT
1 TTTTAAAATAAATTTTTTA-ATGTTTAT
9727575 TTTTAAAAT-AATTTTTTAATGTTTAT
1 TTTTAAAATAAATTTTTTAATGTTTAT
*
9727601 TTTAAAAAT
1 TTTTAAAAT
9727610 GGGTCGGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.44
27 9 0.28
28 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAAATTTTTTAATGTTTAT
Found at i:9734765 original size:19 final size:21
Alignment explanation
Indices: 9734733--9734771 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9734723 TTTTTAATAG
9734733 TAAAAATAAATAATT-TTTTT
1 TAAAAATAAATAATTGTTTTT
*
9734753 TAAAAA-AACTAATTGTTTT
1 TAAAAATAAATAATTGTTTT
9734772 AATATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (21 bp):
TAAAAATAAATAATTGTTTTT
Found at i:9737890 original size:44 final size:45
Alignment explanation
Indices: 9737795--9737902 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 45
9737785 TATGTGGTCG
* * *
9737795 AAGCCACCAATATTTGCAGACAAGATGCCATGTAGATTGAGGATA
1 AAGCCACCAATATTCGCAGACAAGATGCCATGTAAATTGAGGACA
* *
9737840 AA-CCACCAA-ATTCACAGACAA-ACTGCCATGTAAATTGTGGACA
1 AAGCCACCAATATTCGCAGACAAGA-TGCCATGTAAATTGAGGACA
9737883 AAGCCACCAATATTCGCAGA
1 AAGCCACCAATATTCGCAGA
9737903 TGATCTTCCG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 29 0.54
44 14 0.26
45 10 0.19
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (45 bp):
AAGCCACCAATATTCGCAGACAAGATGCCATGTAAATTGAGGACA
Found at i:9739505 original size:23 final size:20
Alignment explanation
Indices: 9739477--9739527 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
9739467 CGACCTATTT
*
9739477 TTTTAATAAACACCAAAAAATTA
1 TTTTAA-AAACA--AAAAAAGTA
*
9739500 TTTTAAAAATAAAAAAAGTA
1 TTTTAAAAACAAAAAAAGTA
9739520 TTTTAAAA
1 TTTTAAAA
9739528 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 16 0.62
22 4 0.15
23 6 0.23
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAGTA
Found at i:9739529 original size:11 final size:11
Alignment explanation
Indices: 9739513--9739538 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9739503 TAAAAATAAA
9739513 AAAAGTATTTT
1 AAAAGTATTTT
9739524 AAAAGTATTTT
1 AAAAGTATTTT
9739535 AAAA
1 AAAA
9739539 TAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:9741091 original size:19 final size:18
Alignment explanation
Indices: 9741064--9741137 Score: 82
Period size: 17 Copynumber: 4.2 Consensus size: 18
9741054 TTTTTAGTTC
9741064 TTTTATTT-TTTTATAAA
1 TTTTATTTATTTTATAAA
*
9741081 TTTTAGTTT-TTTTATATA
1 TTTTA-TTTATTTTATAAA
*
9741099 -TTTATATATTTTATAATA
1 TTTTATTTATTTTATAA-A
*
9741117 TTTTATTTATTTTGTAAA
1 TTTTATTTATTTTATAAA
9741135 TTT
1 TTT
9741138 GTAAATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.04
17 16 0.33
18 16 0.33
19 14 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATTTATTTTATAAA
Found at i:9741093 original size:26 final size:26
Alignment explanation
Indices: 9741055--9741137 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
9741045 TAAACGTGTT
*
9741055 TTTTAGTTCTTTTATTTTTTTATAAA
1 TTTTAGTTATTTTATTTTTTTATAAA
* * * *
9741081 TTTTAGTTTTTTTATATATTTATATA
1 TTTTAGTTATTTTATTTTTTTATAAA
*
9741107 TTTTA-TAATATTTTATTTATTTTGTAAA
1 TTTTAGT--TATTTTATTT-TTTTATAAA
9741135 TTT
1 TTT
9741138 GTAAATTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 1 0.02
26 27 0.60
27 8 0.18
28 9 0.20
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTAGTTATTTTATTTTTTTATAAA
Found at i:9741117 original size:10 final size:9
Alignment explanation
Indices: 9741072--9741171 Score: 61
Period size: 9 Copynumber: 11.6 Consensus size: 9
9741062 TCTTTTATTT
*
9741072 TTTTATAAA
1 TTTTATATA
*
9741081 TTTTAGT-TT
1 TTTTA-TATA
9741090 TTTTATATA
1 TTTTATATA
9741099 -TTTATATA
1 TTTTATATA
9741107 TTTTATAATA
1 TTTTAT-ATA
*
9741117 TTTTATTTA
1 TTTTATATA
* *
9741126 TTTTGTAAA
1 TTTTATATA
9741135 TTTGTA-A-A
1 TTT-TATATA
*
9741143 TTATATAT-
1 TTTTATATA
*
9741151 TTTTAGATA
1 TTTTATATA
9741160 TTTT-T-TA
1 TTTTATATA
9741167 TTTTA
1 TTTTA
9741172 AAAATATGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
7 8 0.11
8 19 0.27
9 32 0.46
10 11 0.16
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:9741378 original size:35 final size:35
Alignment explanation
Indices: 9741335--9741476 Score: 243
Period size: 35 Copynumber: 4.1 Consensus size: 35
9741325 GCAGGGAATA
9741335 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTAT
9741370 TTTGTTGCAGGGAATCTC-TCTTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTTC-TGTTCACGCATTAT
9741405 TTTGTTGCAGGGAATCT-TTCCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTT-CTGTTCACGCATTAT
*
9741440 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTAT
9741475 TT
1 TT
9741477 CTTTTTGGAC
Statistics
Matches: 102, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
34 2 0.02
35 98 0.96
36 2 0.02
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (35 bp):
TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTAT
Found at i:9744846 original size:17 final size:17
Alignment explanation
Indices: 9744802--9744849 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
9744792 GATTTTTGAA
*
9744802 TTTTAGGGTTTTG-AGG
1 TTTTAAGGTTTTGTAGG
**
9744818 TTTTAATTTTTTGTAGG
1 TTTTAAGGTTTTGTAGG
9744835 TTTTAAGGTTTTGTA
1 TTTTAAGGTTTTGTA
9744850 CGTATTTAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (17 bp):
TTTTAAGGTTTTGTAGG
Found at i:9745196 original size:25 final size:25
Alignment explanation
Indices: 9745138--9745196 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
9745128 CAATTAATTC
9745138 ACCATCAATTATATAAACACAAATAAA
1 ACCAT-AATTATATAAACAC-AATAAA
*
9745165 ACACATAATTATTTAAACAC-ATAAA
1 AC-CATAATTATATAAACACAATAAA
9745190 TACCATA
1 -ACCATA
9745197 TGAACTTACC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 9 0.31
26 2 0.07
27 15 0.52
28 3 0.10
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (25 bp):
ACCATAATTATATAAACACAATAAA
Found at i:9758686 original size:31 final size:32
Alignment explanation
Indices: 9758632--9758697 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
9758622 TTCTTTAGTT
** *
9758632 AAATTTGACAATCATCCTATT-AAAAAGTGTC
1 AAATTTGACAATCAAACTATTAAAAAAGAGTC
* *
9758663 AAATTTGACCATCAAACTTTTAAAAAAGAGTC
1 AAATTTGACAATCAAACTATTAAAAAAGAGTC
9758695 AAA
1 AAA
9758698 ATGATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (32 bp):
AAATTTGACAATCAAACTATTAAAAAAGAGTC
Found at i:9758808 original size:9 final size:10
Alignment explanation
Indices: 9758783--9758827 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
9758773 ACTCTATGTC
*
9758783 AATTTTTTTG
1 AATTTTTATG
9758793 AATTTTTATG
1 AATTTTTATG
9758803 AATTTTT-T-
1 AATTTTTATG
*
9758811 ACTTTTTAT-
1 AATTTTTATG
9758820 AATTTTTA
1 AATTTTTA
9758828 AATTATTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 6 0.19
9 9 0.29
10 16 0.52
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (10 bp):
AATTTTTATG
Found at i:9758836 original size:18 final size:18
Alignment explanation
Indices: 9758787--9758836 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
9758777 TATGTCAATT
*
9758787 TTTTTGAATTTTTATGAA
1 TTTTTAAATTTTTATGAA
* *
9758805 TTTTTTACTTTTTAT-AA
1 TTTTTAAATTTTTATGAA
9758822 TTTTTAAATTATTTA
1 TTTTTAAATT-TTTA
9758837 CTGACGTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTTTAAATTTTTATGAA
Found at i:9759272 original size:21 final size:22
Alignment explanation
Indices: 9759228--9759273 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9759218 TAAATTTTAA
* * *
9759228 AATTTTATATTAATAATAATAT
1 AATTTTAAAATAATAATAAAAT
9759250 AATTTTAAAATAA-AATAAAAT
1 AATTTTAAAATAATAATAAAAT
9759271 AAT
1 AAT
9759274 AAATATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTTAAAATAATAATAAAAT
Found at i:9759273 original size:26 final size:26
Alignment explanation
Indices: 9759242--9759291 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
9759232 TTATATTAAT
9759242 AATAATATAAT-TTTAAAATAAAATAA
1 AATAATA-AATATTTAAAATAAAATAA
9759268 AATAATAAATATTTAAAATAAAAT
1 AATAATAAATATTTAAAATAAAAT
9759292 TGAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AATAATAAATATTTAAAATAAAATAA
Found at i:9773773 original size:9 final size:9
Alignment explanation
Indices: 9773756--9773790 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
9773746 CATTTCAGTT
*
9773756 TAAAGAATA
1 TAAAAAATA
9773765 TAAAAAATA
1 TAAAAAATA
9773774 TAAAAAATA
1 TAAAAAATA
9773783 TAAAAAAT
1 TAAAAAAT
9773791 TATTCTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
TAAAAAATA
Found at i:9780199 original size:3 final size:3
Alignment explanation
