Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 257 of 332
Found at i:85824585 original size:53 final size:53
Alignment explanation
Indices: 85824505--85824613 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
85824495 AGACTTACTA
* * *
85824505 TCTTCAGTCTGCTCCACTGCGACTTCAGGGAGATAAGACTTGTTTTGATCTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTTTGATCTAC
*
85824558 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTTTTATCTAC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTTTGATCTAC
85824611 TCT
1 TCT
85824614 ACTGCAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTTTGATCTAC
Found at i:85824765 original size:190 final size:189
Alignment explanation
Indices: 85824441--85824940 Score: 820
Period size: 190 Copynumber: 2.6 Consensus size: 189
85824431 AGCTTTAGAG
* * * *
85824441 ATAAGATCTGTAACTTATAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGACTTACTAT
1 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGC-ACTTCAGGGAAATAAGATTTGCTAT
* * * *
85824506 CTTCAGTCTGCTCCACTGCGACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTTCAGTCTGCT
65 CTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGACTTGTTTTGATCTGCTCTTCAGTCTGCT
* *
85824571 CCACTACAACTTCAGGGAGATAAGACTTGTTTTTATCTACTCTACTGCAACTTCAGAGAA
130 CCACTACAACTTCAGAGAGATAAGACTTGTTTTAATCTACTCTACTGCAACTTCAGAGAA
* *
85824631 ATAAGATCTGTAATTTATAACTTCAATCTGTTCTACTGCGACTTCAGGGAAATAAGATTTGCTAT
1 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGC-ACTTCAGGGAAATAAGATTTGCTAT
* *
85824696 CTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGACTTTTTTTGATCTGCTCTTCAGTCTTCT
65 CTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGACTTGTTTTGATCTGCTCTTCAGTCTGCT
* *
85824761 CCACTACAACTTTAGAGAGATAAGACTTGTTTTAATCTATTCTACTGCAACTTCAGAGAA
130 CCACTACAACTTCAGAGAGATAAGACTTGTTTTAATCTACTCTACTGCAACTTCAGAGAA
85824821 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAGCTTCAGGGAAATAAGATTTGCTAT
1 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA-CTTCAGGGAAATAAGATTTGCTAT
*
85824886 CTTCAGTCTACTCCACTGCAACTTCAGAGAGTTGAGACTTGTTTTGATCTGCTCT
65 CTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGACTTGTTTTGATCTGCTCT
85824941 ACCGTAACTT
Statistics
Matches: 288, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
189 1 0.00
190 287 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (189 bp):
ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATAAGATTTGCTATC
TTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGACTTGTTTTGATCTGCTCTTCAGTCTGCTC
CACTACAACTTCAGAGAGATAAGACTTGTTTTAATCTACTCTACTGCAACTTCAGAGAA
Found at i:85824778 original size:53 final size:53
Alignment explanation
Indices: 85824695--85824798 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
85824685 AGATTTGCTA
* * * *
85824695 TCTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGACTTTTTTTGATCTGC
1 TCTTCAGTCTACTCCACTACAACTTCAGAGAGATAAGACTTGTTTTAATCTGC
* *
85824748 TCTTCAGTCTTCTCCACTACAACTTTAGAGAGATAAGACTTGTTTTAATCT
1 TCTTCAGTCTACTCCACTACAACTTCAGAGAGATAAGACTTGTTTTAATCT
85824799 ATTCTACTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (53 bp):
TCTTCAGTCTACTCCACTACAACTTCAGAGAGATAAGACTTGTTTTAATCTGC
Found at i:85824819 original size:94 final size:94
Alignment explanation
Indices: 85824479--85824940 Score: 332
Period size: 96 Copynumber: 4.8 Consensus size: 94
85824469 TGTTCCATTG
* * * * * * *
85824479 CAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCGACTTCAGGGAGATAAGAC
1 CAACTTCAGGGAGATAAGACTT-GT-T-TT-AATCTACTCTACTGCAACTTCAGAGAGATAAGAC
* *
85824544 TTGTTTTGATCTGCTCTTCAGTCTGCTCCACTA
62 TTATTTTGATCTGCTCTTCAGTCTTCTCCACTA
* *
85824577 CAACTTCAGGGAGATAAGACTTGTTTTTATCTACTCTACTGCAACTTCAGAGAAATAAGATCTGT
1 CAACTTCAGGGAGATAAGACTTGTTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGA-CT-T
* ** * * *
85824642 AATTT-A--T-AACTTCAATCTGT-TCTACTG
64 ATTTTGATCTGCTCTTCAGTCT-TCTCCACTA
* * * * * *
85824669 CGACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAGAC
1 CAACTTCAGGGAGATAAGACTTG-T-T-TT-AATCTACTCTACTGCAACTTCAGAGAGATAAGAC
*
85824734 TTTTTTTGATCTGCTCTTCAGTCTTCTCCACTA
62 TTATTTTGATCTGCTCTTCAGTCTTCTCCACTA
