Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 55 of 125
Found at i:10994912 original size:3 final size:3
Alignment explanation
Indices: 10994904--10994947 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
10994894 ACATGAAAAT
10994904 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10994948 TATCCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10995108 original size:20 final size:20
Alignment explanation
Indices: 10995083--10995153 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 20
10995073 TTATTATTCA
10995083 ATTATTATTATTTTTTTTAG
1 ATTATTATTATTTTTTTTAG
10995103 ATTATTATTATTATTATTTTAG
1 ATTATTATTATT-TT-TTTTAG
* *
10995125 CATTTTTAGTATTTTTTTTTAG
1 -ATTATTATTA-TTTTTTTTAG
10995147 -TTATTAT
1 ATTATTAT
10995154 CGTATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.40
21 2 0.05
22 12 0.28
23 10 0.23
24 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (20 bp):
ATTATTATTATTTTTTTTAG
Found at i:10995113 original size:23 final size:23
Alignment explanation
Indices: 10995083--10995153 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
10995073 TTATTATTCA
10995083 ATTATTATTATTTTTTTTAGATT
1 ATTATTATTATTTTTTTTAGATT
*
10995106 ATTATTATTA-TTATTTTAGCATT
1 ATTATTATTATTTTTTTTAG-ATT
* *
10995129 TTTAGTA-T-TTTTTTTTAG-TT
1 ATTATTATTATTTTTTTTAGATT
10995149 ATTAT
1 ATTAT
10995154 CGTATTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
20 5 0.12
22 17 0.43
23 18 0.45
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (23 bp):
ATTATTATTATTTTTTTTAGATT
Found at i:10997169 original size:132 final size:132
Alignment explanation
Indices: 10996690--10997165 Score: 478
Period size: 132 Copynumber: 3.6 Consensus size: 132
10996680 ACCGCGAGTT
* * * ** * *
10996690 AAAATTAAAGAATCGATCGGGACAACATCGTGAATCGAAATTGTGCCTAGAAGTCTTAAAGATTA
1 AAAATTAAAGAATCAATCGAGACAACACCGCAAATCGAAATTATGCCTAGAGGTCTTAAAGATTA
* * * *
10996755 TGCCCAGAGGTCTTAGAAATCATGCACAGAGGTCTTATAGAATCGATCGGGATAATA-TCGCAAG
66 TACTCGGAGGTCTTAGAAATCATGC-CAGAGGTCTTACAGAATCGATCGGGATAATACT-GCAAG
10996819 TCAA
129 TCAA
* * * ** ** *
10996823 AAAA-TAAAGAACCAAGTAG-GACAACACTGTGAATCGAAATTATGCCCGGATGTCTTAAAGATT
1 AAAATTAAAGAATCAA-TCGAGACAACACCGCAAATCGAAATTATGCCTAGAGGTCTTAAAGATT
* * * * **
10996886 ATGCTTGGAGGTCTTAGAAATCATGCCCGTAGGTCTTACAAAATCGATCGGGATAATACCACAAG
65 ATACTCGGAGGTCTTAGAAATCATGCCAG-AGGTCTTACAGAATCGATCGGGATAATACTGCAAG
*
10996951 TTAA
129 TCAA
* * * *
10996955 AAAATTAAA-AATCGATCGAGACAACACCGCAGATCGAAATTATACCTAAAGGTCTTAAAGATTA
1 AAAATTAAAGAATCAATCGAGACAACACCGCAAATCGAAATTATGCCTAGAGGTCTTAAAGATTA
* * * * * * * *
10997019 TACTTGGAGGTTTTATAAATCATGCCTGAAGATCTTACAGAATTGA-CTAGGATAACACTGCAAG
66 TACTCGGAGGTCTTAGAAATCATGCCAG-AGGTCTTACAGAATCGATC-GGGATAATACTGCAAG
10997083 TCAA
129 TCAA
* * * *
10997087 AAAATTAAA-AATCAATTGAGACAACACCGCAAATCAAAATTATGCCTAGAGGCCTTCAAGATTA
1 AAAATTAAAGAATCAATCGAGACAACACCGCAAATCGAAATTATGCCTAGAGGTCTTAAAGATTA
10997151 TACTCGGAGGTCTTA
66 TACTCGGAGGTCTTA
10997166 TAAAATTGAT
Statistics
Matches: 284, Mismatches: 53, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
131 5 0.02
132 269 0.95
133 10 0.04
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (132 bp):
AAAATTAAAGAATCAATCGAGACAACACCGCAAATCGAAATTATGCCTAGAGGTCTTAAAGATTA
TACTCGGAGGTCTTAGAAATCATGCCAGAGGTCTTACAGAATCGATCGGGATAATACTGCAAGTC
AA
Found at i:10997272 original size:110 final size:110
Alignment explanation
Indices: 10997078--10997275 Score: 263
Period size: 110 Copynumber: 1.8 Consensus size: 110
10997068 GGATAACACT
* *
10997078 GCAAGTCAAAAAATTAAAAATCAATTGAGACAACACCGCAAATCAAAATTATGCCTAGAGGCCTT
1 GCAAGTCAAAAAATTAAAAATCAATCGAGACAACACCGCAAATCAAAATTATGCCGAGAGGCCTT
* * **
10997143 CAAGATTATACTCGGAGGTCTTATAAAATTGATCGAGATAACGTC
66 AAAGATTATACCCAAAGGTCTTATAAAATTGATCGAGATAACGTC
* * * * * **
10997188 GCAAGTCAAAAAATTAAAAATCGATCGGGACAACATCGCGAGTCAAAATTATGCCCGA-AGGTTT
1 GCAAGTCAAAAAATTAAAAATCAATCGAGACAACACCGCAAATCAAAATTATG-CCGAGAGGCCT
10997252 TAAAGATTATACCCAAAGGTCTTA
65 TAAAGATTATACCCAAAGGTCTTA
10997276 GAAATCATGT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
110 71 0.96
111 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (110 bp):
GCAAGTCAAAAAATTAAAAATCAATCGAGACAACACCGCAAATCAAAATTATGCCGAGAGGCCTT
AAAGATTATACCCAAAGGTCTTATAAAATTGATCGAGATAACGTC
Found at i:10997330 original size:374 final size:375
Alignment explanation
Indices: 10996783--10997498 Score: 876
Period size: 374 Copynumber: 1.9 Consensus size: 375
10996773 ATCATGCACA
* * *
10996783 GAGGTCTTATAGAATCGATCGGGATAATATCGCAAGTCAAAAAATAAAGAACCAAGTAGGACAAC
1 GAGGTCTTATAAAATCGATCGAGATAACATCGCAAGTCAAAAAATAAAGAACCAAGTAGGACAAC
* * * * * ****
10996848 ACTGTGAATCGAAATTATGCCCGGATGTCTTAAAGATTATGCTTGGAGGTCTTAGAAATCATGCC
66 ACTGCGAATCAAAATTATGCCCGAAGGTCTTAAAGATTATACCCAAAGGTCTTAGAAATCATGCC
* * *
10996913 CGTAGGTCTTACAAAATCGATCGGGATAATACCACAAGTTAAAAAATTAAAAATCGATCGAGACA
131 CGGAGGTCTTACAAAATCGATCGGGATAACACCACAAGTTAAAAAATTAAAAATCAATCGAGACA
* * * * *
10996978 ACACCGC-AGATCGAAATTAT-ACCTAAAGGTCTTAAAGATTATACTTGGAGGTTTTATAAATCA
196 ACACCACGA-ATCAAAATTATGACCGAAA-GTCTTAAAGATTATACTTGGAGGTCTTAGAAATCA
** *
10997041 TGC-CTG-AAGATCTTACAGAATTGACTAG-GATAACACTGCAAGTCAAAAAATTAAAAATCAAT
259 TGCTC-GAAAG-TCTTACAGAATTGAC-AGAGATAACACCACAAGTCAAAAAATAAAAAATCAAT
10997103 TGAGACAACACCGC-AAATCAAAATTATGCCTAGAGGCCTTCAAGATTATACTCG
321 TGAGACAACACCGCGAAATCAAAATTATGCCTAGAGGCCTTCAAGATTATACTCG
* * * * *
10997157 GAGGTCTTATAAAATTGATCGAGATAACGTCGCAAGTCAAAAAATTAAA-AATCGA-TCGGGACA
1 GAGGTCTTATAAAATCGATCGAGATAACATCGCAAGTCAAAAAA-TAAAGAACCAAGT-AGGACA
* *
10997220 ACA-TCGCGAGTCAAAATTATGCCCGAAGGTTTTAAAGATTATACCCAAAGGTCTTAGAAATCAT
64 ACACT-GCGAATCAAAATTATGCCCGAAGGTCTTAAAGATTATACCCAAAGGTCTTAGAAATCAT
* * * * ** *
10997284 GTCTGGAGGTCTTACAGAATTGA-CTGGGATAACACTGCAAGTTAAAAAATTAAAAATTAATCGA
128 GCCCGGAGGTCTTACAAAATCGATC-GGGATAACACCACAAGTTAAAAAATTAAAAATCAATCGA
* *
10997348 GACAACACCACGAATCAAAATTATGCCCGAAAGTCTTAAAGATTATGCTTGGAGGTCTTAGAAAT
192 GACAACACCACGAATCAAAATTATGACCGAAAGTCTTAAAGATTATACTTGGAGGTCTTAGAAAT
* * **
10997413 CATGCTCGAAAGTCTTACAGAATTGACCGAGATAACACCATAAGTCAAAAAATAAAAAATTGATT
257 CATGCTCGAAAGTCTTACAGAATTGACAGAGATAACACCACAAGTCAAAAAATAAAAAATCAATT
* *
10997478 GGGACAACATCGCGAAATCAA
322 GAGACAACACCGCGAAATCAA
10997499 TTGAGATAAC
Statistics
Matches: 287, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
373 4 0.01
374 262 0.91
375 21 0.07
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (375 bp):
GAGGTCTTATAAAATCGATCGAGATAACATCGCAAGTCAAAAAATAAAGAACCAAGTAGGACAAC
ACTGCGAATCAAAATTATGCCCGAAGGTCTTAAAGATTATACCCAAAGGTCTTAGAAATCATGCC
CGGAGGTCTTACAAAATCGATCGGGATAACACCACAAGTTAAAAAATTAAAAATCAATCGAGACA
ACACCACGAATCAAAATTATGACCGAAAGTCTTAAAGATTATACTTGGAGGTCTTAGAAATCATG
CTCGAAAGTCTTACAGAATTGACAGAGATAACACCACAAGTCAAAAAATAAAAAATCAATTGAGA
CAACACCGCGAAATCAAAATTATGCCTAGAGGCCTTCAAGATTATACTCG
Found at i:10997392 original size:242 final size:242
Alignment explanation
Indices: 10996947--10997407 Score: 629
Period size: 242 Copynumber: 1.9 Consensus size: 242
10996937 GATAATACCA
* * *
10996947 CAAGTTAAAAAATTAAAAATCGATCGAGACAACACCGCAGATCGAAATTATACCTAAAGGTCTTA
1 CAAGTCAAAAAATTAAAAATCGATCGAGACAACACCGCAGATCAAAATTATACCCAAAGGTCTTA
**** * *
10997012 AAGATTATACTTGGAGGTTTTATAAATCATGCCTGAAGATCTTACAGAATTGACTAGGATAACAC
66 AAGATTATACCCAAAGGTCTTAGAAATCATGCCTGAAGATCTTACAGAATTGACTAGGATAACAC
* * * *
10997077 TGCAAGTCAAAAAATTAAAAATCAATTGAGACAACACCGCAAATCAAAATTATGCCTAGAGGCCT
131 TGCAAGTCAAAAAATTAAAAATCAATCGAGACAACACCACAAATCAAAATTATGCCGAGAAGCCT
*
10997142 TCAAGATTATACTCGGAGGTCTTATAAAATTGATCGAGATAACGTCG
196 TAAAGATTATACTCGGAGGTCTTATAAAATTGATCGAGATAACGTCG
* * * * *
10997189 CAAGTCAAAAAATTAAAAATCGATCGGGACAACATCGC-GAGTCAAAATTATGCCCGAAGGTTTT
1 CAAGTCAAAAAATTAAAAATCGATCGAGACAACACCGCAGA-TCAAAATTATACCCAAAGGTCTT
* * * *
10997253 AAAGATTATACCCAAAGGTCTTAGAAATCATGTCTGGAGGTCTTACAGAATTGACTGGGATAACA
65 AAAGATTATACCCAAAGGTCTTAGAAATCATGCCTGAAGATCTTACAGAATTGACTAGGATAACA
* * * *
10997318 CTGCAAGTTAAAAAATTAAAAATTAATCGAGACAACACCACGAATCAAAATTATGCCCGA-AAGT
130 CTGCAAGTCAAAAAATTAAAAATCAATCGAGACAACACCACAAATCAAAATTATG-CCGAGAAGC
* *
10997382 CTTAAAGATTATGCTTGGAGGTCTTA
194 CTTAAAGATTATACTCGGAGGTCTTA
10997408 GAAATCATGC
Statistics
Matches: 188, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
241 2 0.01
242 183 0.97
243 3 0.02
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (242 bp):
CAAGTCAAAAAATTAAAAATCGATCGAGACAACACCGCAGATCAAAATTATACCCAAAGGTCTTA
AAGATTATACCCAAAGGTCTTAGAAATCATGCCTGAAGATCTTACAGAATTGACTAGGATAACAC
TGCAAGTCAAAAAATTAAAAATCAATCGAGACAACACCACAAATCAAAATTATGCCGAGAAGCCT
TAAAGATTATACTCGGAGGTCTTATAAAATTGATCGAGATAACGTCG
Found at i:10997427 original size:22 final size:21
Alignment explanation
Indices: 10997364--10997429 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
10997354 ACCACGAATC
*
10997364 AAAATTATGCCCGAAAGTCTT
1 AAAATTATGCTCGAAAGTCTT
* * *
10997385 AAAGATTATGCTTGGAGGTCTT
1 AAA-ATTATGCTCGAAAGTCTT
*
10997407 AGAAATCATGCTCGAAAGTCTT
1 A-AAATTATGCTCGAAAGTCTT
10997429 A
1 A
10997430 CAGAATTGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (21 bp):
AAAATTATGCTCGAAAGTCTT
Found at i:10997484 original size:132 final size:132
Alignment explanation
Indices: 10997160--10997486 Score: 377
Period size: 132 Copynumber: 2.5 Consensus size: 132
10997150 ATACTCGGAG
* * * ** * * *
10997160 GTCTTATAAAATTGATCGAGATAACGTCGCAAGTCAAAAAATTAAAAATCGATCGGGACAACATC
1 GTCTTACAGAATTGACCGAGATAACACCACAAGTCAAAAAATTAAAAATTGATCGGGACAACACC
* * * * *
10997225 GCGAGTCAAAATTATGCCCGAAGGTTTTAAAGATTATACCCAAAGGTCTTAGAAATCATGTCTGG
66 ACGAATCAAAATTATGCCCGAAAGTCTTAAAGATTATACCCAAAGGTCTTAGAAATCATGTCTGA
*
10997290 AG
131 AA
* * ** * * *
10997292 GTCTTACAGAATTGACTGGGATAACACTGCAAGTTAAAAAATTAAAAATTAATCGAGACAACACC
1 GTCTTACAGAATTGACCGAGATAACACCACAAGTCAAAAAATTAAAAATTGATCGGGACAACACC
* ****
10997357 ACGAATCAAAATTATGCCCGAAAGTCTTAAAGATTATGCTTGGAGGTCTTAGAAATCATG-CTCG
66 ACGAATCAAAATTATGCCCGAAAGTCTTAAAGATTATACCCAAAGGTCTTAGAAATCATGTCT-G
10997421 AAA
130 AAA
* * *
10997424 GTCTTACAGAATTGACCGAGATAACACCATAAGTCAAAAAATAAAAAATTGATTGGGACAACA
1 GTCTTACAGAATTGACCGAGATAACACCACAAGTCAAAAAATTAAAAATTGATCGGGACAACA
10997487 TCGCGAAATC
Statistics
Matches: 160, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
131 2 0.01
132 158 0.99