Indices: 9780193--9780233 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
9780183 GAAAGAAAGG
*
9780193 AGA AGA AG- AGA AGG AGA AGA AGA AG- AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
9780234 AGAAAGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9780206 original size:14 final size:13
Alignment explanation
Indices: 9780185--9780230 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
9780175 AAAAAAAAGA
9780185 AAGAAAGGAGAAG
1 AAGAAAGGAGAAG
9780198 AAGAGAAGGAGAAG
1 AAGA-AAGGAGAAG
*
9780212 AAGAAGAGAAGAAG
1 AAGAA-AGGAGAAG
9780226 AAGAA
1 AAGAA
9780231 GAAAGAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.17
14 25 0.83
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAGAAG
Found at i:9780213 original size:17 final size:17
Alignment explanation
Indices: 9780193--9780237 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
9780183 GAAAGAAAGG
*
9780193 AGAAGAAGAGAAGGAGA
1 AGAAGAAGAGAAGAAGA
9780210 AGAAGAAGAGAAGAAGA
1 AGAAGAAGAGAAGAAGA
9780227 AGAAGAA-AGAA
1 AGAAGAAGAGAA
9780238 AGAAAAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAGAAGAAGA
Found at i:9780231 original size:14 final size:14
Alignment explanation
Indices: 9780192--9780237 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
9780182 AGAAAGAAAG
9780192 GAGAAGAAG-AGAA
1 GAGAAGAAGAAGAA
9780205 G-G-AGAAGAAGAA
1 GAGAAGAAGAAGAA
9780217 GAGAAGAAGAAGAA
1 GAGAAGAAGAAGAA
9780231 GA-AAGAA
1 GAGAAGAA
9780238 AGAAAAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 7 0.23
14 12 0.40
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
GAGAAGAAGAAGAA
Found at i:9780240 original size:17 final size:16
Alignment explanation
Indices: 9780181--9780241 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
9780171 AGAAAAAAAA
*
9780181 AAGAAAGAAAGGAGAAG
1 AAGAAAG-AAGAAGAAG
*
9780198 AAGAGAAGGAGAAGAAG
1 AAGA-AAGAAGAAGAAG
9780215 AAGAGAAGAAGAAGAAG
1 AAGA-AAGAAGAAGAAG
9780232 AAAGAAAGAA
1 -AAGAAAGAA
9780242 AAAGGTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
17 32 0.82
18 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAGAAGAAG
Found at i:9780241 original size:14 final size:15
Alignment explanation
Indices: 9780181--9780232 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
9780171 AGAAAAAAAA
*
9780181 AAGAA-AGAAAGGAG
1 AAGAAGAGAAAGAAG
9780195 AAGAAGAGAAGGAGAAG
1 AAGAAGAGAA--AGAAG
9780212 AAGAAGAG-AAGAAG
1 AAGAAGAGAAAGAAG
9780226 AAGAAGA
1 AAGAAGA
9780233 AAGAAAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 17 0.50
15 4 0.12
16 1 0.03
17 12 0.35
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
AAGAAGAGAAAGAAG
Found at i:9780423 original size:20 final size:20
Alignment explanation
Indices: 9780398--9780791 Score: 100
Period size: 22 Copynumber: 17.9 Consensus size: 20
9780388 TTTAGATTAG
*
9780398 AATTTTGTATGAATATTTTA
1 AATTTTGTATGAATATTATA
9780418 AATTTTTTGTATGAATATTATA
1 AA--TTTTGTATGAATATTATA
* *
9780440 ATTTTTGTATGAATATTGT-
1 AATTTTGTATGAATATTATA
* *
9780459 AATATTGTATGAATATTGTA
1 AATTTTGTATGAATATTATA
* * *
9780479 ATTATTTTATAATTAA-ATT-TG
1 A--ATTTTGT-ATGAATATTATA
* * *
9780500 TATTTATAGTTTTG--GATTAGTA
1 AATTT-T-G-TATGAATATTA-TA
* *
9780522 ATTTTTTGTATGAATATTGT-
1 A-ATTTTGTATGAATATTATA
9780542 AATTTTGTATGAATATTATA
1 AATTTTGTATGAATATTATA
9780562 AATTTTTTGTATGAATATTGTAATA
1 AA--TTTTGTATGAATA-T-T-ATA
**
9780587 TTATAGTTTTGTATGAATATTGCA
1 --A-A-TTTTGTATGAATATTATA
* *
9780611 ATTTTTTTGTATGAATATTGTAATTTTGT
1 A--ATTTTGTATGAATA-T-T-A---T-A
9780640 AATTTTGTATGAATATTATA
1 AATTTTGTATGAATATTATA
**
9780660 TTTTTTGTATGAATATTGTAATATTA
1 AATTTTGTATGAATA---T--TA-TA
**
9780686 TAATTTTGTATGAATATTGCA
1 -AATTTTGTATGAATATTATA
* *
9780707 ATTTTTTTGTATGAATATTGTAATTTTGT
1 A--ATTTTGTATGAATA-T-T-A---T-A
9780736 AATTTTGTATGAATATTATA
1 AATTTTGTATGAATATTATA
* * *
9780756 ATTTTTTTATGAATATTGT-
1 AATTTTGTATGAATATTATA
*
9780775 AATGTTGTATGAATATT
1 AATTTTGTATGAATATT
9780792 GTAATATTAT
Statistics
Matches: 278, Mismatches: 48, Indels: 97
0.66 0.11 0.23
Matches are distributed among these distances:
19 51 0.18
20 59 0.21
21 7 0.03
22 73 0.26
23 12 0.04
24 7 0.03
25 8 0.03
26 5 0.02
27 53 0.19
28 1 0.00
29 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (20 bp):
AATTTTGTATGAATATTATA
Found at i:9780587 original size:30 final size:27
Alignment explanation
Indices: 9780566--9780872 Score: 229
Period size: 27 Copynumber: 12.7 Consensus size: 27
9780556 ATTATAAATT
9780566 TTTTGTATGAATATTGTAATATTATAG
1 TTTTGTATGAATATTGTAATATTATAG
*
9780593 TTTTGTATGAATATTG-CA-ATT-T--
1 TTTTGTATGAATATTGTAATATTATAG
* * *
9780615 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAG
9780642 TTTTGTATGAATA-T-T-ATA-T-T--
1 TTTTGTATGAATATTGTAATATTATAG
*
9780662 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAG
*
9780689 TTTTGTATGAATATTG-CA-ATT-T--
1 TTTTGTATGAATATTGTAATATTATAG
* * *
9780711 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAG
9780738 TTTTGTATGAATA-T-T-ATA--AT--
1 TTTTGTATGAATATTGTAATATTATAG
*
9780758 TTTTTTATGAATATTGT---A--AT-G
1 TTTTGTATGAATATTGTAATATTATAG
*
9780779 --TTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAG
*
9780804 TTTTGTATGAATATTG-CA-ATT-T--
1 TTTTGTATGAATATTGTAATATTATAG
* *
9780826 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTATAG
9780853 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
9780873 GTGGGGATAT
Statistics
Matches: 233, Mismatches: 14, Indels: 66
0.74 0.04 0.21
Matches are distributed among these distances:
19 14 0.06
20 28 0.12
21 2 0.01
22 53 0.23
23 7 0.03
24 17 0.07
25 15 0.06
26 5 0.02
27 92 0.39
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAG
Found at i:9780587 original size:49 final size:48
Alignment explanation
Indices: 9780534--9780919 Score: 379
Period size: 49 Copynumber: 8.1 Consensus size: 48
9780524 TTTTTGTATG
9780534 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGT
* * **
9780583 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAA-TTTTTTGTATGAATATTGT
*
9780632 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* **
9780679 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAA-TTTTTTGTATGAATATTGT
*
9780728 AATTTTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* *
9780775 AATGTTGTATGAATATTG--T-AATATTATAA--TTTTGTATGAATATTG-
1 AATATTG--T-AATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* *
9780820 CA-ATT-T--TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATA-T-T-ATAAT-T--TTTTGTATGAATATTGT
* * * * *
9780870 AATGTGGGGATATATTG--T-AATATTGTAATTTTTTGTATGAATATTGT
1 AATAT-TGTA-ATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
9780917 AAT
1 AAT
9780920 TATTTTATAA
Statistics
Matches: 282, Mismatches: 30, Indels: 52
0.77 0.08 0.14
Matches are distributed among these distances:
38 4 0.01
40 1 0.00
41 5 0.02
42 1 0.00
43 1 0.00
44 5 0.02
45 5 0.02
46 11 0.04
47 90 0.32
48 11 0.04
49 126 0.45
50 10 0.04
51 2 0.01
52 1 0.00
53 4 0.01
54 1 0.00
56 4 0.01
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (48 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
Found at i:9780693 original size:96 final size:97
Alignment explanation
Indices: 9780538--9780777 Score: 448
Period size: 96 Copynumber: 2.5 Consensus size: 97
9780528 TGTATGAATA
*
9780538 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGA
1 TTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
9780603 ATATTGCAATTTTTTTGTATGAATATTGTAATT
65 ATATTGCAATTTTTTTGTATGAATATTGTAATT
9780636 TTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
9780700 TATTGCAATTTTTTTGTATGAATATTGTAATT
66 TATTGCAATTTTTTTGTATGAATATTGTAATT
9780732 TTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAAT
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT
9780778 GTTGTATGAA
Statistics
Matches: 140, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
96 110 0.79
97 7 0.05
98 23 0.16
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (97 bp):
TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
TATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:9780794 original size:115 final size:115
Alignment explanation
Indices: 9780664--9780872 Score: 400
Period size: 115 Copynumber: 1.8 Consensus size: 115
9780654 ATTATATTTT
9780664 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
9780729 ATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
66 ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
9780779 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