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (132 bp):
GTCTTACAGAATTGACCGAGATAACACCACAAGTCAAAAAATTAAAAATTGATCGGGACAACACC
ACGAATCAAAATTATGCCCGAAAGTCTTAAAGATTATACCCAAAGGTCTTAGAAATCATGTCTGA
AA
Found at i:10997543 original size:60 final size:59
Alignment explanation
Indices: 10997441--10997557 Score: 180
Period size: 60 Copynumber: 2.0 Consensus size: 59
10997431 AGAATTGACC
* **
10997441 GAGATAACACCATAAGTCAAAAAATAAAAAATTGATTGGGACAACATCGCGAAATCAATT
1 GAGATAACACCATAAGTCAAAAAATAAAAAATCGATCAGGACAACATCGCG-AATCAATT
* *
10997501 GAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCAGGACAACATCGCGAATCAA
1 GAGATAACACCATAAGTCAAAAAATAAAAAATCGATCAGGACAACATCGCGAATCAA
10997558 AATTATGCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
59 6 0.12
60 46 0.88
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (59 bp):
GAGATAACACCATAAGTCAAAAAATAAAAAATCGATCAGGACAACATCGCGAATCAATT
Found at i:10997609 original size:22 final size:23
Alignment explanation
Indices: 10997556--10997611 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
10997546 ATCGCGAATC
10997556 AAAATTATGC-CTAAAGGTCTTA
1 AAAATTATGCTCTAAAGGTCTTA
*
10997578 AAAATCATGCTCT-AAGGTCTTA
1 AAAATTATGCTCTAAAGGTCTTA
**
10997600 GGAATTATGCTC
1 AAAATTATGCTC
10997612 AGATGTCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (23 bp):
AAAATTATGCTCTAAAGGTCTTA
Found at i:10997894 original size:127 final size:129
Alignment explanation
Indices: 10997760--10998033 Score: 324
Period size: 129 Copynumber: 2.1 Consensus size: 129
10997750 GTGGAGTTTG
* *
10997760 AAAATTTAAAAATCTTTTACCCGA-AAATCTTGAAAGTTATGCC-GAAGGCT-TTAGAGATTACA
1 AAAATTTAAAAATCTTTT-CCCGAGAAATCTTGAAAGTTATGCCTAAAAG-TATTAGAGATTACA
* * * **
10997822 CCTGGAA-GTCTTACAAATCTC-AAAATTTTTGAATGCTCCTCATAATCAAAGGTGATGAAACTT
64 CC-CGAAGGTCTTACAAATCTCAAAAATCTTTAAATGCTCCTCATAATCAAAGGCAATGAAACTT
10997885 TA
128 TA
* * ** * *
10997887 AAAATTTAAAAATCTTTTTCCTAGAGGTCTTGAAAGTTGTGCCTAAAAGTATTAGAGATTATACC
1 AAAATTTAAAAATCTTTTCCCGAGAAATCTTGAAAGTTATGCCTAAAAGTATTAGAGATTACACC
* * * *
10997952 CGAAGGTTTTACAAATCTCAAAAATCTTTAAATGCTTCTCCTAATCAGAGGCAATGAAACTTTA
66 CGAAGGTCTTACAAATCTCAAAAATCTTTAAATGCTCCTCATAATCAAAGGCAATGAAACTTTA
*
10998016 AAAATTTGAAAATCTTTT
1 AAAATTTAAAAATCTTTT
10998034 TCAAAATGGC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
126 3 0.02
127 38 0.31
128 29 0.23
129 54 0.44
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (129 bp):
AAAATTTAAAAATCTTTTCCCGAGAAATCTTGAAAGTTATGCCTAAAAGTATTAGAGATTACACC
CGAAGGTCTTACAAATCTCAAAAATCTTTAAATGCTCCTCATAATCAAAGGCAATGAAACTTTA
Found at i:10999909 original size:26 final size:24
Alignment explanation
Indices: 10999858--10999924 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 24
10999848 GAAGATGTCA
* * *
10999858 TTTTTATTTTT-TTGTTTACTTTT
1 TTTTTCTTTTTCTTTTTTACTTCT
10999881 TTTTATCTTTTTGCTTTTTTACTTCT
1 TTTT-TCTTTTT-CTTTTTTACTTCT
*
10999907 TTTTTGTTTTTCTTTTTT
1 TTTTTCTTTTTCTTTTTT
10999925 TTTATCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.11
24 13 0.35
25 6 0.16
26 14 0.38
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTTTCTTTTTCTTTTTTACTTCT
Found at i:10999919 original size:13 final size:12
Alignment explanation
Indices: 10999858--10999940 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 12
10999848 GAAGATGTCA
*
10999858 TTTTTATTTTTT
1 TTTTTCTTTTTT
*
10999870 TGTTTACTTTTTT
1 T-TTTTCTTTTTT
10999883 TTATCTT-TTTGCTTT
1 TT-T-TTCTTT--TTT
10999898 TTTACTTCTTTTTT
1 TTT--TTCTTTTTT
10999912 GTTTTTCTTTTTT
1 -TTTTTCTTTTTT
*
10999925 TTTATCTTTTTAT
1 TTTTTCTTTTT-T
10999938 TTT
1 TTT
10999941 ATGATGCCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
12 12 0.21
13 27 0.47
14 5 0.09
15 11 0.19
16 3 0.05
ACGTcount: A:0.07, C:0.08, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:10999941 original size:13 final size:12
Alignment explanation
Indices: 10999858--10999942 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 12
10999848 GAAGATGTCA
10999858 TTTTTAT-TTTT
1 TTTTTATCTTTT
10999869 TTGTTTA-C-TTT
1 TT-TTTATCTTTT
10999880 TTTTTATCTTTTTGCT
1 TTTTTATC--TTT--T
10999896 TTTTTACTTCTTTT
1 TTTTTA--TCTTTT
*
10999910 TTGTTTTTCTTTT
1 TT-TTTATCTTTT
10999923 TTTTTATCTTTT
1 TTTTTATCTTTT
10999935 TATTTTAT
1 T-TTTTAT
10999943 GATGCCCCAT
Statistics
Matches: 60, Mismatches: 2, Indels: 22
0.71 0.02 0.26
Matches are distributed among these distances:
10 4 0.07
11 8 0.13
12 14 0.23
13 14 0.23
14 5 0.08
15 3 0.05
16 10 0.17
18 2 0.03
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.80
Consensus pattern (12 bp):
TTTTTATCTTTT
Found at i:11006557 original size:22 final size:20
Alignment explanation
Indices: 11006531--11006587 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
11006521 GGACTTTAAA
11006531 GTTTTAGATTTTAGGGTTTAG
1 GTTTT-GATTTTAGGGTTTAG
* *
11006552 GATTTTGGATCTTAGGGTTTTG
1 G-TTTT-GATTTTAGGGTTTAG
11006574 GTTTTGAGTTTTAG
1 GTTTTGA-TTTTAG
11006588 ATTTTGGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 10 0.33
22 18 0.60
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.53
Consensus pattern (20 bp):
GTTTTGATTTTAGGGTTTAG
Found at i:11006675 original size:29 final size:30
Alignment explanation
Indices: 11006643--11006978 Score: 213
Period size: 30 Copynumber: 11.4 Consensus size: 30
11006633 TAGGAAATAG
11006643 TTTTAGGGTTTAGA-GGTTT-GGAGTTTTGA
1 TTTTAGGGTTTAGAGGGTTTAGG-GTTTTGA
* * *
11006672 TTTTAAGGTTTTGGTGGGTTTAGGGTTTTGA
1 TTTT-AGGGTTTAGAGGGTTTAGGGTTTTGA
* * * *
11006703 TTTTAGGATTCAAAGGGTTTAGGGTTTTAA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
** ** *
11006733 TTTTAGGGTTCGGAGGGTTTAGGAATTAG-
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
* *
11006762 TTTTAGGGTTTAAAGGG-TTAGAGTTTTGA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
* * *
11006791 TTTTAAGGTCTGGAGGGTTTAGGGTTTTGA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
* * * *** *
11006821 GTTTAGGATTTTGATATTTTAGGGATTTGA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
* * * * *
11006851 TTTTCGCGTTTGGAGGGTTTAAGG-TTTCA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
* * * *
11006880 TTTTTAGGGTTCAAAGGGTTTAAGG-TTTAA
1 -TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
* *
11006910 TTTTAGGGTTCAGAGGGTTTAGGG-TTTAA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
*** * *
11006939 TTTTAAAATTTAGA-GGTTT-GGGGTTTAA
1 TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
11006967 TTTTTAGGGTTT
1 -TTTTAGGGTTT
11006979 CAATTTTTAG
Statistics
Matches: 237, Mismatches: 62, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
27 3 0.01
28 17 0.07
29 80 0.34
30 119 0.50
31 16 0.07
32 2 0.01
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (30 bp):
TTTTAGGGTTTAGAGGGTTTAGGGTTTTGA
Found at i:11006978 original size:14 final size:15
Alignment explanation
Indices: 11006959--11006989 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11006949 TAGAGGTTTG
11006959 GGGTTT-AATTTTTA
1 GGGTTTCAATTTTTA
11006973 GGGTTTCAATTTTTA
1 GGGTTTCAATTTTTA
11006988 GG
1 GG
11006990 TTTTGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (15 bp):
GGGTTTCAATTTTTA
Found at i:11007169 original size:3 final size:3
Alignment explanation
Indices: 11007163--11007203 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11007153 TTTTTTTTTT
11007163 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11007204 TATCCTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11009018 original size:137 final size:137
Alignment explanation
Indices: 11008772--11009047 Score: 543
Period size: 137 Copynumber: 2.0 Consensus size: 137
11008762 CTTTAAGTAG
11008772 AACTATGATAATGATTGATGACATAATTATGTAACCCTTTTCATAGTCGTGATTCAAACCCTTTG
1 AACTATGATAATGATTGATGACATAATTATGTAACCCTTTTCATAGTCGTGATTCAAACCCTTTG
*
11008837 ACTTCCCCCTCCCGGAGGCGATGAGTCGTGCTAAGGGTAGCAAAAACAGGTGAGTTTTGGTATGG
66 ACTTCCCCCTCCCGAAGGCGATGAGTCGTGCTAAGGGTAGCAAAAACAGGTGAGTTTTGGTATGG
11008902 AATAGAC
131 AATAGAC
11008909 AACTATGATAATGATTGATGACATAATTATGTAACCCTTTTCATAGTCGTGATTCAAACCCTTTG
1 AACTATGATAATGATTGATGACATAATTATGTAACCCTTTTCATAGTCGTGATTCAAACCCTTTG
11008974 ACTTCCCCCTCCCGAAGGCGATGAGTCGTGCTAAGGGTAGCAAAAACAGGTGAGTTTTGGTATGG
66 ACTTCCCCCTCCCGAAGGCGATGAGTCGTGCTAAGGGTAGCAAAAACAGGTGAGTTTTGGTATGG
11009039 AATAGAC
131 AATAGAC
11009046 AA
1 AA
11009048 TTTCATGAGC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (137 bp):
AACTATGATAATGATTGATGACATAATTATGTAACCCTTTTCATAGTCGTGATTCAAACCCTTTG
ACTTCCCCCTCCCGAAGGCGATGAGTCGTGCTAAGGGTAGCAAAAACAGGTGAGTTTTGGTATGG
AATAGAC
Found at i:11012729 original size:155 final size:155
Alignment explanation
Indices: 11012434--11012723 Score: 383
Period size: 155 Copynumber: 1.9 Consensus size: 155
11012424 TAAAATTTTA
*
11012434 AAATTTTAATTTCAAAAGTGTTAAAAGCGATTATCTAAAATATCTTTAGTAAATTTTTTTATAAA
1 AAATTTTAATTTCAAAAGTATTAAAAGCGATTATCTAAAATATCTTTAGTAAATTTTTTTATAAA
* * **
11012499 TTTTAATTTAAATAATTTTTTAATTATTAGACATCATTTTATAATTAGACTTTTAAAATGTTTAA
66 TTTTAATTTAAATAATTTTTTAATTATTAAACATCATTTTATAATTAAACTTTTAAAA-GCATAA
11012564 AATGATTAATTAAAATACACTTAATT
130 AATGATTAATTAAAATACACTTAATT
* *
11012590 AAATTTTAATTTCAAAA-TATTAAAAGTGATTGAT-TAAAATGT-TATTAGTAAA-TTTTTTATA
1 AAATTTTAATTTCAAAAGTATTAAAAGCGATT-ATCTAAAATATCT-TTAGTAAATTTTTTTATA
* * *
11012651 AATTTTAATTTAAATGAATTTTTTTATTATTAAACTTCTTTTTTATAATTAAACTCATATTAAAA
64 AATTTTAATTTAAAT-AATTTTTTAATTATTAAACATC-ATTTTATAATTAAACT--T-TTAAAA
11012716 -CATAAAAT
124 GCATAAAAT
11012724 ATAATTTTTT
Statistics
Matches: 117, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
154 25 0.21
155 46 0.39
156 33 0.28
157 6 0.05
158 1 0.01
159 6 0.05
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (155 bp):
AAATTTTAATTTCAAAAGTATTAAAAGCGATTATCTAAAATATCTTTAGTAAATTTTTTTATAAA
TTTTAATTTAAATAATTTTTTAATTATTAAACATCATTTTATAATTAAACTTTTAAAAGCATAAA
ATGATTAATTAAAATACACTTAATT
Found at i:11016829 original size:3 final size:3
Alignment explanation
Indices: 11016821--11016846 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11016811 AATTGGTTGA
11016821 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
11016847 CTTGTTAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11018830 original size:2 final size:2
Alignment explanation
Indices: 11018825--11018862 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11018815 ATTTTTTGTA
11018825 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11018863 AACTTACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11022254 original size:32 final size:32
Alignment explanation
Indices: 11022188--11022256 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
11022178 ATATGCTTGG
* * *
11022188 TTTTATTAGTATATTTTATGTGTTTCATTATT
1 TTTTATTAGTATATTATATGTGTATAATTATT
*
11022220 TTTTATTAGTATA-TATATGTGATATAATTTTT
1 TTTTATTAGTATATTATATGTG-TATAATTATT
11022252 TTTTA
1 TTTTA
11022257 AAAAAATGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 7 0.22
32 25 0.78
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.64
Consensus pattern (32 bp):
TTTTATTAGTATATTATATGTGTATAATTATT
Found at i:11022496 original size:13 final size:13
Alignment explanation
Indices: 11022479--11022513 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11022469 TTTTTTTGTA
11022479 ATATTTTAATATC
1 ATATTTTAATATC
* *
11022492 GTATTATAATATC
1 ATATTTTAATATC
11022505 ATATTTTAA
1 ATATTTTAA
11022514 ATTATCAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (13 bp):
ATATTTTAATATC
Found at i:11027015 original size:7 final size:7
Alignment explanation
Indices: 11027003--11027031 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11026993 ATTATAGGTG
11027003 TTAAAAT
1 TTAAAAT
11027010 TTAAAAT
1 TTAAAAT
11027017 TTAAAAT
1 TTAAAAT
11027024 TTAAAAT
1 TTAAAAT
11027031 T
1 T
11027032 AATAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTAAAAT
Found at i:11033978 original size:29 final size:26
Alignment explanation
Indices: 11033937--11034003 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
11033927 AAAACTCTAC
*
11033937 TTTT-TTTTTTATTGTTTTAAATAGTTT
1 TTTTATTTTTTATTATTTTAAAT--TTT
*
11033964 GTTTTATTTTTTATTATTTTTAATTTT
1 -TTTTATTTTTTATTATTTTAAATTTT
11033991 TTTTACTTTTTTA
1 TTTTA-TTTTTTA
11034004 CATTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.14
27 10 0.29
28 4 0.11
29 16 0.46
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTATTTTTTATTATTTTAAATTTT
Found at i:11033993 original size:18 final size:18
Alignment explanation
Indices: 11033973--11034031 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
11033963 TGTTTTATTT
*
11033973 TTTATTATTTTTAATTTTT
1 TTTATT-TTTTTAATTTTA
*
11033992 TTTACTTTTTTACATTTTA
1 TTTATTTTTTTA-ATTTTA
* *
11034011 TTTAGTTTTTAAATTTTA
1 TTTATTTTTTTAATTTTA
11034029 TTT
1 TTT
11034032 TTATTAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.43
19 20 0.57
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTTTTTTAATTTTA
Found at i:11040081 original size:15 final size:16
Alignment explanation
Indices: 11040050--11040087 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11040040 CTTTTATAAG
*
11040050 AATATTTTCATAATTT
1 AATATTTTCAGAATTT
11040066 AATATTTTC-GAATTT
1 AATATTTTCAGAATTT
*
11040081 AAAATTT
1 AATATTT
11040088 CACGAAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (16 bp):
AATATTTTCAGAATTT
Found at i:11040521 original size:46 final size:46
Alignment explanation
Indices: 11040430--11040532 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 46
11040420 TCGGCCGAAC
* * *
11040430 AAAAACAGAAGGGGGGAAGTTGCGGGAAGAAAAGAGAGCTAAAAAA
1 AAAAACAGAAGAGGGGAAGTTGAGGGAAAAAAAGAGAGCTAAAAAA
11040476 AAAAACAGAAGAAGGGGAAGTTGAGGGAAAAAAAGAGAGCTAAAAAA
1 AAAAACAGAAG-AGGGGAAGTTGAGGGAAAAAAAGAGAGCTAAAAAA
11040523 AAAGAACAGA
1 AAA-AACAGA
11040533 GGGAGGAAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 11 0.21
47 35 0.67
48 6 0.12
ACGTcount: A:0.57, C:0.06, G:0.31, T:0.06
Consensus pattern (46 bp):
AAAAACAGAAGAGGGGAAGTTGAGGGAAAAAAAGAGAGCTAAAAAA
Found at i:11042678 original size:2 final size:2
Alignment explanation
Indices: 11042666--11042695 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11042656 ACATCTTTAA
*
11042666 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11042696 TTTATGATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11046089 original size:55 final size:55
Alignment explanation
Indices: 11045992--11046097 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
11045982 CTAAGCTTAG
* * * *
11045992 AGGGCATTGAGATAACTTAGACCCATAGAGAGACAAGATTGAATGCTGGGCCCAA
1 AGGGCATTGAGACAACCTAAACCCACAGAGAGACAAGATTGAATGCTGGGCCCAA
* * *
11046047 AGGGTATTGAGACAACCTAAACCCACAGAGAGGCAAGGTTGAATGCTGGGC
1 AGGGCATTGAGACAACCTAAACCCACAGAGAGACAAGATTGAATGCTGGGC
11046098 TTAAGGTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (55 bp):
AGGGCATTGAGACAACCTAAACCCACAGAGAGACAAGATTGAATGCTGGGCCCAA
Found at i:11047968 original size:25 final size:25
Alignment explanation
Indices: 11047940--11047993 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11047930 CACTTAAAAC
11047940 TTTTA-TTTATTCA-ATTTTATATTGA
1 TTTTATTTTATTCATATTTTAT-TT-A
*
11047965 TTTTATTTTATTGATATTTTATTTA
1 TTTTATTTTATTCATATTTTATTTA
11047990 TTTT
1 TTTT
11047994 TTCATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 10 0.38
26 9 0.35
27 7 0.27
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTATTTTATTCATATTTTATTTA
Found at i:11048231 original size:15 final size:15
Alignment explanation
Indices: 11048213--11048270 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
11048203 TCAATTCAAC
*
11048213 TCAAATTCAAATTAT
1 TCAAATTTAAATTAT
11048228 TCAAATTTTAAATTAT
1 TCAAA-TTTAAATTAT
*
11048244 TTAAATTTAAATTAAT
1 TCAAATTTAAATT-AT
*
11048260 TTAAATTTAAA
1 TCAAATTTAAA
11048271 ATGATCCGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
15 13 0.33
16 26 0.67
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
TCAAATTTAAATTAT
Found at i:11051824 original size:7 final size:7
Alignment explanation
Indices: 11051812--11051858 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
11051802 AAAGTTGAAT
11051812 TTTTTTA
1 TTTTTTA
11051819 TTTTTTA
1 TTTTTTA
* *
11051826 -TTGTAA
1 TTTTTTA
11051832 TTTTTT-
1 TTTTTTA
11051838 TATTTTTA
1 T-TTTTTA
11051846 TTTTTTA
1 TTTTTTA
11051853 TTTTTT
1 TTTTTT
11051859 CAAATCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.15
7 27 0.82
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:11053333 original size:13 final size:13
Alignment explanation
Indices: 11053312--11053351 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
11053302 GAAATTATTA
11053312 AAAATTAAAATTT
1 AAAATTAAAATTT
* *
11053325 GATATTAAAATTT
1 AAAATTAAAATTT
11053338 AAAATCTAAAATTT
1 AAAAT-TAAAATTT
11053352 TTATCAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:11053792 original size:17 final size:17
Alignment explanation
Indices: 11053770--11053803 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11053760 GTATCAAATT
* *
11053770 TAAATATATTAAATAAA
1 TAAATAAATAAAATAAA
11053787 TAAATAAATAAAATAAA
1 TAAATAAATAAAATAAA
11053804 AAGTATTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATAAATAAAATAAA
Found at i:11055371 original size:36 final size:37
Alignment explanation
Indices: 11055302--11055375 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
11055292 TTCTTTTAAC
*** *
11055302 ATTTAAAATTTTTTATTGTTTTTTTATTTAAAATTAT
1 ATTTAAAATTTTTTATTGTTTTGGCATTAAAAATTAT
*
11055339 ATTTAAATTTTTTTATT-TTTTGGCATTAAAAATTAT
1 ATTTAAAATTTTTTATTGTTTTGGCATTAAAAATTAT
11055375 A
1 A
11055376 AAACTTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (37 bp):
ATTTAAAATTTTTTATTGTTTTGGCATTAAAAATTAT
Found at i:11056636 original size:30 final size:30
Alignment explanation
Indices: 11056600--11056657 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
11056590 TAAATATCAT
11056600 AAAAT-AATATATTTAAAAATA-ATAATATAA
1 AAAATAAAT-TATTTAAAAA-AGATAATATAA
11056630 AAAATAAATTATTTAAAAAAGATAATAT
1 AAAATAAATTATTTAAAAAAGATAATAT
11056658 TATTTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 22 0.85
31 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATAAATTATTTAAAAAAGATAATATAA
Found at i:11056646 original size:16 final size:15
Alignment explanation
Indices: 11056600--11056649 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
11056590 TAAATATCAT
11056600 AAAATAATATATTT-A
1 AAAATAAT-TATTTAA
* *
11056615 AAAATAATAATATAA
1 AAAATAATTATTTAA
11056630 AAAATAAATTATTTAA
1 AAAAT-AATTATTTAA
11056646 AAAA
1 AAAA
11056650 GATAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 3 0.10
15 14 0.48
16 12 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATAATTATTTAA
Found at i:11056661 original size:19 final size:17
Alignment explanation
Indices: 11056628--11056663 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
11056618 ATAATAATAT
11056628 AAAAAATAAATTATTTA
1 AAAAAATAAATTATTTA
11056645 AAAAAGATAATATTATTTA
1 AAAAA-ATAA-ATTATTTA
11056664 CTAAACTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAAAATAAATTATTTA
Found at i:11056803 original size:17 final size:15
Alignment explanation
Indices: 11056758--11056804 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
11056748 ATGAAATAAT
11056758 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
11056771 ATAATATATAACAAC
1 AAAATATATAACAAC
11056786 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
11056803 AA
1 AA
11056805 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:11059304 original size:27 final size:27
Alignment explanation
Indices: 11059274--11059327 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11059264 TATCAAACTT
11059274 AAAAAGCCAAGAAACTATGTAAAACAA
1 AAAAAGCCAAGAAACTATGTAAAACAA
11059301 AAAAAGCCAAGAAACTATGTAAAACAA
1 AAAAAGCCAAGAAACTATGTAAAACAA
11059328 CAACAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.63, C:0.15, G:0.11, T:0.11
Consensus pattern (27 bp):
AAAAAGCCAAGAAACTATGTAAAACAA
Found at i:11059338 original size:3 final size:3
Alignment explanation
Indices: 11059332--11059419 Score: 151
Period size: 3 Copynumber: 29.7 Consensus size: 3
11059322 AAACAACAAC
11059332 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
11059380 ACT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11059420 CAACAACAAC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 1 0.01
3 79 0.99
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11064197 original size:27 final size:27
Alignment explanation
Indices: 11064167--11064225 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
11064157 AACTAATTAA
*