9780844 ATATTGTAATTTTGTATGAATATTGTAAT
66 ATATTGTAATTTTGTATGAATATTATAAT
9780873 GTGGGGATAT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (115 bp):
TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
Found at i:9780798 original size:96 final size:96
Alignment explanation
Indices: 9780538--9780920 Score: 420
Period size: 96 Copynumber: 4.0 Consensus size: 96
9780528 TGTATGAATA
* *
9780538 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGA
1 TTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGTAATATTATAATATTG-ATGA
9780603 ATATTGCAATTTTTTTGTATGAATATTGTAATT
64 ATATTGCAATTTTTTTGTATGAATATTGTAATT
*
9780636 TTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATATTG-ATGAA
9780700 TATTGCAATTTTTTTGTATGAATATTGTAATT
65 TATTGCAATTTTTTTGTATGAATATTGTAATT
*
9780732 TTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAATGTTGTATGAATATTG-T-
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT-AT-TAT-AATATTGATG
** *
9780794 AATATT---ATAATTTTGTATGAATATTGCAA--
63 AATATTGCAATTTTTTTGTATGAATATTGTAATT
* * *
9780823 TT-T--TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTGGGGAT-ATA
1 TTGTAATTTTGTATGAATA-T-T-ATAAT-T--TTTTGTATGAATATTGTAATAT---TATAATA
*
9780884 TTG-T-AATATTGTAA-TTTTTTGTATGAATATTGTAATT
57 TTGATGAATATTGCAATTTTTTTGTATGAATATTGTAATT
9780921 ATTTTATAAT
Statistics
Matches: 255, Mismatches: 12, Indels: 36
0.84 0.04 0.12
Matches are distributed among these distances:
88 13 0.05
89 1 0.00
90 2 0.01
91 6 0.02
92 1 0.00
93 20 0.08
94 18 0.07
95 15 0.06
96 137 0.54
97 10 0.04
98 26 0.10
99 6 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (96 bp):
TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATATTGATGAAT
ATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:9780824 original size:19 final size:19
Alignment explanation
Indices: 9780802--9780851 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 19
9780792 GTAATATTAT
9780802 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGC
*
9780821 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGC
*
9780843 AATATTGTA
1 AATTTTGTA
9780852 ATTTTGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 8 0.31
22 18 0.69
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (19 bp):
AATTTTGTATGAATATTGC
Found at i:9780872 original size:19 final size:19
Alignment explanation
Indices: 9780398--9780796 Score: 163
Period size: 19 Copynumber: 22.2 Consensus size: 19
9780388 TTTAGATTAG
*
9780398 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
9780417 AAATTTTTTGTATGAATATTAT
1 -AA--TTTTGTATGAATATTGT
9780439 AATTTTTGTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
9780459 AATATTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
9780478 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
9780501 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
9780521 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
9780542 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
9780561 AAATTTT-T-TG--TA-TG-
1 -AATTTTGTATGAATATTGT
* *
9780575 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
9780591 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
9780610 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
9780624 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
9780640 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
9780659 -ATTTT-T-TG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
9780671 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
9780687 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
9780706 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
9780720 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
9780736 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
*
9780755 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
9780775 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
9780794 AAT
1 AAT
9780797 ATTATAATTT
Statistics
Matches: 286, Mismatches: 43, Indels: 101
0.67 0.10 0.23
Matches are distributed among these distances:
13 14 0.05
14 18 0.06
15 11 0.04
16 31 0.11
17 1 0.00
18 17 0.06
19 93 0.33
20 58 0.20
21 10 0.03
22 22 0.08
23 7 0.02
24 3 0.01
25 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:9780920 original size:115 final size:114
Alignment explanation
Indices: 9780664--9780919 Score: 359
Period size: 115 Copynumber: 2.1 Consensus size: 114
9780654 ATTATATTTT
9780664 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATG-ATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
* ** *
9780729 ATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
65 ATATTGTAATTTTGTATGAATATTATAATTGATATATGAATATTGTAATG
9780779 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATG-ATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
* *
9780844 ATATTGTAATTTTGTATGAATATTGTAATGTGGGGATATATTGTAATATTGTAATTTT
65 ATATTGTAATTTTGTATGAATATTATAAT-T---GATATA-TG-AATATTGTAA--TG
9780902 TTGTATGAATATTGTAAT
1 TTGTATG-ATATTGTAAT
9780920 TATTTTATAA
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
115 92 0.72
116 1 0.01
119 3 0.02
120 2 0.02
121 10 0.08
123 19 0.15
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (114 bp):
TTGTATGATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
TATTGTAATTTTGTATGAATATTATAATTGATATATGAATATTGTAATG
Found at i:9781113 original size:38 final size:38
Alignment explanation
Indices: 9781068--9781149 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
9781058 CATATAAAGT
* **
9781068 TTATAAAAAAATTAAAAATCGTTTCATTAAAAGTTTAA
1 TTATAAAAAAATAAAAAATAATTTCATTAAAAGTTTAA
*
9781106 TTATAAAAAAATAAAAAATAATTTTATTAAAAGTTTAA
1 TTATAAAAAAATAAAAAATAATTTCATTAAAAGTTTAA
9781144 TTATAA
1 TTATAA
9781150 CTGACTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (38 bp):
TTATAAAAAAATAAAAAATAATTTCATTAAAAGTTTAA
Found at i:9786355 original size:27 final size:27
Alignment explanation
Indices: 9786306--9786408 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 27
9786296 AAAATCACAG
* *
9786306 CATTGGCGCCTTCTA-ATATGGCACCAC
1 CATTGGCGCCTCCCAGATA-GGCACCAC
* *
9786333 CATTGGCACCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
9786360 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
9786387 CATTGGCGCCTCCCAGATAGGC
1 CATTGGCGCCTCCCAGATAGGC
9786409 GCCAATACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 66 0.96
28 3 0.04
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.19
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:9787757 original size:30 final size:31
Alignment explanation
Indices: 9787718--9787777 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
9787708 GGAGGTGGGA
*
9787718 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
9787749 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
9787778 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:9788005 original size:9 final size:9
Alignment explanation
Indices: 9787991--9788027 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9787981 TATAGTTTGA
9787991 TATTCGAAT
1 TATTCGAAT
9788000 TATTCGAAT
1 TATTCGAAT
*
9788009 TATTCGAGT
1 TATTCGAAT
9788018 TATTCGAAT
1 TATTCGAAT
9788027 T
1 T
9788028 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9793527 original size:43 final size:47
Alignment explanation
Indices: 9793438--9793534 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 47
9793428 TCATGTGTTA
* * *
9793438 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGA-ATT-AACTTAATTT
9793487 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAA-TATAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGA-ATTAACT-TAATTT
9793535 GTTTTTTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.02
48 8 0.18
49 35 0.80
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.49
Consensus pattern (47 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGAATTAACTTAATTT
Found at i:9795156 original size:47 final size:46
Alignment explanation
Indices: 9795105--9795301 Score: 125
Period size: 44 Copynumber: 4.7 Consensus size: 46
9795095 TCATATAAGA
9795105 ATATTTAATACTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTTAATACT-AGAATTTTATTAAATTATATATTTTTATTAAATT
* * *
9795152 ATATTTAATAATAG--TTATT-TTAAATTATAT-TTTATAGT--ATT
1 ATATTTAATACTAGAATT-TTATTAAATTATATATTTTTATTAAATT
* * * *
9795193 ATA--T-AT--TATAATTTTAGTAAATT-CATA----TA--AGA--
1 ATATTTAATACTAGAATTTTATTAAATTATATATTTTTATTAAATT
9795225 ATATTTAATACTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTTAATACT-AGAATTTTATTAAATTATATATTTTTATTAAATT