11064167 AATTTATTTATTAATTTATTATATAAT
1 AATTTAATTATTAATTTATTATATAAT
* * *
11064194 AATTTAATTATTTATTTATTATTTCAT
1 AATTTAATTATTAATTTATTATATAAT
11064221 AATTT
1 AATTT
11064226 TTAAGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
AATTTAATTATTAATTTATTATATAAT
Found at i:11073747 original size:62 final size:63
Alignment explanation
Indices: 11073649--11073771 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 63
11073639 TTAGTACTTA
* * * * * *
11073649 GTTTTTAACACCCATTACATAATTCTCAAGGGAATGATACTCATTCATTACTATTATTACTCG
1 GTTTTTAACACCCACTAAATAATTCTAAAAGGAATGATACTCACTCACTACTATTATTACTCG
*
11073712 GTTTTTAGCA-CCACTAAATAATTCTAAAAGGAATGATACTCACTCACTACTATTATTACT
1 GTTTTTAACACCCACTAAATAATTCTAAAAGGAATGATACTCACTCACTACTATTATTACT
11073772 TAAAGCGATA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
62 44 0.83
63 9 0.17
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (63 bp):
GTTTTTAACACCCACTAAATAATTCTAAAAGGAATGATACTCACTCACTACTATTATTACTCG
Found at i:11075300 original size:27 final size:27
Alignment explanation
Indices: 11075250--11075301 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
11075240 TACTATAGCA
*
11075250 CTCTTCTTAACATAATTACTAAAATAT
1 CTCTTCTTAACATAATTAATAAAATAT
*
11075277 CTCTT-TTACCATAATTAATCAAAAT
1 CTCTTCTTAACATAATTAAT-AAAAT
11075302 TAACATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (27 bp):
CTCTTCTTAACATAATTAATAAAATAT
Found at i:11076740 original size:25 final size:26
Alignment explanation
Indices: 11076711--11076763 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
11076701 TGATATCATG
*
11076711 AAAAAGAATAA-TTAATGAAAAATAT
1 AAAAAGAATAAGTTAATAAAAAATAT
***
11076736 AAAAATTTTAAGTTAATAAAAAATAT
1 AAAAAGAATAAGTTAATAAAAAATAT
11076762 AA
1 AA
11076764 TTTTTTTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (26 bp):
AAAAAGAATAAGTTAATAAAAAATAT
Found at i:11078389 original size:18 final size:17
Alignment explanation
Indices: 11078363--11078413 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
11078353 TTGTGTCACC
11078363 TTTTTATTTTTAAATAT
1 TTTTTATTTTTAAATAT
*
11078380 TTTTTAATTTTTAAAGAAT
1 TTTTT-ATTTTTAAA-TAT
11078399 TTTTT-TTTTTAAATA
1 TTTTTATTTTTAAATA
11078414 GTGGAGTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 13 0.43
18 9 0.30
19 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATTTTTAAATAT
Found at i:11078504 original size:11 final size:10
Alignment explanation
Indices: 11078483--11078526 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
11078473 TAACTTTTAC
11078483 TTTTTTAATA
1 TTTTTTAATA
11078493 TTTTTTATATA
1 TTTTTTA-ATA
*
11078504 TTTTATAA-A
1 TTTTTTAATA
*
11078513 TTTTTAAATA
1 TTTTTTAATA
11078523 TTTT
1 TTTT
11078527 ACTATATCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 7 0.24
10 13 0.45
11 9 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:11078874 original size:2 final size:2
Alignment explanation
Indices: 11078867--11078893 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11078857 AATAATCCTT
11078867 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11078894 TTGTTAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11083248 original size:205 final size:205
Alignment explanation
Indices: 11082872--11083248 Score: 458
Period size: 205 Copynumber: 1.8 Consensus size: 205
11082862 CTTTGAAGAA
* * *
11082872 AAAAAAATTTTTATTATATTGAAGATTTTCTATAAATATTTCAAAACACTGGTAATATTTTTAAA
1 AAAAAAATTTTTATTATATTGAAAATTTTCTATAAATACTCCAAAACACTGGTAATATTTTTAAA
* ** * * * * *
11082937 AAATCTTATCACTTAGGGATTTTTTAAAGTATCTCTACTCGGAATACTTTTAAAATCCCGTCATT
66 AAATCTTATCACCTAAAGATTTTGTAAAGTATCACTACTCGGAATACCTTTAAAATCCCATCATC
* *
11083002 GGATAAAATTTCATTTTTCTTATTATTTTTATCACTTTATTACTTTATTAATTAATTTTTATTAT
131 GGATAAAATTT-ATTTTTCTTATCATTTTTATCAATTTATTACTTTATTAATTAATTTTTATTAT
11083067 TATTTTATAAT
195 TATTTTATAAT
* * * *
11083078 AAAAAAA-TTTTATTGTATTGAAAATTTTTTATAAATACTCCAATACACTGGTAGTATTTTTTAA
1 AAAAAAATTTTTATTATATTGAAAATTTTCTATAAATACTCCAAAACACTGGTAATA-TTTTT-A
* * * * *
11083142 AAAAATCTTTTCACCTAAAGATTTTGT-AGGTATCACTACTCGGAGTACCTTT-AAATCTCATCG
64 AAAAATCTTATCACCTAAAGATTTTGTAAAGTATCACTACTCGGAATACCTTTAAAATCCCATCA
*
11083205 TCGGATAAAAATTT-TTTTGTCTTA-CATTTTTATTTAATTTATTA
129 TCGGAT-AAAATTTATTTT-TCTTATCATTTTTA-TCAATTTATTA
11083249 TTAAAGGGTT
Statistics
Matches: 143, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
204 11 0.08
205 69 0.48
206 40 0.28
207 23 0.16
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (205 bp):
AAAAAAATTTTTATTATATTGAAAATTTTCTATAAATACTCCAAAACACTGGTAATATTTTTAAA
AAATCTTATCACCTAAAGATTTTGTAAAGTATCACTACTCGGAATACCTTTAAAATCCCATCATC
GGATAAAATTTATTTTTCTTATCATTTTTATCAATTTATTACTTTATTAATTAATTTTTATTATT
ATTTTATAAT
Found at i:11083913 original size:43 final size:43
Alignment explanation
Indices: 11083822--11083915 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 43
11083812 TCAATGACAT
* * *
11083822 TTTTGAAAATTTAAAAGGCTCATCTGAGTAGAAGCTTAATAAC
1 TTTTAAAAATTTAAAAGGCTCATCTAAGCAGAAGCTTAATAAC
11083865 TTTTAAAAATTTAAAGAGGCT-ACTCTAAGCAGAAGCTTAATAAC
1 TTTTAAAAATTTAAA-AGGCTCA-TCTAAGCAGAAGCTTAATAAC
11083909 -TTTAAAA
1 TTTTAAAA
11083916 CTCATCATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 22 0.48
44 24 0.52
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (43 bp):
TTTTAAAAATTTAAAAGGCTCATCTAAGCAGAAGCTTAATAAC
Found at i:11084100 original size:48 final size:48
Alignment explanation
Indices: 11083887--11084402 Score: 439
Period size: 48 Copynumber: 10.8 Consensus size: 48
11083877 AAAGAGGCTA
* * * * *
11083887 CTCTAAGCAGAAGCTTAATAACTTTAAAACTCATCATCCTAGAAAAGCTC
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATC-TCAT-CTGGAAAAGCTC
* * * * * * *
11083937 ATCTAAGTAGAGGTTCAACAAC-TTAAAAATCTCATATGAAAAAGTTT
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTC
* * * *
11083984 CTCTAAGCAGAGTCTCAATAACTTTAAAACTCATCATCCTGAAAAAGCTC
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATC-TCAT-CTGGAAAAGCTC
* * * *
11084034 CTCTAAGCAAATGTTCAACAACTTTAAAAATCTTATCTGGAAAAGCTC
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTC
* *
11084082 CTCTAAGCAGAGGCTCAACAACTTTTAAAAT-TTATCTTGGAAAAGCTC
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGGAAAAGCTC
*
11084130 CTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGGAAAAGCTC
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGGAAAAGCTC
* * * *
11084178 CTCTCAA-CAAAAGCTTAACAACTTTAAAAA-CTCATCTTGAAAAGCTC
1 CTCT-AAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTC
* * * * *
11084225 TTCTCAGCATAAGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCT-
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGGAAAAGCTC
* * * *
11084272 -T-TCAGCAAAAGCTTAACAACTTTAAAAAT-TCATCTTGGAAAAGC-C
1 CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGGAAAAGCTC
* * * *
11084317 CTTCTCAGCATAGGCTCAACAACTTTAAAAAT-TCATTTTGAAAAAGCTC
1 C-TCTAAGCAGAGGCTCAACAACTTTAAAAATCTCA-TCTGGAAAAGCTC
* * *
11084366 ATCTTAA-CAGAGGCTTAACAACTTTAAAGAT-TCATCT
1 CTC-TAAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
11084403 TTTCTCGAAA
Statistics
Matches: 389, Mismatches: 60, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
45 40 0.10
46 2 0.01
47 76 0.20
48 196 0.50
49 24 0.06
50 51 0.13
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (48 bp):
CTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTC
Found at i:11084334 original size:188 final size:191
Alignment explanation
Indices: 11083887--11084403 Score: 502
Period size: 188 Copynumber: 2.7 Consensus size: 191
11083877 AAAGAGGCTA
* * * * * * * * * *
11083887 CTCTAAGCAGAAGCTTAATAACTTTAAAACTCATCATCCTAGAAAAGCTCATCTAAGTAGAGGTT
1 CTCTAAGCAAAAGCTCAACAACTTTAAAAAT--TCATCTTGGAAAAGCTCCTCTCAGCAGAGGCT
* * * * *
11083952 CAACAAC-TTAAAAATCTCAT-ATGAAAAAG-T-TTCTCTAAGC-AGAGTCTCAATAACTTT-AA
64 CAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCATCTC-AA-CAAAAG-CTTAACAACTTTAAA
* * *
11084011 AACTCATCATCCTGAAAAAGCTCCTCTAAGCAAATGTTCAACAACTTTAAAAATCTTATCTGGAA
125 AACTCATC-T--TGAAAAAGCTCCTCTAAGCAAATGCTCAACAACTTTAAAAATCTCATCTGAAA
11084076 AAGCT
187 AAGCT
* * * *
11084081 CCTCTAAGCAGAGGCTCAACAACTTTTAAAATTTATCTTGGAAAAGCTCCTCTCAGCAGAGGCTC
1 -CTCTAAGCAAAAGCTCAACAACTTTAAAAATTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTC
* *
11084146 AACAACTTT-AAAATCTCATCTTGGAAAAGCTCCTCTCAACAAAAGCTTAACAACTTTAAAAACT
65 AACAACTTTAAAAAT-TCATCTTGAAAAAGCTCATCTCAACAAAAGCTTAACAACTTTAAAAACT
* *
11084210 CATCTTG-AAAAGCTCTTCTCAGCATAA-GCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCT
129 CATCTTGAAAAAGCTCCTCTAAGCA-AATGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCT
* * *
11084272 -T-TCAGCAAAAGCTTAACAACTTTAAAAATTCATCTTGGAAAAGC-CCTTCTCAGCATAGGCTC
1 CTCTAAGCAAAAGCTCAACAACTTTAAAAATTCATCTTGGAAAAGCTCC-TCTCAGCAGAGGCTC
* * * * * *
11084334 AACAACTTTAAAAATTCATTTTGAAAAAGCTCATCTTAACAGAGGCTTAACAACTTTAAAGATTC
65 AACAACTTTAAAAATTCATCTTGAAAAAGCTCATCTCAACAAAAGCTTAACAACTTTAAAAACTC
11084399 ATCTT
130 ATCTT
11084404 TTCTCGAAAC
Statistics
Matches: 274, Mismatches: 38, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
187 2 0.01
188 107 0.39
189 6 0.02
190 4 0.01
191 42 0.15
192 4 0.01
193 42 0.15
194 21 0.08
195 42 0.15
196 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (191 bp):
CTCTAAGCAAAAGCTCAACAACTTTAAAAATTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCA
ACAACTTTAAAAATTCATCTTGAAAAAGCTCATCTCAACAAAAGCTTAACAACTTTAAAAACTCA
TCTTGAAAAAGCTCCTCTAAGCAAATGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCT
Found at i:11095075 original size:16 final size:16
Alignment explanation
Indices: 11095054--11095084 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11095044 ACACGTGTGA
*
11095054 ATTTTTTCTTTTTTTT
1 ATTTTTTATTTTTTTT
11095070 ATTTTTTATTTTTTT
1 ATTTTTTATTTTTTT
11095085 GAAAGTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (16 bp):
ATTTTTTATTTTTTTT
Found at i:11095499 original size:43 final size:43
Alignment explanation
Indices: 11095452--11095534 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
11095442 TTTAAAATGA
11095452 TACCAATTAACTATGTGTTTTCCATTGATTTTAATAAAAATAG
1 TACCAATTAACTATGTGTTTTCCATTGATTTTAATAAAAATAG
*
11095495 TACCAATTAATTATGTGTTTTCCATTGATTTTAATAAAAA
1 TACCAATTAACTATGTGTTTTCCATTGATTTTAATAAAAA
11095535 CAGTCTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.43
Consensus pattern (43 bp):
TACCAATTAACTATGTGTTTTCCATTGATTTTAATAAAAATAG
Found at i:11097208 original size:23 final size:22
Alignment explanation
Indices: 11097175--11097217 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11097165 AAGCTTTCTA
*
11097175 GGATTCGAATCCCAGATTTTTTG
1 GGATTCAAATCCCAG-TTTTTTG
*
11097198 GGATTCAAATCCTAGTTTTT
1 GGATTCAAATCCCAGTTTTT
11097218 CAACCGGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (22 bp):
GGATTCAAATCCCAGTTTTTTG
Found at i:11097430 original size:25 final size:27
Alignment explanation
Indices: 11097372--11097439 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
11097362 TCAGAATAGG
* *
11097372 AAAAAAGAAGAAGAATCAGGAAAAAGA
1 AAAAAAGAAAAAAAATCAGGAAAAAGA
* *
11097399 AAGAAAGAAAAAAAAT-A-GAAAAATA
1 AAAAAAGAAAAAAAATCAGGAAAAAGA
11097424 AAAAAAGAAAGAAAAA
1 AAAAAAGAAA-AAAAA
11097440 AAATATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 16 0.46
26 6 0.17
27 13 0.37
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (27 bp):
AAAAAAGAAAAAAAATCAGGAAAAAGA
Found at i:11097432 original size:29 final size:30
Alignment explanation
Indices: 11097393--11097453 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
11097383 AGAATCAGGA
11097393 AAAAGAAAGAAAGAAAAAAAATAGAAAAAT
1 AAAAGAAAGAAAGAAAAAAAATAGAAAAAT
* *
11097423 AAAA-AAAGAAAGAAAAAAAATATAATAAT
1 AAAAGAAAGAAAGAAAAAAAATAGAAAAAT
11097452 AA
1 AA
11097454 TAATAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (30 bp):
AAAAGAAAGAAAGAAAAAAAATAGAAAAAT
Found at i:11097450 original size:3 final size:3
Alignment explanation
Indices: 11097444--11097479 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
11097434 GAAAAAAAAT
11097444 ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
11097480 CAAAATGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11099116 original size:37 final size:38
Alignment explanation
Indices: 11099068--11099177 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 38
11099058 TGTGTTTGAT
11099068 ATAATAAGATAATACATGCATTCTATCTCATGCATATC
1 ATAATAAGATAATACATGCATTCTATCTCATGCATATC
* * * * * * *
11099106 TTAAT-AGATAATACGTGTATTCCATTTCGTGCACATC
1 ATAATAAGATAATACATGCATTCTATCTCATGCATATC
* * *
11099143 ATAATAAGATTATACATACATT-TCATCTCAAGCAT
1 ATAATAAGATAATACATGCATTCT-ATCTCATGCAT
11099178 CGATAGTACA
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
37 30 0.57
38 23 0.43
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (38 bp):
ATAATAAGATAATACATGCATTCTATCTCATGCATATC
Found at i:11099284 original size:38 final size:37
Alignment explanation
Indices: 11099179--11099289 Score: 95
Period size: 38 Copynumber: 3.0 Consensus size: 37
11099169 CTCAAGCATC
*
11099179 GATAGTACAA-GCACCTTATCTCATGTACATCTCAATA
1 GATAGTA-AATGCATCTTATCTCATGTACATCTCAATA
* * * * *
11099216 AATA-AAACATGCAT-TCCATCCCATGCACATCAT-AATGA
1 GATAGTAA-ATGCATCT-TATCTCATGTACATC-TCAAT-A
11099254 GATAGTAAATGCATCTTATCTCATGTACATCTCAAT
1 GATAGTAAATGCATCTTATCTCATGTACATCTCAAT
11099290 GGTAGTGTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
35 1 0.02
36 3 0.05
37 22 0.40
38 26 0.47
39 3 0.05
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (37 bp):
GATAGTAAATGCATCTTATCTCATGTACATCTCAATA
Found at i:11103718 original size:9 final size:9
Alignment explanation
Indices: 11103704--11103743 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
11103694 AGAAAGTAAG
11103704 AAAAAAGAA
1 AAAAAAGAA
11103713 AAAAAAGGAAA
1 AAAAAA-G-AA
11103724 GAAAAAAGAA
1 -AAAAAAGAA
11103734 AAAAAAGAA
1 AAAAAAGAA
11103743 A
1 A
11103744 TAAATGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 16 0.57
10 3 0.11
11 3 0.11
12 6 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:11103725 original size:21 final size:21
Alignment explanation
Indices: 11103701--11103740 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11103691 ATGAGAAAGT
11103701 AAGAAAAAAGAAAAAAAAGGA
1 AAGAAAAAAGAAAAAAAAGGA
11103722 AAGAAAAAAGAAAAAAAAG
1 AAGAAAAAAGAAAAAAAAG
11103741 AAATAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAGAAAAAAAAGGA
Found at i:11103743 original size:20 final size:20
Alignment explanation
Indices: 11103696--11103743 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
11103686 AAAGAATGAG
*
11103696 AAAGTAAGAAAAAAGAAAAA
1 AAAGAAAGAAAAAAGAAAAA
11103716 AAAGGAAAGAAAAAAGAAAAA
1 AAA-GAAAGAAAAAAGAAAAA
11103737 AAAGAAA
1 AAAGAAA
11103744 TAAATGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAAAGAAAAA
Found at i:11103909 original size:33 final size:33
Alignment explanation
Indices: 11103867--11103941 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
11103857 ATCTTTTCTG
*
11103867 TGGTGATATCCAAAGACATTTGCATTCATTTAA
1 TGGTGATATCCAAAGACATTTGCATTCACTTAA
** **
11103900 TGGTGATATCTGAAGACATTTGCATTCACTTGG
1 TGGTGATATCCAAAGACATTTGCATTCACTTAA
11103933 TGGTGATAT
1 TGGTGATAT
11103942 TCGAGTATCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (33 bp):
TGGTGATATCCAAAGACATTTGCATTCACTTAA
Found at i:11104369 original size:46 final size:46
Alignment explanation
Indices: 11104046--11104434 Score: 213
Period size: 46 Copynumber: 8.4 Consensus size: 46
11104036 GTATCCAAGC
* * * *
11104046 TTTTAAATTTATTTTCAAAAGTTGTTGAACATTTACTTAAAGAAA-C
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCTTTACTTAAA-AAAGT
* * **
11104092 TTTTAAATTTATTTTCAAAAGTTATTGAGCATTTGCTTAAAGCAGT
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCTTTACTTAAAAAAGT
* * * **
11104138 TTTTAAATTTGTTTTCAAAAGTTGTCGAGCCTTTAC--ATCAAAGCT
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCTTTACTTAAAAAAG-T
* * * ** ** *
11104183 TTTCACAATTAGATTTTTAAAA-TTATCAAATCTTTGCAC-T--AAAATT
1 TTTTA-AATT-TATTTTCAAAAGTTATTGAGCCTTT--ACTTAAAAAAGT
** * * * *
11104229 TTTTAAGATGAGATTTT-TAAAGTTATTAAGCCTTTACTTAAATGAA-C
1 TTTTAA-AT-TTATTTTCAAAAGTTATTGAGCCTTTACTTAAA-AAAGT
* * * * **
11104276 TGTTAAATTTACTTTCAAAAGTT-GTGAAGCCTTTGCTTAAATGAGT
1 TTTTAAATTTATTTTCAAAAGTTATTG-AGCCTTTACTTAAAAAAGT
* *
11104322 TTTTAAATTTATTTTTAAAAGTTATTGAGCCATTACTTAAAAAAGT
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCTTTACTTAAAAAAGT
* * * * * **
11104368 TTTTAAAATGTGTTTTCAAAAGTTGTTAAGTCTTTACTTAAAGGAGT
1 TTTT-AAATTTATTTTCAAAAGTTATTGAGCCTTTACTTAAAAAAGT
* *
11104415 TTATAAGTTTATTTTCAAAA
1 TTTTAAATTTATTTTCAAAA
11104435 ATTGTAAAGT
Statistics
Matches: 259, Mismatches: 65, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
44 5 0.02
45 17 0.07
46 178 0.69
47 55 0.21
48 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (46 bp):
TTTTAAATTTATTTTCAAAAGTTATTGAGCCTTTACTTAAAAAAGT
Found at i:11104374 original size:92 final size:91
Alignment explanation
Indices: 11104046--11104434 Score: 276
Period size: 92 Copynumber: 4.2 Consensus size: 91
11104036 GTATCCAAGC
* *
11104046 TTTTAAATTTATTTTCAAAAGTTGTTGA-ACATTTACTTAAAGAAACTTTTAAATTTATTTTCAA
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCA-TTACTTAAAGAAACTTTTAAATTTATTTTCAA
* *
11104110 AAGTTATTG-AGCATTTGCTTAAAGCAGT
65 AAGTT-GTGAAGCCTTTGCTTAAAG-AGT
* * * * * *
11104138 TTTTAAATTTGTTTTCAAAAGTTGTCGAGCCTTTACATCAAAG---CTTTTCACAATTAGATTTT
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCATTAC-TTAAAGAAACTTTT-A-AATT-TATTTT
* * * ** * *
11104200 TAAAA-TTATCAAATCTTTGCACTAAA-ATT
62 CAAAAGTTGTGAAGCCTTTGC-TTAAAGAGT
** * * * * *
11104229 TTTTAAGATGAGATTTT-TAAAGTTATTAAGCCTTTACTTAAATG-AACTGTTAAATTTACTTTC
1 TTTTAA-AT-TTATTTTCAAAAGTTATTGAGCCATTACTTAAA-GAAACTTTTAAATTTATTTTC
11104292 AAAAGTTGTGAAGCCTTTGCTTAAATGAGT
63 AAAAGTTGTGAAGCCTTTGCTTAAA-GAGT
* * * *
11104322 TTTTAAATTTATTTTTAAAAGTTATTGAGCCATTACTTAAA-AAAGTTTTTAAAATGTGTTTTCA
1 TTTTAAATTTATTTTCAAAAGTTATTGAGCCATTACTTAAAGAAA-CTTTT-AAATTTATTTTCA
* * *
11104386 AAAGTTGTTAAGTCTTTACTTAAAGGAGT
64 AAAGTTGTGAAGCCTTTGCTTAAA-GAGT
* *
11104415 TTATAAGTTTATTTTCAAAA
1 TTTTAAATTTATTTTCAAAA
11104435 ATTGTAAAGT
Statistics
Matches: 229, Mismatches: 49, Indels: 37
0.73 0.16 0.12
Matches are distributed among these distances:
90 5 0.02
91 33 0.14
92 103 0.45
93 84 0.37
94 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (91 bp):
TTTTAAATTTATTTTCAAAAGTTATTGAGCCATTACTTAAAGAAACTTTTAAATTTATTTTCAAA
AGTTGTGAAGCCTTTGCTTAAAGAGT
Found at i:11105957 original size:20 final size:21
Alignment explanation
Indices: 11105934--11105980 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
11105924 AAGAAAAAAA
11105934 AAAGAAAGAAAA-AGTGAAGG-
1 AAAGAAAGAAAAGA-TGAAGGT
11105954 AAAGAAAGAAAAGATGAAGGT
1 AAAGAAAGAAAAGATGAAGGT
11105975 AAAGAA
1 AAAGAA
11105981 CGATAGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.06
Consensus pattern (21 bp):
AAAGAAAGAAAAGATGAAGGT
Found at i:11107445 original size:17 final size:17
Alignment explanation
Indices: 11107412--11107444 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11107402 AGATTTTCAT
11107412 CATTTTCTTTAATAAAA
1 CATTTTCTTTAATAAAA
*
11107429 CATTTT-TTTTATAAAA
1 CATTTTCTTTAATAAAA
11107445 AAGAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
CATTTTCTTTAATAAAA
Found at i:11109569 original size:17 final size:17
Alignment explanation
Indices: 11109537--11109570 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11109527 TGGCTTTTTC
* *
11109537 TTTTTTAATAAGATAAT
1 TTTTTTAAAAAAATAAT
11109554 TTTTTTAAAAAAATAAT
1 TTTTTTAAAAAAATAAT
11109571 ATCAATTATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTTTAAAAAAATAAT
Found at i:11111192 original size:2 final size:2
Alignment explanation
Indices: 11111180--11111214 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11111170 CACTTTTGCT
*
11111180 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11111215 TTAAAGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11111347 original size:3 final size:3
Alignment explanation
Indices: 11111334--11111378 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
11111324 CCTTTAACCC
11111334 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11111379 TAGTAATCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11115649 original size:38 final size:38
Alignment explanation
Indices: 11115598--11115711 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 38
11115588 AAAAATAACA
11115598 CTTTATTTCAGTTTACATGATCTAAACCTAAGAATTGT
1 CTTTATTTCAGTTTACATGATCTAAACCTAAGAATTGT
* * * *