*
9795272 ATATTTAATA--ATAATTATT-TTAAATTATAT
1 ATATTTAATACTAGAATT-TTATTAAATTATAT
9795302 TTTATAGTAT
Statistics
Matches: 116, Mismatches: 11, Indels: 49
0.66 0.06 0.28
Matches are distributed among these distances:
32 3 0.03
34 4 0.03
35 2 0.02
36 2 0.02
37 5 0.04
38 24 0.21
39 4 0.03
41 6 0.05
43 8 0.07
44 29 0.25
45 6 0.05
46 2 0.02
47 21 0.18
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (46 bp):
ATATTTAATACTAGAATTTTATTAAATTATATATTTTTATTAAATT
Found at i:9795532 original size:26 final size:25
Alignment explanation
Indices: 9795494--9795837 Score: 91
Period size: 26 Copynumber: 13.5 Consensus size: 25
9795484 ATCAAATTAT
*
9795494 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
9795520 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* *
9795546 ATATTA---TATATTATGATTTTAGTA
1 ATATTATTTTAAATTAT-A-TTTAATA
*
9795570 A-ATTCA-TATAAGA--ATATTTAATA
1 ATATT-ATTTTAA-ATTATATTTAATA
* ** *
9795593 CTAAGAATTTT--ATTA-AATT-AT-
1 AT-ATTATTTTAAATTATATTTAATA
*
9795614 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
9795640 ATAATTATTTTAAATTATATTTGATA
1 AT-ATTATTTTAAATTATATTTAATA
* * *
9795666 GTATTA---TATATTATGATTTTAGTA
1 ATATTATTTTAAATTAT-A-TTTAATA
*
9795690 A-ATTCA-TATAAGA--ATATTTAATACTA
1 ATATT-ATTTTAA-ATTATATTT-A-A-TA
*
9795716 AGAATT-TTATTAAATTATATTTAATA
1 A-TATTATT-TTAAATTATATTTAATA
*
9795742 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* * * * *
9795768 GTATTATATATTATGATTTTAGTAAATTCA
1 ATATTAT-T-TTA-AATTATATTTAA-T-A
9795798 TATATT-TTATTAAATTATATTTAATA
1 -ATATTATT-TTAAATTATATTTAATA
*
9795824 ATAATTATGTTAAA
1 AT-ATTATTTTAAA
9795838 ATATGATTAA
Statistics
Matches: 233, Mismatches: 41, Indels: 88
0.64 0.11 0.24
Matches are distributed among these distances:
20 3 0.01
21 3 0.01
22 17 0.07
23 24 0.10
24 21 0.09
25 24 0.10
26 79 0.34
27 22 0.09
28 22 0.09
29 12 0.05
30 2 0.01
31 4 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:9795558 original size:22 final size:24
Alignment explanation
Indices: 9795533--9795579 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
9795523 ATTATTTTAA
9795533 ATTAT-ATTTTA-TAATATT-ATAT
1 ATTATGATTTTAGTAA-ATTCATAT
9795555 ATTATGATTTTAGTAAATTCATAT
1 ATTATGATTTTAGTAAATTCATAT
9795579 A
1 A
9795580 AGAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTATGATTTTAGTAAATTCATAT
Found at i:9795567 original size:358 final size:357
Alignment explanation
Indices: 9794906--9795801 Score: 1552
Period size: 358 Copynumber: 2.5 Consensus size: 357
9794896 AAGTAGATTA
9794906 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* * *
9794971 AAATTCATATAAGAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTATTAAATTATAT
66 AAATTCATATAAGAATATTTAATACTAAGAAATTTATTAAATTATATA-TATT-TTAAATT-TAT
*
9795036 TTAATAATAATTATTTTAAAATATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
128 TTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
* *
9795101 AAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAG
193 AAGAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAA
*
9795166 TTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTT
258 TTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTT
9795231 AATACTAAGAATTTTATTAAATTATATATTTTTAT
323 AATACTAAGAATTTTATTAAATTATATATTTTTAT
9795266 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* *
9795331 AAACTCATATAAGAATACTTAATACTAAGAAATTTATTAAATTATATATATTTTAAATTGTATTT
66 AAATTCATATAAGAATATTTAATACTAAGAAATTTATTAAATTATATATATTTTAAATT-TATTT
9795396 AATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
130 AATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
9795461 GAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATT
195 GAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATT
*
9795526 ATTTTAAATTATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAA
260 ATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAA
9795591 TACTAAGAATTTTATTAAATTATATATTTTTAT
325 TACTAAGAATTTTATTAAATTATATATTTTTAT
*
9795624 TAAATTATATTTAATAATAATTATTTTAAATTATATTTGATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9795689 AAATTCATATAAGAATATTTAATACTAAG-AA-TT-TT--A-T-TA-A-A--TT--A--TATTTA
66 AAATTCATATAAGAATATTTAATACTAAGAAATTTATTAAATTATATATATTTTAAATTTATTTA
9795739 ATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATA
131 ATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATA
9795802 TTTTATTAAA
Statistics
Matches: 522, Mismatches: 14, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
342 69 0.13
345 1 0.00
347 2 0.00
349 1 0.00
350 1 0.00
351 2 0.00
352 1 0.00
353 1 0.00
355 2 0.00
356 2 0.00
357 2 0.00
358 326 0.62
359 3 0.01
360 109 0.21
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (357 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATACTAAGAAATTTATTAAATTATATATATTTTAAATTTATTTA
ATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG
AATATTTAATACTAAGAATTTTATCAAATTATATATTTTTATTAAATTATATTTAATAATAATTA
TTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAAT
ACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:9795765 original size:41 final size:43
Alignment explanation
Indices: 9795719--9795837 Score: 117
Period size: 41 Copynumber: 2.9 Consensus size: 43
9795709 AATACTAAGA
*
9795719 ATTTTATTAAATTATATTTAATAATAATTATTTTAAA-T-TAT
1 ATTTTATTAAATTATATTTAATAATAATTATATTAAATTATAT
* * *
9795760 ATTTTA-TAGTATTATATATT-ATGAT--TT-TAGTAAATTCATAT
1 ATTTTATTA-AATTATAT-TTAATAATAATTATATTAAATT-ATAT
*
9795801 ATTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTTTATTAAATTATATTTAATAATAATTATATTAAA
9795838 ATATGATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
38 5 0.08
39 3 0.05
40 4 0.07
41 37 0.62
42 4 0.07
43 2 0.03
44 5 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (43 bp):
ATTTTATTAAATTATATTTAATAATAATTATATTAAATTATAT
Found at i:9795806 original size:18 final size:17
Alignment explanation
Indices: 9795752--9795817 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 17
9795742 ATAATTATTT
9795752 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
9795769 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
9795790 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
9795808 TAAATTATAT
1 TAAATTATAT
9795818 TTAATAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
17 6 0.15
18 14 0.35
19 6 0.15
20 6 0.15
21 5 0.12
22 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:9795813 original size:120 final size:120
Alignment explanation
Indices: 9794906--9795735 Score: 1538
Period size: 120 Copynumber: 6.9 Consensus size: 120
9794896 AAGTAGATTA
9794906 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
9794971 AAATTCATATAAGAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9795026 TAAATTATATTTAATAATAATTATTTTAAAATATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9795091 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
* *
9795146 TAAATTATATTTAATAATAGTTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9795211 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
9795266 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* * * *
9795331 AAACTCATATAAGAATACTTAATACTAAGAAATTTATTAAATTATATA-TATT-T
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9795384 TAAATTGTATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
9795449 AAATTCATATAAGAATATTTAATACTAAGAATTTTATCAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9795504 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9795569 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
9795624 TAAATTATATTTAATAATAATTATTTTAAATTATATTTGATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9795689 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATAT
9795736 TTAATAATAA
Statistics
Matches: 686, Mismatches: 22, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
118 109 0.16
119 6 0.01
120 571 0.83
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:9796031 original size:16 final size:16
Alignment explanation
Indices: 9796006--9796043 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
9795996 AAAATTACCT
*
9796006 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
9796022 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
9796038 ATTACA
1 ATTACA
9796044 GCGAACAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:9799988 original size:40 final size:40
Alignment explanation
Indices: 9799938--9800072 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
9799928 ATTATGTTTA
*