11115636 CTTTATTTCAGTTTACCTGATCTAAACCTAATACTCGT
1 CTTTATTTCAGTTTACATGATCTAAACCTAAGAATTGT
* *
11115674 CTTTATTTCAGTTTACACGATCTAAGCCTAAGAATTGT
1 CTTTATTTCAGTTTACATGATCTAAACCTAAGAATTGT
11115712 ATTTTCTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (38 bp):
CTTTATTTCAGTTTACATGATCTAAACCTAAGAATTGT
Found at i:11117960 original size:20 final size:20
Alignment explanation
Indices: 11117937--11117979 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
11117927 ACCCACACGG
11117937 CCACTTAAAACTATGCTCAC
1 CCACTTAAAACTATGCTCAC
*
11117957 CCACTTAAAACTATTCTCAC
1 CCACTTAAAACTATGCTCAC
11117977 CCA
1 CCA
11117980 AATCTCGTAT
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:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (20 bp):
CCACTTAAAACTATGCTCAC
Found at i:11119064 original size:2 final size:2
Alignment explanation
Indices: 11119052--11119085 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11119042 AAGCGACTTG
* *
11119052 AT AT AT GT AT AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11119086 GCATAAAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11124191 original size:53 final size:54
Alignment explanation
Indices: 11124057--11124192 Score: 152
Period size: 53 Copynumber: 2.5 Consensus size: 54
11124047 TTTAAAAGCT
* * * *
11124057 AAATTAATATTTCAAC-TTTTCTTTAAAATTTTGAAATTATTTTTTATTTTAGGAA
1 AAATTAATATTTCAACTTTTTC-CTCAAATTTAGAAATTA-TTTTTATTTAAGGAA
* * *
11124112 AAATTGATATTTCAACTTTTTTCTCAAATTTAGAAATTA-TTTTGTTTAAGGAA
1 AAATTAATATTTCAACTTTTTCCTCAAATTTAGAAATTATTTTTATTTAAGGAA
*
11124165 GAATTAATACTTT-AACTTTTTCCTCAAA
1 AAATTAATA-TTTCAACTTTTTCCTCAAA
11124193 AAAAAATTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 33 0.48
54 3 0.04
55 29 0.42
56 4 0.06
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (54 bp):
AAATTAATATTTCAACTTTTTCCTCAAATTTAGAAATTATTTTTATTTAAGGAA
Found at i:11125444 original size:19 final size:18
Alignment explanation
Indices: 11125416--11125455 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
11125406 AACTGATAAT
*
11125416 TAAAAAATTAGATAAATA
1 TAAAAAATTAAATAAATA
11125434 TAAATAAATTAAATAAATA
1 TAAA-AAATTAAATAAATA
11125453 TAA
1 TAA
11125456 TTATAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAAAATTAAATAAATA
Found at i:11125446 original size:9 final size:9
Alignment explanation
Indices: 11125413--11125451 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
11125403 AATAACTGAT
11125413 AATTAAA-A
1 AATTAAATA
*
11125421 AATTAGATA
1 AATTAAATA
11125430 AATATAAATA
1 AAT-TAAATA
11125440 AATTAAATA
1 AATTAAATA
11125449 AAT
1 AAT
11125452 ATAATTATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AATTAAATA
Found at i:11125500 original size:15 final size:16
Alignment explanation
Indices: 11125480--11125512 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11125470 CAAATAAACC
*
11125480 AAATAAAA-AAACTAA
1 AAATAAAATAAAATAA
11125495 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
11125511 AA
1 AA
11125513 TGAAGTAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:11126876 original size:6 final size:6
Alignment explanation
Indices: 11126862--11126935 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
11126852 TGAAATAAAC
* * *
11126862 AAAATT AAAAAT -AAAAT GAAAAT GAAAAT ATAAAAT --AAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT
* *
11126908 AGAAAAT -GAAAT TAAAAT AAAAA- AAAAA
1 A-AAAAT AAAAAT AAAAAT AAAAAT AAAAA
11126936 ACCTGCGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.07
5 14 0.25
6 29 0.51
7 10 0.18
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:11126891 original size:17 final size:17
Alignment explanation
Indices: 11126862--11126929 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
11126852 TGAAATAAAC
11126862 AAAATTAAAAATAAAATG
1 AAAA-TAAAAATAAAATG
11126880 AAAATGAAAATATAAAAT-
1 AAAAT-AAAA-ATAAAATG
11126898 -AAATAAAAATAGAAAATG
1 AAAATAAAAAT--AAAATG
*
11126916 -AAATTAAAATAAAA
1 AAAATAAAAATAAAA
11126930 AAAAAAACCT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 2 0.05
16 8 0.18
17 10 0.23
18 17 0.39
19 7 0.16
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAATAAAAATAAAATG
Found at i:11126895 original size:35 final size:33
Alignment explanation
Indices: 11126829--11126934 Score: 92
Period size: 35 Copynumber: 3.1 Consensus size: 33
11126819 CAAATCACTC
11126829 AATAAAAATAAAAATTAGTAAGATG-AAATA-AACAAA
1 AATAAAAATAAAAA-T-G-AA-ATGAAAATATAA-AAA
*
11126865 ATTAAAAAT-AAAATGAAAATGAAAATATAAAATA
1 AATAAAAATAAAAATG-AAATGAAAATATAAAA-A
* *
11126899 AATAAAAATAGAAAATGAAATTAAAATAAAAAAA
1 AATAAAAATA-AAAATGAAATGAAAATATAAAAA
11126933 AA
1 AA
11126935 AACCTGCGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
32 3 0.05
33 10 0.17
34 15 0.25
35 18 0.30
36 14 0.23
ACGTcount: A:0.73, C:0.01, G:0.07, T:0.20
Consensus pattern (33 bp):
AATAAAAATAAAAATGAAATGAAAATATAAAAA
Found at i:11126903 original size:28 final size:27
Alignment explanation
Indices: 11126870--11126933 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
11126860 ACAAAATTAA
11126870 AAATAAAAT-GAAAATGAAAATATAAAAT
1 AAATAAAATAGAAAATG-AAAT-TAAAAT
11126898 AAATAAAAATAGAAAATGAAATTAAAAT
1 AAAT-AAAATAGAAAATGAAATTAAAAT
*
11126926 AAAAAAAA
1 AAATAAAA
11126934 AAACCTGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 4 0.12
28 13 0.39
29 9 0.27
30 7 0.21
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (27 bp):
AAATAAAATAGAAAATGAAATTAAAAT
Found at i:11126925 original size:24 final size:24
Alignment explanation
Indices: 11126869--11126930 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
11126859 AACAAAATTA
* *
11126869 AAAATAAAATGAAAATGAAAATAT
1 AAAATAAAATAAAAATGAAAATAG
11126893 AAAAT-AAATAAAAATAGAAAAT-G
1 AAAATAAAATAAAAAT-GAAAATAG
*
11126916 AAATTAAAATAAAAA
1 AAAATAAAATAAAAA
11126931 AAAAAACCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 13 0.39
24 20 0.61
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAAATAAAAATGAAAATAG
Found at i:11126930 original size:17 final size:18
Alignment explanation
Indices: 11126863--11126930 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 18
11126853 GAAATAAACA
11126863 AAATTAAAA-ATAAAATG
1 AAATTAAAATATAAAATG
*
11126880 AAAATGAAAATATAAAAT-
1 -AAATTAAAATATAAAATG
* *
11126898 AAATAAAAATAGAAAATG
1 AAATTAAAATATAAAATG
11126916 AAATTAAAATA-AAAA
1 AAATTAAAATATAAAA
11126931 AAAAAACCTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
17 19 0.43
18 18 0.41
19 7 0.16
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATTAAAATATAAAATG
Found at i:11127827 original size:3 final size:3
Alignment explanation
Indices: 11127798--11127962 Score: 59
Period size: 3 Copynumber: 58.3 Consensus size: 3
11127788 CAAAAATTAA
* * * * * * * *
11127798 AAT AA- AAT AGT AAA AAT AAA AAA AAT AAT AAC ACT AAT TAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11127845 AAT -AT AAT AA- AAT AAT AAT AGT AAT AAT AGT AGT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * *
11127889 -AT ACT ATAT AAT -AT AAT -AT ATT AAT -AT ACT -AT ACT -AT GAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11127929 AAT AAAT AAT -AT AAT -AT CAT -AT AAT -AT AAT AAT A
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11127963 GTACACAAAC
Statistics
Matches: 120, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 24 0.20
3 88 0.73
4 8 0.07
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11127827 original size:21 final size:20
Alignment explanation
Indices: 11127789--11127827 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11127779 AAAAAAAATC
* *
11127789 AAAAATTAAAATAAAATAGT
1 AAAAATAAAAAAAAAATAGT
11127809 AAAAATAAAAAAAATAATA
1 AAAAATAAAAAAAA-AATA
11127828 ACACTAATTA
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:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAATAAAAAAAAAATAGT
Found at i:11127853 original size:5 final size:5
Alignment explanation
Indices: 11127843--11127959 Score: 78
Period size: 5 Copynumber: 22.2 Consensus size: 5
11127833 AATTATGATA
* *
11127843 ATAAT ATAAT AAAAT AATAAT AGTAAT AATAGT AGTAAT AAATAAT ATACTAT
1 ATAAT ATAAT ATAAT -ATAAT A-TAAT -ATAAT A-TAAT --ATAAT ATA--AT
* * *
11127896 ATAAT ATAAT AT-AT -TAAT ATACT ATACT ATGAT AATAA- ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT
*
11127944 ATCAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT A
11127960 ATAGTACACA
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
3 1 0.01
4 8 0.09
5 53 0.59
6 17 0.19
7 10 0.11
8 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:11127872 original size:12 final size:11
Alignment explanation
Indices: 11127843--11127962 Score: 88
Period size: 12 Copynumber: 10.8 Consensus size: 11
11127833 AATTATGATA
11127843 ATAAT-ATAAT
1 ATAATAATAAT
*
11127853 AAAATAATAAT
1 ATAATAATAAT
*
11127864 AGTAATAATAGT
1 A-TAATAATAAT
11127876 AGTAATAAATAAT
1 A-TAAT-AATAAT
*
11127889 ATACTATATAAT
1 ATAATA-ATAAT
11127901 ATAATATATTAAT
1 ATAATA-A-TAAT
* *
11127914 ATACT-ATACT
1 ATAATAATAAT
*
11127924 ATGATAATAA-
1 ATAATAATAAT
11127934 ATAAT-ATAAT
1 ATAATAATAAT
*
11127944 ATCAT-ATAAT
1 ATAATAATAAT
11127954 ATAATAATA
1 ATAATAATA
11127963 GTACACAAAC
Statistics
Matches: 88, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
9 4 0.05
10 27 0.31
11 14 0.16
12 29 0.33
13 14 0.16
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:11127872 original size:28 final size:26
Alignment explanation
Indices: 11127840--11127960 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 26
11127830 ACTAATTATG
*
11127840 ATAATAATATAATAAAATAATAATAGT
1 ATAATAATATAATAAAATAAT-ATACT
*
11127867 AATAATAGTAGTAAT-AAATAATATACT
1 -ATAATAATA-TAATAAAATAATATACT
* *
11127894 AT-ATAATATAATATATTAATATACT
1 ATAATAATATAATAAAATAATATACT
* *
11127919 ATACT-ATGATAAT-AAATAATATAAT
1 ATAATAAT-ATAATAAAATAATATACT
11127944 ATCATATAATATAATAA
1 AT-A-ATAATATAATAA
11127961 TAGTACACAA
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
24 4 0.05
25 30 0.40
26 9 0.12
27 10 0.13
28 18 0.24
29 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (26 bp):
ATAATAATATAATAAAATAATATACT
Found at i:11127952 original size:10 final size:9
Alignment explanation
Indices: 11127840--11127962 Score: 68
Period size: 8 Copynumber: 13.7 Consensus size: 9
11127830 ACTAATTATG
11127840 ATAATA-AT
1 ATAATATAT
*
11127848 ATAATA-AA
1 ATAATATAT
11127856 ATAATA-AT
1 ATAATATAT
11127864 AGTAATAATAGT
1 A-TAAT-ATA-T
11127876 AGTAATA-A-
1 A-TAATATAT
11127884 ATAATATACT
1 ATAATATA-T
11127894 AT-ATA-AT
1 ATAATATAT
11127901 ATAATATAT
1 ATAATATAT
11127910 -TAATATACT
1 ATAATATA-T
*
11127919 ATACTATGAT
1 ATAATAT-AT
11127929 AATAA-ATAAT
1 -ATAATAT-AT
11127939 ATAATATCAT
1 ATAATAT-AT
11127949 ATAATATA-
1 ATAATATAT
11127957 ATAATA
1 ATAATA
11127963 GTACACAAAC
Statistics
Matches: 95, Mismatches: 6, Indels: 28
0.74 0.05 0.22
Matches are distributed among these distances:
7 8 0.08
8 34 0.36
9 15 0.16
10 25 0.26
11 6 0.06
12 7 0.07
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAATATAT
Found at i:11127981 original size:50 final size:49
Alignment explanation
Indices: 11127878--11127982 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 49
11127868 ATAATAGTAG
* * * **
11127878 TAATAAATAATATACTATATAATATAATATATTAATATACTATACTATGA
1 TAATAAATAATATAC-ATATAATATAATATAATAATATACCAAACTAAAA
*
11127928 TAATAAATAATATA-ATATCATATAATATAATAATAGTACACAAACTAAAA
1 TAATAAATAATATACATATAATATAATATAATAATA-TAC-CAAACTAAAA
11127978 TAATA
1 TAATA
11127983 TACTATGCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 19 0.40
49 3 0.06
50 25 0.53
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (49 bp):
TAATAAATAATATACATATAATATAATATAATAATATACCAAACTAAAA
Found at i:11130488 original size:3 final size:3
Alignment explanation
Indices: 11130459--11130622 Score: 55
Period size: 3 Copynumber: 57.3 Consensus size: 3
11130449 CAAAAATTAA
* * * * * * * *
11130459 AAT AA- AAT AGT AAA AAT AAA AAA AAT AAT AAC ACT AAT TAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11130506 AAT -AT AAT AAAT AAT AAT AGT AAT AAT AGT AGT AAT AAAT AAT -AT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * *
11130551 ACT ATAT AAT -AT AAT -AT ATT AAT -AT ACT -AT ACT -AT GAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11130592 AAAT AAT -AT AAT -AT CAT -AT AAT -AT AAT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11130623 GTACACAAAC
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 22 0.18
3 86 0.72
4 11 0.09
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:11130488 original size:21 final size:20
Alignment explanation
Indices: 11130450--11130488 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11130440 AAAAAAAATC
* *
11130450 AAAAATTAAAATAAAATAGT
1 AAAAATAAAAAAAAAATAGT
11130470 AAAAATAAAAAAAATAATA
1 AAAAATAAAAAAAA-AATA
11130489 ACACTAATTA
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:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAATAAAAAAAAAATAGT
Found at i:11130514 original size:5 final size:5
Alignment explanation
Indices: 11130504--11130619 Score: 78
Period size: 5 Copynumber: 22.2 Consensus size: 5
11130494 AATTATGATA
*
11130504 ATAAT ATAAT A-AAT AATAAT AGTAAT AATAGT AGTAAT AAATAAT ATACTAT
1 ATAAT ATAAT ATAAT -ATAAT A-TAAT -ATAAT A-TAAT --ATAAT ATA--AT
* * *
11130556 ATAAT ATAAT AT-AT -TAAT ATACT ATACT ATGAT AATAA- ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT
*
11130604 ATCAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT A
11130620 ATAGTACACA
Statistics
Matches: 90, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
3 1 0.01
4 11 0.12
5 51 0.57
6 16 0.18
7 10 0.11
8 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:11130518 original size:12 final size:12
Alignment explanation
Indices: 11130501--11130620 Score: 77
Period size: 12 Copynumber: 9.6 Consensus size: 12
11130491 ACTAATTATG
11130501 ATAATAATATAAT
1 ATAATAA-ATAAT
11130514 A-AAT-AATAAT
1 ATAATAAATAAT
*
11130524 AGTAAT-AATAGT
1 A-TAATAAATAAT
11130536 AGTAATAAATAAT
1 A-TAATAAATAAT
* *
11130549 ATACTATATAAT
1 ATAATAAATAAT
*
11130561 ATAATATATTAAT
1 ATAATA-AATAAT
* *
11130574 ATACTATACT-AT
1 ATAATA-AATAAT
11130586 GATAATAAATAAT
1 -ATAATAAATAAT
11130599 ATAATATCATATAAT
1 ATAATA--A-ATAAT
11130614 ATAATAA
1 ATAATAA
11130621 TAGTACACAA
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
10 6 0.07
11 1 0.01
12 41 0.47
13 27 0.31
14 1 0.01
15 11 0.13
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:11130612 original size:10 final size:9
Alignment explanation
Indices: 11130501--11130622 Score: 68
Period size: 8 Copynumber: 13.7 Consensus size: 9
11130491 ACTAATTATG
11130501 ATAATA-AT
1 ATAATATAT
11130509 ATAATA-A-
1 ATAATATAT
11130516 ATAATA-AT
1 ATAATATAT
11130524 AGTAATAATAGT
1 A-TAAT-ATA-T
11130536 AGTAATA-A-
1 A-TAATATAT
11130544 ATAATATACT
1 ATAATATA-T
11130554 AT-ATA-AT
1 ATAATATAT
11130561 ATAATATAT
1 ATAATATAT
11130570 -TAATATACT
1 ATAATATA-T
*
11130579 ATACTATGAT
1 ATAATAT-AT
11130589 AATAA-ATAAT
1 -ATAATAT-AT
11130599 ATAATATCAT
1 ATAATAT-AT
11130609 ATAATATA-
1 ATAATATAT
11130617 ATAATA
1 ATAATA
11130623 GTACACAAAC
Statistics
Matches: 95, Mismatches: 4, Indels: 30
0.74 0.03 0.23
Matches are distributed among these distances:
7 15 0.16
8 27 0.28
9 15 0.16
10 25 0.26
11 6 0.06
12 7 0.07
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAATATAT
Found at i:11130641 original size:50 final size:49
Alignment explanation
Indices: 11130538--11130642 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 49
11130528 ATAATAGTAG
* * * **
11130538 TAATAAATAATATACTATATAATATAATATATTAATATACTATACTATGA
1 TAATAAATAATATAC-ATATAATATAATATAATAATATACCAAACTAAAA
*
11130588 TAATAAATAATATA-ATATCATATAATATAATAATAGTACACAAACTAAAA
1 TAATAAATAATATACATATAATATAATATAATAATA-TAC-CAAACTAAAA
11130638 TAATA
1 TAATA
11130643 TACTATGCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 19 0.40
49 3 0.06
50 25 0.53
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (49 bp):
TAATAAATAATATACATATAATATAATATAATAATATACCAAACTAAAA
Found at i:11131748 original size:175 final size:176
Alignment explanation
Indices: 11131255--11131769 Score: 465
Period size: 175 Copynumber: 2.9 Consensus size: 176
11131245 AAATGATCGA
* * * * *
11131255 GATGAAATC-GTGAGTCAAAAAAATGATCTAGACTGAGCCAAGATTA-AATGATTG-GGACAAAA
1 GATGAAACCAGTGAGTCAAAAAAATAATCTAAACTGAACCGAGA-TAGAATGA-TGAGGACAAAA
* * * * * * * * *
11131317 CCACGAGTCTGAGAGATAAAGCT-ACTAGGATCAAGTCAAGATCGAAGATGAATGACTAAAACGA
64 TCACGAGTTTGAAAGATAAAG-TGACTAGGACCAAGTCAAGGTCAAAGATGAATGACCAGAATGA
* * * * *
11131381 AA-CTGCTAGTCAAGAAAATGATTTGAACTGAGTCAAGATCGAATAACTGG
128 AATC-GC-AGTCAAAAAAATGATCTAAACTGAGTCGAGATCGAATAACTAG
** * * * ** * * * *
11131431 GATGAAACCA-CAAGTCAAAAAAATTATCTGAACTAAATTGAAATCGAATGA-CAGGGATAAAAT
1 GATGAAACCAGTGAGTCAAAAAAATAATCTAAACTGAACCGAGATAGAATGATGA-GGACAAAAT
* * * * * *
11131494 CACAAGTTTGAAAGATAAAATGACCAGGACCAAGTCGAGGTCAAAGATGAATGATC-GAGATAAA
65 CACGAGTTTGAAAGATAAAGTGACTAGGACCAAGTCAAGGTCAAAGATGAATGACCAGA-ATGAA
** * * *
11131558 ATTACAGTAAAAAAAATGATCTAAACTGAGCCGAGATCGAATGACTAG
129 ATCGCAGTCAAAAAAATGATCTAAACTGAGTCGAGATCGAATAACTAG
11131606 GATGAAA-CAGTGAGTCAAAAAAATAATCTAAACTGAACCGAGATAGAATGATGAGG-CAAAATC
1 GATGAAACCAGTGAGTCAAAAAAATAATCTAAACTGAACCGAGATAGAATGATGAGGACAAAATC
* * *
11131669 ACGAGTTTAAAAGATAAAGTGACTAAGACCTAGTCAAGGTCAAAGATGAATGACCAGAATGAAAT
66 ACGAGTTTGAAAGATAAAGTGACTAGGACCAAGTCAAGGTCAAAGATGAATGACCAGAATGAAAT
* **
11131734 CGCGAGTCAAAAAAAAGATCTTGACTGAGTCGAGAT
131 CGC-AGTCAAAAAAATGATCTAAACTGAGTCGAGAT
11131770 TGGATAAGTA
Statistics
Matches: 261, Mismatches: 67, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
174 62 0.24
175 108 0.41
176 91 0.35
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (176 bp):
GATGAAACCAGTGAGTCAAAAAAATAATCTAAACTGAACCGAGATAGAATGATGAGGACAAAATC
ACGAGTTTGAAAGATAAAGTGACTAGGACCAAGTCAAGGTCAAAGATGAATGACCAGAATGAAAT
CGCAGTCAAAAAAATGATCTAAACTGAGTCGAGATCGAATAACTAG
Found at i:11138320 original size:18 final size:19
Alignment explanation
Indices: 11138283--11138321 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11138273 AAGGAGAAAG
11138283 AAAAGAAAATCAAAAGAAT
1 AAAAGAAAATCAAAAGAAT
* *
11138302 AAAATAAAAT-AAAATAAT
1 AAAAGAAAATCAAAAGAAT
11138320 AA
1 AA
11138322 CACTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAGAAAATCAAAAGAAT
Found at i:11138339 original size:3 final size:3
Alignment explanation
Indices: 11138299--11138378 Score: 62
Period size: 3 Copynumber: 28.3 Consensus size: 3
11138289 AAATCAAAAG
* * * *
11138299 AAT AA- AAT AA- AAT AA- AAT AAT AAC ACT AAT GAT GAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11138343 AAT AA- AAT AAT AAT AGT AAT AAT AGT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11138379 TAACATACTA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 10 0.16
3 52 0.84
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11138346 original size:5 final size:5
Alignment explanation
Indices: 11138336--11138454 Score: 75
Period size: 5 Copynumber: 23.2 Consensus size: 5
11138326 AATGATGATA
* * *
11138336 ATAAT ATAAT A-AA- ATAAT AATAGT AATAAT AGTAGT AATAAT ATAAC
1 ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT A-TAAT -ATAAT ATAAT
* * * *
11138383 ATACTAT ATAAT ATAAT AT-AT -TAAT ATACT ATACT ATGAT AATAAG
1 ATA--AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
*
11138429 ATAAT ATAAT ATCAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
11138455 ATAGTACACA
Statistics
Matches: 90, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
3 2 0.02
4 8 0.09
5 57 0.63
6 18 0.20
7 5 0.06
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:11138375 original size:37 final size:34
Alignment explanation
Indices: 11138300--11138381 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
11138290 AATCAAAAGA
* *
11138300 ATAA-AATAAAATAAAATAATAACACTAATGATG
1 ATAATAATATAATAAAATAATAACACTAATAATG
* *
11138333 ATAATAATATAATAAAATAATAATAGTAATAATAG
1 ATAATAATATAATAAAATAATAACACTAATAAT-G
11138368 TAGTAATAATATAA
1 -A-TAATAATATAA
11138382 CATACTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 24 0.59
35 1 0.02
36 1 0.02
37 11 0.27
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (34 bp):
ATAATAATATAATAAAATAATAACACTAATAATG
Found at i:11142120 original size:11 final size:11
Alignment explanation
Indices: 11142106--11142151 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
11142096 AGAAATTTTC
11142106 AAAAAATTCTT
1 AAAAAATTCTT
11142117 -AAAAATTC-T
1 AAAAAATTCTT
* *
11142126 AAAAATTTTTT