9799938 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATTTATG
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATATATG
* * *
9799978 GCACTTAGTGTGAGATTAG-GAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTCGAG-ATAGCTTCGACTATATATG
* ** * *
9800018 GCACTTAGTGTGTGAGACTGAGATAGCTTC-AGCTATGTAAG
1 GCACTTAGTGTGCGATTC-GAGATAGCTTCGA-CTATATATG
9800059 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
9800073 GGATTATAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 48 0.61
41 29 0.37
42 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATATATG
Found at i:9800085 original size:41 final size:41
Alignment explanation
Indices: 9799938--9800115 Score: 177
Period size: 41 Copynumber: 4.4 Consensus size: 41
9799928 ATTATGTTTA
* * *
9799938 GCACTTAGTGTGC--GATTCGAGATAGCTTCGACTATTTATG
1 GCACTTAGTGTGCGAGATTAGA-ATAGCTTCGGCTATGTATG
*
9799978 GCACTTAGTGT--GAGATTAGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGAGATTA-GAATAGCTTCGGCTATGTATG
* * * *
9800018 GCACTTAGTGTGTGAGACT-GAGATAGCTTCAGCTATGTAAG
1 GCACTTAGTGTGCGAGATTAGA-ATAGCTTCGGCTATGTATG
* * *
9800059 GCACTTAGTGTGCGGGATTATAATAGCTTCGGCTATGCGATG
1 GCACTTAGTGTGCGAGATTAGAATAGCTTCGGCTATG-TATG
*
9800101 GCATTTAGTGTGCGA
1 GCACTTAGTGTGCGA
9800116 AATATTGAGT
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
40 45 0.39
41 48 0.42
42 21 0.18
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATTAGAATAGCTTCGGCTATGTATG
Found at i:9800112 original size:81 final size:80
Alignment explanation
Indices: 9799938--9800112 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 80
9799928 ATTATGTTTA
* * * *
9799938 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATTTATGGCACTTAGTGTGAGATTAGGAATAG
1 GCACTTAGTGTGAGACTCGAGATAGCTTCGACTATGTAAGGCACTTAGTGTGAGATTAGGAATAG
*
9800003 CTTCGGCTATATATG
66 CTTCGGCTATAGATG
* *
9800018 GCACTTAGTGTGTGAGACT-GAGATAGCTTC-AGCTATGTAAGGCACTTAGTGTGCGGGATTA-T
1 GCACTTA--GTGTGAGACTCGAGATAGCTTCGA-CTATGTAAGGCACTTAGTGT--GAGATTAGG
*
9800080 AATAGCTTCGGCTATGCGATG
61 AATAGCTTCGGCTAT-AGATG
*
9800101 GCATTTAGTGTG
1 GCACTTAGTGTG
9800113 CGAAATATTG
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
80 8 0.10
81 34 0.43
82 23 0.29
83 15 0.19
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (80 bp):
GCACTTAGTGTGAGACTCGAGATAGCTTCGACTATGTAAGGCACTTAGTGTGAGATTAGGAATAG
CTTCGGCTATAGATG
Found at i:9800893 original size:34 final size:35
Alignment explanation
Indices: 9800822--9800894 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
9800812 TACAATGATA
* *
9800822 TCCAAATGTGGTTGTTTTTAAATGTTATAATGTTG
1 TCCAAATGTGGTTGTCTTTAAATGTTATAATGCTG
*
9800857 TCCAAATGTGGTTG-CTTTACATG-TATTAATGCTG
1 TCCAAATGTGGTTGTCTTTAAATGTTA-TAATGCTG
9800891 TCCA
1 TCCA
9800895 TTTTTTGTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 18 0.53
35 14 0.41
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (35 bp):
TCCAAATGTGGTTGTCTTTAAATGTTATAATGCTG
Found at i:9800942 original size:20 final size:20
Alignment explanation
Indices: 9800917--9800959 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
9800907 ATCTATGATC
*
9800917 TCCGAATGTTATTAATGTTG
1 TCCGAATGTTATTAATGCTG
9800937 TCCGAATGTTATTAATGCTG
1 TCCGAATGTTATTAATGCTG
9800957 TCC
1 TCC
9800960 AAATTAGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (20 bp):
TCCGAATGTTATTAATGCTG
Found at i:9803024 original size:43 final size:43
Alignment explanation
Indices: 9802958--9803086 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
9802948 CATAGGATTC
* *
9802958 CGATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGTTTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
*
9803001 CGACT-TGTGTTTACGTGTAAGACC-CTATCTGGGACAG-TGGCAT
1 CGA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGA-AGTTGGCAT
* * *
9803044 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
9803087 TATACGAGCC
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.04
43 67 0.92
44 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (43 bp):
CGATATGTGTTTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
Found at i:9804921 original size:19 final size:19
Alignment explanation
Indices: 9804893--9804929 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9804883 GCATGATTTG
*
9804893 TATATGTGAAATGATTTAA
1 TATATATGAAATGATTTAA
*
9804912 TATATATGAATTGATTTA
1 TATATATGAAATGATTTA
9804930 GAAAACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (19 bp):
TATATATGAAATGATTTAA
Found at i:9808565 original size:16 final size:16
Alignment explanation
Indices: 9808544--9808589 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
9808534 TAAGAATACT
9808544 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9808560 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9808576 ATTACGCCTCTATT
1 ATTACGCCTCTATT
9808590 TCAATACAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:9809914 original size:31 final size:31
Alignment explanation
Indices: 9809840--9809921 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
9809830 TTGCTCTCTC
*
9809840 ATATTTAAAATAGTCCTCAAAATTTCAAAAAAT
1 ATATTTAAAA-AGTTCT-AAAATTTCAAAAAAT
* * *
9809873 ATA-TTAAAAAGTTCTAAAGTTTTATAAAAT
1 ATATTTAAAAAGTTCTAAAATTTCAAAAAAT
9809903 ATATTTAAAAAGTTCTAAA
1 ATATTTAAAAAGTTCTAAA
9809922 TACGGTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 15 0.34
31 20 0.45
32 6 0.14
33 3 0.07
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (31 bp):
ATATTTAAAAAGTTCTAAAATTTCAAAAAAT
Found at i:9809931 original size:30 final size:30
Alignment explanation
Indices: 9809868--9809931 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
9809858 AAAATTTCAA
***
9809868 AAAATATATTAAAAAGTTCTAAAGTTTTAT
1 AAAATATATTAAAAAGTTCTAAAGTACGAT
*
9809898 AAAATATATTTAAAAAGTTCTAAA-TACGGT
1 AAAATATA-TTAAAAAGTTCTAAAGTACGAT
9809928 AAAA
1 AAAA
9809932 AAGATGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (30 bp):
AAAATATATTAAAAAGTTCTAAAGTACGAT
Found at i:9819985 original size:22 final size:22
Alignment explanation
Indices: 9819960--9820010 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
9819950 CTCATATTTC
9819960 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9819982 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9820004 CTCTCAA
1 CTCTCAA
9820011 ATCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:9820046 original size:51 final size:51
Alignment explanation
Indices: 9819982--9820097 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
9819972 TTCCAAAATT
*
9819982 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATAGTTAATTTCAATTTC
* *
9820033 TTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATAGTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATAGTTAATTTCAATTTC
9820084 CTCTCAATTTCCTT
1 CTCTCAATTTCCTT
9820098 TGTTAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.27, G:0.01, T:0.45
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATAGTTAATTTCAATTTC
Found at i:9822389 original size:25 final size:25
Alignment explanation
Indices: 9822361--9822408 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
9822351 TATTTTGATA
9822361 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
9822386 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
9822409 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:9822425 original size:9 final size:9
Alignment explanation
Indices: 9822411--9822447 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
9822401 AAATAGAAAT
9822411 TTTTGAATA
1 TTTTGAATA
9822420 TTTTGAATA
1 TTTTGAATA
9822429 TTTTGAATA
1 TTTTGAATA
9822438 TTTTG-ATA
1 TTTTGAATA
9822446 TT
1 TT
9822448 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:9822500 original size:23 final size:23
Alignment explanation
Indices: 9822474--9822880 Score: 322
Period size: 23 Copynumber: 17.0 Consensus size: 23
9822464 AACCTAATTA
9822474 AATTGAAA-AGAAAACCCTAACCT
1 AATT-AAATAGAAAACCCTAACCT
****
9822497 AATTAAACCCTAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
****
9822520 AATTAAACCCTAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
*
9822543 AATTAAATTAAAAAGAAAACCCTAATCT
1 AATTAAA-T----AGAAAACCCTAACCT
*
9822571 AATTAAATTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
*
9822594 AATTAAATTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
*
9822617 AGTTAAATTA-AAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
9822640 AATTAAATTGAAAAGAAAACCCTAACCT
1 AATTAAA-T----AGAAAACCCTAACCT
9822668 AATTAAATTA-AAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
*