1 AAAAAATTCTT
11142137 AAAAAATT-TT
1 AAAAAATTCTT
11142147 AAAAA
1 AAAAA
11142152 TTTTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 1 0.03
10 21 0.70
11 8 0.27
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAAAATTCTT
Found at i:11142128 original size:9 final size:9
Alignment explanation
Indices: 11142107--11142548 Score: 130
Period size: 9 Copynumber: 46.6 Consensus size: 9
11142097 GAAATTTTCA
11142107 AAAAATTCTT
1 AAAAATT-TT
*
11142117 AAAAATTCT
1 AAAAATTTT
11142126 AAAAATTTTTT
1 AAAAA--TTTT
11142137 AAAAAATTTT
1 -AAAAATTTT
11142147 AAAAATTTT
1 AAAAATTTT
*
11142156 -ATAATTTT
1 AAAAATTTT
11142164 AAAAATTTT
1 AAAAATTTT
11142173 AAAAATTTT
1 AAAAATTTT
* *
11142182 -ATAACTTT
1 AAAAATTTT
11142190 AAAAATTTT
1 AAAAATTTT
11142199 AAAAATTTTT
1 AAAAA-TTTT
*
11142209 AAAAATTTAA
1 AAAAATTT-T
**
11142219 AAAAATTAAA
1 AAAAATT-TT
*
11142229 AAAAATTCAAAT
1 AAAAATT---TT
* *
11142241 ACAAATTCTA
1 AAAAATT-TT
*
11142251 AAAAATTTCA
1 AAAAATTT-T
**
11142261 AAAAATTCC
1 AAAAATTTT
11142270 AAAAATTTTTT
1 AAAAA--TTTT
**
11142281 AAAAACTATAAA
1 AAAAA-T-T-TT
**
11142293 AAAAATCTAA
1 AAAAAT-TTT
11142303 AAAAATTTT
1 AAAAATTTT
**
11142312 GAAATTTTTTT
1 -AAA-AATTTT
* *
11142323 TAAAATTCT
1 AAAAATTTT
*
11142332 AACAATTTTTT
1 AA-AA-ATTTT
* *
11142343 CACAAATTCT
1 -AAAAATTTT
* *
11142353 AATAATTCTA
1 AAAAATT-TT
11142363 AAATAATTTT
1 AAA-AATTTT
*
11142373 AGAAAA-TTC
1 A-AAAATTTT
*
11142382 AAAAAATTT
1 AAAAATTTT
*
11142391 AAAAA-ATT
1 AAAAATTTT
*
11142399 AAAAA-ATT
1 AAAAATTTT
*
11142407 -AAAATTCTAA
1 AAAAATT-T-T
11142417 AAAAATTTT
1 AAAAATTTT
*
11142426 AAAAAATTT
1 AAAAATTTT
*
11142435 AAAATTTTT
1 AAAAATTTT
11142444 AAAAA--TT
1 AAAAATTTT
**
11142451 AAAAAAATT
1 AAAAATTTT
*
11142460 -AAGATTTT
1 AAAAATTTT
11142468 GAAAAATTTT
1 -AAAAATTTT
11142478 AAAATATTCTT
1 AAAA-ATT-TT
*
11142489 AAAACTTTT
1 AAAAATTTT
*
11142498 AAAAATTTA
1 AAAAATTTT
**
11142507 AAAAATACT
1 AAAAATTTT
*
11142516 -AAATTTTCT
1 AAAAATTT-T
*
11142525 AAAAATTCT
1 AAAAATTTT
*
11142534 AGAAAATTGT
1 A-AAAATTTT
11142544 AAAAA
1 AAAAA
11142549 ATTCAAAAAA
Statistics
Matches: 325, Mismatches: 70, Indels: 75
0.69 0.15 0.16
Matches are distributed among these distances:
7 11 0.03
8 36 0.11
9 119 0.37
10 100 0.31
11 40 0.12
12 19 0.06
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:11142173 original size:26 final size:26
Alignment explanation
Indices: 11142133--11142230 Score: 133
Period size: 26 Copynumber: 3.7 Consensus size: 26
11142123 TCTAAAAATT
11142133 TTTTAAAAAATTTTAAAAATTTTATAA
1 TTTT-AAAAATTTTAAAAATTTTATAA
11142160 TTTTAAAAATTTTAAAAATTTTATAA
1 TTTTAAAAATTTTAAAAATTTTATAA
* *
11142186 CTTTAAAAATTTTAAAAATTTTTAAAA
1 TTTTAAAAATTTTAAAAA-TTTTATAA
* **
11142213 ATTTAAAAAAATTAAAAA
1 TTTTAAAAATTTTAAAAA
11142231 AAATTCAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 39 0.60
27 26 0.40
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTAAAAATTTTAAAAATTTTATAA
Found at i:11142230 original size:17 final size:17
Alignment explanation
Indices: 11142107--11142221 Score: 113
Period size: 17 Copynumber: 6.3 Consensus size: 17
11142097 GAAATTTTCA
11142107 AAAAATTCTTAAAAATTCT
1 AAAAATT-TTAAAAATT-T
11142126 AAAAATTTTTTAAAAAATTTT
1 AAAAA--TTTT-AAAAA-TTT
* *
11142147 AAAAATTTTATAATTTT
1 AAAAATTTTAAAAATTT
11142164 AAAAATTTTAAAAATTT
1 AAAAATTTTAAAAATTT
* * *
11142181 TATAACTTTAAAAATTTT
1 AAAAATTTTAAAAA-TTT
11142199 AAAAATTTTTAAAAATTT
1 AAAAA-TTTTAAAAATTT
11142217 AAAAA
1 AAAAA
11142222 AATTAAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
17 29 0.36
18 17 0.21
19 17 0.21
20 2 0.03
21 13 0.16
22 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAAATTTTAAAAATTT
Found at i:11142338 original size:21 final size:22
Alignment explanation
Indices: 11142314--11142359 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
11142304 AAAATTTTGA
*
11142314 AATTTTTTTTA-AAATTCTAAC
1 AATTTTTTTCACAAATTCTAAC
*
11142335 AA-TTTTTTCACAAATTCTAAT
1 AATTTTTTTCACAAATTCTAAC
11142356 AATT
1 AATT
11142360 CTAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 7 0.33
21 13 0.62
22 1 0.05
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTTTTTCACAAATTCTAAC
Found at i:11142394 original size:8 final size:8
Alignment explanation
Indices: 11142383--11142510 Score: 69
Period size: 8 Copynumber: 14.6 Consensus size: 8
11142373 AGAAAATTCA
11142383 AAAAATTT
1 AAAAATTT
*
11142391 AAAAAATT
1 AAAAATTT
*
11142399 AAAAAATT
1 AAAAATTT
11142407 -AAAATTCT
1 AAAAATT-T
11142415 AAAAAAATTTT
1 --AAAAA-TTT
11142426 AAAAAATTT
1 -AAAAATTT
*
11142435 AAAATTTTT
1 AAAA-ATTT
*
11142444 AAAAATTA
1 AAAAATTT
*
11142452 AAAAAATT
1 AAAAATTT
* *
11142460 AAGATTTT
1 AAAAATTT
11142468 GAAAAATTTT
1 -AAAAA-TTT
11142478 AAAATATTCTT
1 AAAA-A-T-TT
*
11142489 AAAACTTTT
1 AAAA-ATTT
11142498 AAAAATTT
1 AAAAATTT
11142506 AAAAA
1 AAAAA
11142511 ATACTAAATT
Statistics
Matches: 95, Mismatches: 15, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
7 5 0.05
8 41 0.43
9 23 0.24
10 13 0.14
11 11 0.12
12 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (8 bp):
AAAAATTT
Found at i:11142414 original size:53 final size:52
Alignment explanation
Indices: 11142356--11142562 Score: 177
Period size: 53 Copynumber: 3.8 Consensus size: 52
11142346 AAATTCTAAT
11142356 AATTCTAAAATAATTTTAGAAAATTCAAAAAATTTAAAAAATTAAAAAATTAA
1 AATTCTAAAA-AATTTTAGAAAATTCAAAAAATTTAAAAAATTAAAAAATTAA
* * * *
11142409 AATTCTAAAAAAATTTTAAAAAATT-TAAAATTTTTAAAAATTAAAAAAATTAA
1 AATTCT-AAAAAATTTTAGAAAATTCAAAAAATTTAAAAAATT-AAAAAATTAA
* * * ** *
11142462 GATTTTGAAAAATTTTA-AAATATTCTTAAAACTTTTAAAAATTTAAAAAATACTAA
1 AATTCTAAAAAATTTTAGAAA-ATTC--AAAAAATTTAAAAAATTAAAAAAT--TAA
* * * *
11142518 ATTTTCT-AAAAATTCTAGAAAATTGTAAAAAATTCAAAAAATTAA
1 A-ATTCTAAAAAATTTTAGAAAATT-CAAAAAATTTAAAAAATTAA
11142563 GGGAACTTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
51 3 0.02
52 27 0.22
53 33 0.27
54 11 0.09
55 28 0.23
56 15 0.12
57 6 0.05
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (52 bp):
AATTCTAAAAAATTTTAGAAAATTCAAAAAATTTAAAAAATTAAAAAATTAA
Found at i:11142710 original size:18 final size:17
Alignment explanation
Indices: 11142687--11142726 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11142677 AAATTCAAAT
*
11142687 AAAAAATAACAAAATCTA
1 AAAAAAAAACAAAA-CTA
*
11142705 AAAAAAAAACTAAACTA
1 AAAAAAAAACAAAACTA
11142722 AAAAA
1 AAAAA
11142727 TGTTTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAAAAACAAAACTA
Found at i:11143068 original size:18 final size:20
Alignment explanation
Indices: 11143047--11143088 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
11143037 GAATGTTTAA
11143047 AATTTTATAA-ATA-AAAAT
1 AATTTTATAATATATAAAAT
*
11143065 AATTTTATAATTTATAAAAT
1 AATTTTATAATATATAAAAT
11143085 AATT
1 AATT
11143089 CATAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 2 0.10
20 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTATAATATATAAAAT
Found at i:11143098 original size:20 final size:20
Alignment explanation
Indices: 11143060--11143096 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
11143050 TTTATAAATA
*
11143060 AAAATAATTTTATAATTTAT
1 AAAATAATTTCATAATTTAT
11143080 AAAATAA-TTCATAATTT
1 AAAATAATTTCATAATTT
11143097 TAATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATAATTTCATAATTTAT
Found at i:11143244 original size:11 final size:10
Alignment explanation
Indices: 11143226--11143271 Score: 65
Period size: 11 Copynumber: 4.4 Consensus size: 10
11143216 TTTTATTAAA
11143226 TTTTAAAAAT
1 TTTTAAAAAT
11143236 TTTTAAAAAT
1 TTTTAAAAAT
11143246 ATTTTAAAAACT
1 -TTTTAAAAA-T
*
11143258 TTTTCAAAAT
1 TTTTAAAAAT
11143268 TTTT
1 TTTT
11143272 TTAGAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 15 0.45
11 17 0.52
12 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:11143301 original size:10 final size:9
Alignment explanation
Indices: 11143286--11143359 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
11143276 AATTATTTTG
11143286 AATTTTTAT
1 AATTTTTAT
*
11143295 AAGTTTTA-
1 AATTTTTAT
*
11143303 AATTTTTTT
1 AATTTTTAT
*
11143312 GAAGTTTTTAAA
1 -AA-TTTTT-AT
11143324 AATTTTTTAAT
1 AA-TTTTT-AT
11143335 AATTTTTAT
1 AATTTTTAT
11143344 AATTTTTGA-
1 AATTTTT-AT
11143353 AATTTTT
1 AATTTTT
11143360 GTGAAATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
8 6 0.11
9 23 0.43
10 8 0.15
11 16 0.30
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:11143310 original size:9 final size:9
Alignment explanation
Indices: 11143213--11143380 Score: 61
Period size: 10 Copynumber: 17.0 Consensus size: 9
11143203 TTTATAATTA
11143213 AAATTTTATT
1 AAATTTT-TT
**
11143223 AAATTTTAA
1 AAATTTTTT
*
11143232 AAATTTTTAA
1 AAATTTTT-T
*
11143242 AAATATTTTAA
1 AAAT-TTTT-T
*
11143253 AAACTTTTTCA
1 AAA-TTTTT-T
11143264 AAATTTTTTT
1 AAA-TTTTTT
11143274 AGAATTATTTT
1 A-AATT-TTTT
*
11143285 GAA-TTTTT
1 AAATTTTTT
*
11143293 ATAA-GTTTT
1 A-AATTTTTT
11143302 AAATTTTTTT
1 AAA-TTTTTT
* *
11143312 GAAGTTTTTAA
1 -AAATTTTT-T
11143323 AAATTTTTT
1 AAATTTTTT
*
11143332 AATAATTTTT
1 AA-ATTTTTT
*
11143342 ATAATTTTTG
1 A-AATTTTTT
11143352 AAATTTTTGT
1 AAATTTTT-T
*
11143362 GAAATTTTTG
1 -AAATTTTTT
11143372 AAATTTTTT
1 AAATTTTTT
11143381 TGAGTTTTTC
Statistics
Matches: 124, Mismatches: 20, Indels: 29
0.72 0.12 0.17
Matches are distributed among these distances:
8 6 0.05
9 32 0.26
10 46 0.37
11 39 0.31
12 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (9 bp):
AAATTTTTT
Found at i:11143381 original size:11 final size:11
Alignment explanation
Indices: 11143346--11143383 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11143336 ATTTTTATAA
11143346 TTTTTGAAATT
1 TTTTTGAAATT
*
11143357 TTTGTGAAA--
1 TTTTTGAAATT
11143366 TTTTTGAAATT
1 TTTTTGAAATT
11143377 TTTTTGA
1 TTTTTGA
11143384 GTTTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (11 bp):
TTTTTGAAATT
Found at i:11145483 original size:17 final size:17
Alignment explanation
Indices: 11145460--11145504 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
11145450 AGGAACTCTC
11145460 CTTGAATTTTCT-TTTTGA
1 CTTGAATTTT-TGTTTT-A
11145478 -TTGAATTTTTGTTTTA
1 CTTGAATTTTTGTTTTA
11145494 CTTGAATTTTT
1 CTTGAATTTTT
11145505 CCTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (17 bp):
CTTGAATTTTTGTTTTA
Done.