9822691 AATTAAACCCTA-AAAACTCTAACCT
1 AATTAAA---TAGAAAACCCTAACCT
*
9822716 AATTAAATTA-AAAACTCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
****
9822739 AATTAAACCCTAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
9822762 AATTAAATTGAAAAGAAAACCCTAACCT
1 AATTAAA-T----AGAAAACCCTAACCT
* *
9822790 TATTAAATTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
9822813 AATTAAATTA-AAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
* * ****
9822836 ATTTATACCCTAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
*
9822859 AATTAAATTGAAAACCCTAACC
1 AATTAAATAGAAAACCCTAACC
9822881 CTAAACCCTT
Statistics
Matches: 323, Mismatches: 39, Indels: 44
0.80 0.10 0.11
Matches are distributed among these distances:
22 3 0.01
23 235 0.73
24 3 0.01
25 21 0.07
27 3 0.01
28 58 0.18
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.25
Consensus pattern (23 bp):
AATTAAATAGAAAACCCTAACCT
Found at i:9822586 original size:74 final size:74
Alignment explanation
Indices: 9822462--9822880 Score: 414
Period size: 74 Copynumber: 5.8 Consensus size: 74
9822452 GAGAATTCTA
* ****
9822462 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
9822527 CCCTAAACC
66 CCCAAAACC
*
9822536 CTAACCTAATTAAATTAAAAAGAAAACCCTAATCTAATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
***
9822601 TTGAAAACC
66 CCCAAAACC
*
9822610 CTAACCTAGTTAAATT----A-AAAACCCTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAA
1 CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATT-----GAAAACCCTAACCTAA
***
9822670 TTAAATTAAAAACC
61 TTAAACCCAAAACC
**** * * *
9822684 CTAACCTAATTAAA--CCCTA-AAAACTCTAACCTAATTAAATTAAAAACTCTAACCTAATTAAA
1 CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
9822746 CCCTAAACC
66 CCCAAAACC
* *
9822755 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTTATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
***
9822820 TTAAAAACC
66 CCCAAAACC
* ****
9822829 CTAACCT-A-T---TTATACCCTAAACCCTAACCTAATTAAATTGAAAACCCTAACC
1 CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACC
9822881 CTAAACCCTT
Statistics
Matches: 293, Mismatches: 40, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
69 57 0.19
70 1 0.00
71 38 0.13
72 1 0.00
73 2 0.01
74 172 0.59
76 22 0.08
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (74 bp):
CTAACCTAATTAAATTAAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
CCCAAAACC
Found at i:9822836 original size:28 final size:28
Alignment explanation
Indices: 9822751--9822834 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
9822741 TTAAACCCTA
***
9822751 AACCCTAACCTAATTAAATTGAAAAGAA
1 AACCCTAACCTAATTAAATTGAAAACCT
*
9822779 AACCCTAACCTTATTAAATTG--AA---
1 AACCCTAACCTAATTAAATTGAAAACCT
*
9822802 AACCCTAACCTAATTAAATTAAAAACCCT
1 AACCCTAACCTAATTAAATTGAAAA-CCT
9822831 AACC
1 AACC
9822835 TATTTATACC
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 19 0.40
25 2 0.04
26 2 0.04
28 20 0.43
29 4 0.09
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.24
Consensus pattern (28 bp):
AACCCTAACCTAATTAAATTGAAAACCT
Found at i:9822846 original size:97 final size:98
Alignment explanation
Indices: 9822462--9822872 Score: 423
Period size: 97 Copynumber: 4.2 Consensus size: 98
9822452 GAGAATTCTA
***
9822462 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACTGAAAACCCTAACCTAATTAAA
**** *
9822527 CCCTAAACCCTAACCTAATTAAATTAAAAAGAAAACC
66 TTAAAAACCCTAACCTAA-T---TTAAAAACAAAACC
* * *
9822564 CTAATCTAATTAAATT-----GAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAGTTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACTGAAAACCCTAACCTAATTAAA
* *
9822624 TTAAAAACCCTAACCTAATTAAATTGAAAAGAAAACC
66 TTAAAAACCCTAACCTAA-T---TTAAAAACAAAACC
* *
9822661 CTAACCTAATTAAATT----A-AAAACCCTAACCTAATTAAACCCTAAAAACTCTAACCTAATTA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAA--CTGAAAACCCTAACCTAATTA
* ** *
9822721 AATTAAAAACTCTAACCTAA-TTAAACCCTAAACC
64 AATTAAAAACCCTAACCTAATTTAAAAACAAAACC
* *
9822755 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTTATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACTGAAAACCCTAACCTAATTAAA
* ** *
9822820 TTAAAAACCCTAACCT-ATTTATACCCTAAACC
66 TTAAAAACCCTAACCTAATTTAAAAACAAAACC
9822852 CTAACCTAATTAAATTGAAAA
1 CTAACCTAATTAAATTGAAAA
9822873 CCCTAACCCT
Statistics
Matches: 272, Mismatches: 28, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
94 25 0.09
96 1 0.00
97 175 0.64
98 1 0.00
99 55 0.20
102 15 0.06
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (98 bp):
CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAACTGAAAACCCTAACCTAATTAAA
TTAAAAACCCTAACCTAATTTAAAAACAAAACC
Found at i:9822866 original size:46 final size:46
Alignment explanation
Indices: 9822484--9822880 Score: 389
Period size: 46 Copynumber: 8.3 Consensus size: 46
9822474 AATTGAAAAG
* ***
9822484 AAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAACCC
1 AAAACCCTAACCTAATTAAACCCAAAACCCTAACCTAATTAAATTA
* *** * *
9822530 TAAACCCTAACCTAATTAAATTAAAAAGAAAACCCTAATCTAATTAAATTG
1 AAAACCCTAACC----T-AATTAAACCCAAAACCCTAACCTAATTAAATTA
*** *
9822581 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAGTTAAATTA
1 AAAACCCTAACCTAATTAAACCCAAAACCCTAACCTAATTAAATTA
***
9822627 AAAACCCTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATT--A---AACCCAAAACCCTAACCTAATTAAATTA
*
9822678 AAAACCCTAACCTAATTAAACCCTAAAAACTCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAACCC--AAAACCCTAACCTAATTAAATTA
* *
9822726 AAAACTCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAATTGAAAA
1 AAAACCCTAACCTAATTAAACCCAAAACCCTAACCTAATTAAATT----A
* ***
9822776 GAAAACCCTAACCTTATTAAATTGAAAACCCTAACCTAATTAAATTA
1 -AAAACCCTAACCTAATTAAACCCAAAACCCTAACCTAATTAAATTA
* * * *
9822823 AAAACCCTAACCTATTTATACCCTAAACCCTAACCTAATTAAATTG
1 AAAACCCTAACCTAATTAAACCCAAAACCCTAACCTAATTAAATTA
9822869 AAAACCCTAACC
1 AAAACCCTAACC
9822881 CTAAACCCTT
Statistics
Matches: 295, Mismatches: 39, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
46 128 0.43
47 2 0.01
48 45 0.15
49 1 0.00
50 2 0.01
51 117 0.40
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (46 bp):
AAAACCCTAACCTAATTAAACCCAAAACCCTAACCTAATTAAATTA
Found at i:9822905 original size:16 final size:17
Alignment explanation
Indices: 9822877--9822908 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9822867 TGAAAACCCT
9822877 AACCCTAAACCCTTAAA
1 AACCCTAAACCCTTAAA
9822894 AACCCT-AACCCTTAA
1 AACCCTAAACCCTTAA
9822909 CATTCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (17 bp):
AACCCTAAACCCTTAAA
Found at i:9823104 original size:115 final size:115
Alignment explanation
Indices: 9822908--9823137 Score: 376
Period size: 115 Copynumber: 2.0 Consensus size: 115
9822898 CTAACCCTTA
*
9822908 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATG-TTTTTCCTGGTACTAACAAATAATAATTTTATA
*
9822973 TAATTTGATAATTTTACTAACAATTAATACAATTTATCAGA-TAATAATTTT
65 TAAATTGATAATTTTACTAACAATTAATACAATTTATCA-ATTAATAATTTT
9823024 ACATTCACATAATGTTAGATTTGGAAAAATG-TTTTCACTGGTACTAACAAATAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTC-CTGGTACTAACAAATAATAATTTTATA
*
9823088 TAAATTGA-AATTTTTACTAACCATTAATACAATTTATCAATTAATAATTT
65 TAAATTGATAA-TTTTACTAACAATTAATACAATTTATCAATTAATAATTT
9823138 CACAAACTTA
Statistics
Matches: 108, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
114 8 0.07
115 69 0.64
116 31 0.29
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (115 bp):
ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTCCTGGTACTAACAAATAATAATTTTATAT
AAATTGATAATTTTACTAACAATTAATACAATTTATCAATTAATAATTTT
Found at i:9826393 original size:121 final size:122
Alignment explanation
Indices: 9826097--9826442 Score: 538
Period size: 121 Copynumber: 2.8 Consensus size: 122
9826087 CCCAAACATG
* *
9826097 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCATAAATTCTTCTCAAATAGCATCCTG
1 CTACTGAAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
*
9826162 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGGTAAAAAAAATTATTTCATCCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAAC-GTCAAAAAAA-TATTTCATCCATGAC
* *
9826222 CTACT-ATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTATTCTCAAATAGCATCCTG
1 CTACTGA-AGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
*
9826286 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-ATTTCATCCATGGC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTTCATCCATGAC
* * *
9826343 CTACTGAAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGT
1 CTACTGAAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
9826408 TAGAAGCGA-TTT-TACTATTTGATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
9826443 CTCAAAATTA
Statistics
Matches: 207, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
119 22 0.11
120 3 0.01
121 80 0.39
122 1 0.00
123 9 0.04
124 60 0.29
125 32 0.15
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (122 bp):
CTACTGAAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTTCATCCATGAC
Found at i:9840257 original size:29 final size:29
Alignment explanation
Indices: 9840215--9840283 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
9840205 AACTTTTGGC
* *
9840215 GTGCT-CTCTATTCTATTAATGTACTTTG
1 GTGCTACTCTATTCTATTAATGCACTTCG
* *
9840243 GTGCTACTCTGTTCTGTTAATGCACTTCG
1 GTGCTACTCTATTCTATTAATGCACTTCG
9840272 GTGC-ACTCTATT
1 GTGCTACTCTATT
9840284 TTAATGACGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (29 bp):
GTGCTACTCTATTCTATTAATGCACTTCG
Found at i:9840324 original size:29 final size:30
Alignment explanation
Indices: 9840292--9840361 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
9840282 TTTTAATGAC
* *
9840292 GCACTTTTGG-GCCATTTTGTTTTGGTATT
1 GCACTTTCGGTGCCACTTTGTTTTGGTATT
* *
9840321 GCAC-TTCGGTGCTACTTTGTTTTGTTATT
1 GCACTTTCGGTGCCACTTTGTTTTGGTATT
9840350 GCAC-TTCGGTGC
1 GCACTTTCGGTGC
9840362 ATCCTTGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 4 0.11
29 32 0.89
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (30 bp):
GCACTTTCGGTGCCACTTTGTTTTGGTATT
Found at i:9840369 original size:29 final size:29
Alignment explanation
Indices: 9840308--9840369 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
9840298 TTGGGCCATT
*
9840308 TTGTTTTGGTATTGCACTTCGGTGCTACT
1 TTGTTTTGGTATTGCACTTCGGTGCTACC
*
9840337 TTGTTTTGTTATTGCACTTCGGTGC-ATCC
1 TTGTTTTGGTATTGCACTTCGGTGCTA-CC
9840366 TTGT
1 TTGT
9840370 ATTATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.50
Consensus pattern (29 bp):
TTGTTTTGGTATTGCACTTCGGTGCTACC
Found at i:9841244 original size:23 final size:24
Alignment explanation
Indices: 9841195--9841253 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
9841185 CTAAACAACT
9841195 CAAAAATTCAATCCAACCTTTAAA
1 CAAAAATTCAATCCAACCTTTAAA
** *
9841219 CAAGTATTCAATCCAATC-TTAAA
1 CAAAAATTCAATCCAACCTTTAAA
9841242 CAAAAATTCAAT
1 CAAAAATTCAAT
9841254 ACATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (24 bp):
CAAAAATTCAATCCAACCTTTAAA
Found at i:9847944 original size:24 final size:24
Alignment explanation
Indices: 9847917--9848030 Score: 86
Period size: 24 Copynumber: 4.6 Consensus size: 24
9847907 GAGCTGTAAA
*
9847917 CGGGAAGCTCATATGAGCCAATAT
1 CGGGAAGCTCATAAGAGCCAATAT
**
9847941 CGGGAAGCTCATGAAAGAGCCTTTAAT
1 CGGGAAGCTCAT--AAGAGCCAAT-AT
* *
9847968 CGGGAAGTTCA-AGCGAGCCAATAT
1 CGGGAAGCTCATA-AGAGCCAATAT
*** *
9847992 CGGGAAGCTCCGGAGAGCCATTAAT
1 CGGGAAGCTCATAAGAGCCAAT-AT
*
9848017 CGGGAATCTCATAA
1 CGGGAAGCTCATAA
9848031 AAGCTATGGT
Statistics
Matches: 68, Mismatches: 16, Indels: 11
0.72 0.17 0.12
Matches are distributed among these distances:
24 31 0.46
25 18 0.26
26 7 0.10
27 12 0.18
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCAATAT
Found at i:9861831 original size:20 final size:21
Alignment explanation
Indices: 9861798--9861836 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9861788 ACAAAGTTGC
*
9861798 AGAGAAGAACAAGA-AAAATT
1 AGAGAAAAACAAGAGAAAATT
*
9861818 AGAGAAAAAGAAGAGAAAA
1 AGAGAAAAACAAGAGAAAA
9861837 ATTTGTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (21 bp):
AGAGAAAAACAAGAGAAAATT
Found at i:9863918 original size:45 final size:44
Alignment explanation
Indices: 9863868--9863954 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
9863858 GGTTCGCTGT
*
9863868 AATGGAATAAAAGTCTAATAGTAATTCAAT-TGTTTGGTTGAATAG
1 AATGGAATAAAACTCTAATAGT-ATTC-ATGTGTTTGGTTGAATAG
* * *
9863913 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAAT
1 AATGGAATAAAACTCTAATAGTATTCATGTGTTTGGTTGAAT
9863955 GAAATGACGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 17 0.46
45 19 0.51
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (44 bp):
AATGGAATAAAACTCTAATAGTATTCATGTGTTTGGTTGAATAG
Found at i:9867770 original size:15 final size:16
Alignment explanation
Indices: 9867750--9867782 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9867740 TCAATAACAT
9867750 TTTTTAAAA-TTATTA
1 TTTTTAAAATTTATTA
9867765 TTTTTAAAATTTATTA
1 TTTTTAAAATTTATTA
9867781 TT
1 TT
9867783 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAAAATTTATTA
Found at i:9867816 original size:20 final size:22
Alignment explanation
Indices: 9867791--9867835 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
9867781 TTAAAATAAA
*
9867791 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
9867811 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
9867833 ATT
1 ATT
9867836 TTATGACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:9869033 original size:10 final size:10
Alignment explanation
Indices: 9869018--9869060 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
9869008 GTATCAACTG
9869018 GAAAAGAGAA
1 GAAAAGAGAA
9869028 GAAAAGAG-A
1 GAAAAGAGAA
*
9869037 GAAAGGAGAA
1 GAAAAGAGAA
9869047 GAAGAAGA-AA
1 GAA-AAGAGAA
9869057 GAAA
1 GAAA
9869061 GAAAGAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 9 0.31
10 17 0.59
11 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:9869045 original size:19 final size:20
Alignment explanation
Indices: 9869018--9869061 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
9869008 GTATCAACTG
* *
9869018 GAAAAGAGAAGAA-AAGAGA
1 GAAAGGAGAAGAAGAAGAAA
9869037 GAAAGGAGAAGAAGAAGAAA
1 GAAAGGAGAAGAAGAAGAAA
9869057 GAAAG
1 GAAAG
9869062 AAAGAAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
GAAAGGAGAAGAAGAAGAAA
Found at i:9869256 original size:60 final size:59
Alignment explanation
Indices: 9869190--9869321 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 59
9869180 ATAGTTTTGG
* * *
9869190 ATTAGTATTTTGTATGAATGTAAT-TTTTTTTGCT-TTTTATAATTATTTTAAAATTAATTT
1 ATTAGTATTTAGGAT-AATGTAATAATTTTTTG-TGTTTT-TAATTATTTTAAAATTAATTT
* * *
9869250 GTTAGTAATTTAGGATTATGTTATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
1 ATTAGT-ATTTAGGATAATGTAATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
9869310 ATTAGTAATTTA
1 ATTAGT-ATTTA
9869322 AATTTGTAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 44 0.71
61 18 0.29
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (59 bp):
ATTAGTATTTAGGATAATGTAATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
Found at i:9869351 original size:21 final size:21
Alignment explanation
Indices: 9869325--9869368 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9869315 TAATTTAAAT
*
9869325 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATCATA
9869346 TTGTAAGACTTCAATATCATA
1 TTGTAAGACTTCAATATCATA
9869367 TT
1 TT
9869369 CGAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (21 bp):
TTGTAAGACTTCAATATCATA
Found at i:9870083 original size:56 final size:56
Alignment explanation
Indices: 9869939--9870111 Score: 242
Period size: 56 Copynumber: 3.1 Consensus size: 56
9869929 AAATGGTATG
* * *
9869939 TTTTTTGTAATCGTGCCTATCTGACAGGCGCCAATCAATTTTTTATAGTAAAAAA-A
1 TTTTTT-TAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
* * *
9869995 -TTTTTTAATTGCGTCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
1 TTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
* * *
9870050 TTTTTTTAATCGCGCCTATCTGATAGGCTCGAATAAATTTTTTATATTAAAAAATA
1 TTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
9870106 TTTTTT
1 TTTTTT
9870112 GTTTAAATAA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 42 0.41
55 6 0.06
56 55 0.53
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (56 bp):
TTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
Found at i:9870387 original size:16 final size:16
Alignment explanation
Indices: 9870366--9870404 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
9870356 TTAACTCATT
*
9870366 TAATTTTTATATAATG
1 TAATTTTTATATAATA
9870382 TAATTTTTATATAATA
1 TAATTTTTATATAATA
9870398 TAATTTT
1 TAATTTT
9870405 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:9875949 original size:57 final size:57
Alignment explanation
Indices: 9875886--9876003 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
9875876 ATATTTTATT
* * * * *
9875886 AAAAGAAAAAAAATTAATATAAAAAATTTATTGGCGCCTGTCAGATAGGCGCGATTA
1 AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCGGTCAGATAGGCACCATTA
* *
9875943 AAAAGAAAAAATATTAATATAAAAAATTCATTGGCACCGGTGAGATAGGCACCATTA
1 AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCGGTCAGATAGGCACCATTA
9876000 AAAA
1 AAAA
9876004 AACATATTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (57 bp):
AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCGGTCAGATAGGCACCATTA
Found at i:9879247 original size:72 final size:72
Alignment explanation
Indices: 9879130--9879275 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
9879120 ATAACTTGGC
9879130 TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
1 TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
9879195 ATTAAAT
66 ATTAAAT
*
9879202 TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
1 TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
*
9879267 TTTAAAT
66 ATTAAAT
9879274 TG
1 TG
9879276 TTAAATTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.20
Consensus pattern (72 bp):
TGGCATAAATAATAACTAAAACATGATAGAACACGAAAAAGTAACACGAACAAGACTCAAAACAT
ATTAAAT
Found at i:9887636 original size:22 final size:23
Alignment explanation
Indices: 9887594--9887653 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
9887584 TCTCCGATTC
* *
9887594 AATTTTTAAA-TTATGTCAAAAT
1 AATTATTAAATTTATGTAAAAAT
9887616 AATTATTAAATTTAT-TAAAAAT
1 AATTATTAAATTTATGTAAAAAT
9887638 -A-TATTAAAATTTATGT
1 AATTATT-AAATTTATGT
9887654 TAATTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 16 0.48
23 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
AATTATTAAATTTATGTAAAAAT
Found at i:9887722 original size:10 final size:9
Alignment explanation
Indices: 9887702--9887738 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
9887692 TTCATATTTA
9887702 TTTTAAATT
1 TTTTAAATT
9887711 TTTTAAATT
1 TTTTAAATT
*
9887720 TTTTATATT
1 TTTTAAATT
9887729 TTTTAGAATT
1 TTTTA-AATT
9887739 ATTGTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 22 0.88
10 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTAAATT
Found at i:9900416 original size:20 final size:19
Alignment explanation
Indices: 9900383--9900420 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
9900373 TTATTTCAAT
9900383 AAAATAATTAAATTTATATA
1 AAAATAATTAAA-TTATATA
9900403 AAAATATATT-AATTATAT
1 AAAATA-ATTAAATTATAT
9900421 TTTATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTAAATTATATA
Found at i:9900713 original size:88 final size:85
Alignment explanation
Indices: 9900533--9900711 Score: 234
Period size: 88 Copynumber: 2.1 Consensus size: 85
9900523 ATTAATCTCA
* * * * * *
9900533 TTTTTTTCACTTAATTAGGTACTTGAACTTTCCAAATGCATCAAAAAGGCCCTCAAACTTTTAAA
1 TTTTTTTCACTCAATTAGGTACTTAAACTGTCAAAATGCATCAAAAAGACCCACAAACTTTTAAA
* *
9900598 AAAAGCAATTAAGGCCCTGCT
66 AAAA-CAATTAAGCCCCTACT
* *
9900619 TTTTTTTAGCACTCAATTGGGTACTTAAACTGTCAAAATGCATCAAAAAGACCCACAAATTTTTA
1 TTTTTTT--CACTCAATTAGGTACTTAAACTGTCAAAATGCATCAAAAAGACCCACAAACTTTTA
9900684 AAAAAA-AATTAAGCCCCTACT
64 AAAAAACAATTAAGCCCCTACT
9900705 TTTTTTT
1 TTTTTTT
9900712 TTTTTTGCAC
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 27 0.33
88 54 0.67
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (85 bp):
TTTTTTTCACTCAATTAGGTACTTAAACTGTCAAAATGCATCAAAAAGACCCACAAACTTTTAAA
AAAACAATTAAGCCCCTACT
Found at i:9900908 original size:20 final size:21
Alignment explanation
Indices: 9900875--9900930 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
9900865 AATAAAATAG
* *
9900875 TAAAAGTT-ATAAAAAATA-T
1 TAAAATTTAATAAAAAACATT
*
9900894 TAAATTTTAATAAAAAACATT
1 TAAAATTTAATAAAAAACATT
*
9900915 TAAAATTTACTAAAAA
1 TAAAATTTAATAAAAA
9900931 TTAGAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 6 0.20
20 9 0.30
21 15 0.50
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAATTTAATAAAAAACATT
Found at i:9901258 original size:10 final size:9
Alignment explanation
Indices: 9901238--9901297 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
9901228 ATGTACTTTT
*
9901238 TTTTCTATA
1 TTTTATATA
9901247 TTTCTATATA
1 TTT-TATATA
9901257 TTTTATA-A
1 TTTTATATA
*
9901265 TTTTTTATA
1 TTTTATATA
9901274 TTTTTATAATA
1 -TTTTAT-ATA
9901285 TTTT-TATAA
1 TTTTATAT-A
9901294 TTTT
1 TTTT
9901298 TAATAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 9 0.21
9 14 0.33
10 17 0.40
11 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATATA
Found at i:9901269 original size:9 final size:10
Alignment explanation
Indices: 9901237--9901299 Score: 71
Period size: 9 Copynumber: 6.6 Consensus size: 10
9901227 TATGTACTTT
*
9901237 TTTTTCTATA
1 TTTTTATATA
*
9901247 TTTCTATATA
1 TTTTTATATA
9901257 -TTTTATA-A
1 TTTTTATATA
9901265 TTTTT-TATA
1 TTTTTATATA
9901274 TTTTTATAATA
1 TTTTTAT-ATA
9901285 TTTTTATA-A
1 TTTTTATATA
9901294 TTTTTA
1 TTTTTA
9901300 ATAAAAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 3 0.07
9 23 0.50
10 10 0.22
11 10 0.22
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTATATA
Found at i:9901289 original size:29 final size:28
Alignment explanation
Indices: 9901237--9901298 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
9901227 TATGTACTTT
9901237 TTTTTCTATATTTCTATATATTTTATAA
1 TTTTTCTATATTTCTATATATTTTATAA
*
9901265 TTTTT-TATATTTTTATAATATTTTTATAA
1 TTTTTCTATATTTCTAT-ATA-TTTTATAA
9901294 TTTTT
1 TTTTT
9901299 AATAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 10 0.32
28 8 0.26
29 13 0.42
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTCTATATTTCTATATATTTTATAA
Found at i:9901298 original size:10 final size:10
Alignment explanation
Indices: 9901257--9901303 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
9901247 TTTCTATATA
9901257 TTTTATAATT
1 TTTTATAATT
9901267 TTTTAT-A-T
1 TTTTATAATT
9901275 TTTTATAATAT
1 TTTTATAAT-T
9901286 TTTTATAATT
1 TTTTATAATT
*
9901296 TTTAATAA
1 TTTTATAA
9901304 AAATTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 7 0.21
9 2 0.06
10 14 0.42
11 10 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:9901301 original size:18 final size:19
Alignment explanation
Indices: 9901244--9901302 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
9901234 TTTTTTTTCT
*
9901244 ATATTTCTATATATTTTATA
1 ATATTTTTATA-ATTTTATA
*
9901264 AT-TTTTTATATTTTTATA
1 ATATTTTTATAATTTTATA
9901282 ATATTTTTATAATTTT-TA
1 ATATTTTTATAATTTTATA
9901300 ATA
1 ATA
9901303 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.40
19 19 0.54
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTTTTATAATTTTATA
Found at i:9901339 original size:29 final size:29
Alignment explanation
Indices: 9901252--9901339 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
9901242 CTATATTTCT
* **
9901252 ATATATTTTATAATTTTTTAT-ATTTTTATA
1 ATAT-TTTTATAATTTTTAATAAAATTTA-A
*
9901282 ATATTTTTATAATTTTTAATAAAAATTAA
1 ATATTTTTATAATTTTTAATAAAATTTAA
* *
9901311 ATATTTCTTAT-ATTTTTATTAAAGTTTAA
1 ATATTT-TTATAATTTTTAATAAAATTTAA
9901340 TAATATTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 37 0.76
30 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
ATATTTTTATAATTTTTAATAAAATTTAA
Found at i:9902451 original size:25 final size:25
Alignment explanation
Indices: 9902420--9902487 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
9902410 CTCACGAGCC
*
9902420 ATATAACAGGAAGCTCATGTGAGG-T
1 ATATAACAGGAAGCTCATCTG-GGCT
* *
9902445 GTATAACAGGAAGCTTATCTGGGCT
1 ATATAACAGGAAGCTCATCTGGGCT
*
9902470 ATATAACAGAAAGCTCAT
1 ATATAACAGGAAGCTCAT
9902488 AAGAGCCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 2 0.06
25 34 0.94
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (25 bp):
ATATAACAGGAAGCTCATCTGGGCT
Found at i:9902568 original size:73 final size:74
Alignment explanation
Indices: 9902480--9902675 Score: 202
Period size: 73 Copynumber: 2.6 Consensus size: 74
9902470 ATATAACAGA
* * * *
9902480 AAGCTCA-TAAGAGCCATAATCAGGAAGCTCATGCGAGCCAATAACTGGTAGCTCC-GAAGAGCC
1 AAGCTCACAAAGAGCCATAATCGGGAAGCTCATGCGAGCCAATAACGGGAAGCTCCAG-AGAGCC
9902543 ATTAAATAGG
65 ATTAAATAGG
* * * * * *
9902553 AAGCTC-CGAATAGCCATGTATCGGGAAGTTCAAGCGAGCC-ATATCGGGAAGCTCCAGAGAGCC
1 AAGCTCACAAAGAGCCAT-AATCGGGAAGCTCATGCGAGCCAATAACGGGAAGCTCCAGAGAGCC
*
9902616 ATTAATTAGG
65 ATTAAATAGG
* *
9902626 AAGCTCACAAAGAGCCTTTAATCGGGAAGCTCATGAAGAGCCATATAACG
1 AAGCTCACAAAGAGCC-ATAATCGGGAAGCTCATG-CGAGCCA-ATAACG
9902676 AGACTCACAT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
73 47 0.48
74 39 0.40
75 6 0.06
77 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (74 bp):
AAGCTCACAAAGAGCCATAATCGGGAAGCTCATGCGAGCCAATAACGGGAAGCTCCAGAGAGCCA
TTAAATAGG
Done.