* * * *
85824767 CAACTTTAGAGAGATAAGACTTGTTTTAATCTATTCTACTGCAACTTCAGAGAAATAAGATCTGT
1 CAACTTCAGGGAGATAAGACTTGTTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGA-CT-T
* * * *
85824832 AATTT-AT-AG--CTTCAATCTGT-TCCACTG
64 ATTTTGATCTGCTCTTCAGTCT-TCTCCACTA
* * * * * * *
85824859 CAGCTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGAGAGTTGAGAC
1 CAACTTCAGGGAGATAAGACTTG-T-T-TT-AATCTACTCTACTGCAACTTCAGAGAGATAAGAC
*
85824924 TTGTTTTGATCTGCTCT
62 TTATTTTGATCTGCTCT
85824941 ACCGTAACTT
Statistics
Matches: 280, Mismatches: 61, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
92 65 0.23
93 4 0.01
94 65 0.23
95 22 0.08
96 66 0.24
97 4 0.01
98 54 0.19
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (94 bp):
CAACTTCAGGGAGATAAGACTTGTTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGACTTAT
TTTGATCTGCTCTTCAGTCTTCTCCACTA
Found at i:85836645 original size:127 final size:127
Alignment explanation
Indices: 85836435--85836752 Score: 422
Period size: 127 Copynumber: 2.5 Consensus size: 127
85836425 AACGAAAAAA
* * * * *
85836435 CGAAACCCAGCATGGTAGGACATGATTCCTCGAATTTCTAAACATCG-ACATTGCCTTGTTTTAG
1 CGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTGTTTTAG
* *
85836499 AATTTATAAAATACAAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCGGAAAT
66 AATTTAGAAAACACAAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCGGAAAT
* * * *
85836561 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACCTTGAACATTGCCTTGTTTTTG
1 CGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTGTTTTAG
* * * * * * *
85836626 AATTTGGAAAACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
66 AATTTAGAAAACACAAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCGGAAAT
* * * *
85836688 CAAAACCCAGCACGGTAGGGTACGATTTCCCGAATTTCCAAACATCAAACATTGCCTTTGTTTTA
1 CGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCC-TTGTTTTA
85836753 AGGAATTTTC
Statistics
Matches: 164, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
126 39 0.24
127 118 0.72
128 7 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (127 bp):
CGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTGTTTTAG
AATTTAGAAAACACAAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCGGAAAT
Found at i:85837249 original size:21 final size:20
Alignment explanation
Indices: 85837205--85837251 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
85837195 GATTTAAAAT
*
85837205 AAATAACATATAAAAATTTA
1 AAATAACATATAAAAATCTA
*
85837225 AAATAACATATAAAAGGTCTA
1 AAATAACATATAAAA-ATCTA
85837246 AAATAA
1 AAATAA
85837252 ATAATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAACATATAAAAATCTA
Found at i:85837262 original size:23 final size:21
Alignment explanation
Indices: 85837198--85837282 Score: 66
Period size: 23 Copynumber: 3.8 Consensus size: 21
85837188 ATAAAGTGAT
*
85837198 TTAAAATAAATAACATATAAAAAT
1 TTAAAATAAAT-A-ATAT-AAAAG
*
85837222 TTAAAATAACAT-ATA-AAAGG
1 TTAAAATAA-ATAATATAAAAG
85837242 TCTAAAATAAATAATATAAAAATG
1 T-TAAAATAAATAATAT-AAAA-G
*
85837266 TTAAAGTAAATAATATA
1 TTAAAATAAATAATATA
85837283 CATAAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
20 6 0.12
21 11 0.22
22 4 0.08
23 17 0.33
24 11 0.22
25 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (21 bp):
TTAAAATAAATAATATAAAAG
Found at i:85838025 original size:25 final size:26
Alignment explanation
Indices: 85837996--85838060 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
85837986 GACTAAGTTG
*
85837996 AAATCAAAATAGAATTAAAA-GTATA
1 AAATCAAAATAGAATTAAAACGCATA
*
85838021 AAATCTAAAT-G--TTAAAACCGCATA
1 AAATCAAAATAGAATTAAAA-CGCATA
85838045 AAGATCAAAATAGAAT
1 AA-ATCAAAATAGAAT
85838061 GCTCGCGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
22 6 0.19
24 7 0.23
25 16 0.52
26 1 0.03
28 1 0.03
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (26 bp):
AAATCAAAATAGAATTAAAACGCATA
Found at i:85838737 original size:8 final size:8
Alignment explanation
Indices: 85838724--85838756 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
85838714 TTCGTAATAG
85838724 AAAATAAA
1 AAAATAAA
85838732 AAAAT-AA
1 AAAATAAA
85838739 AAAATAAA
1 AAAATAAA
85838747 AAAATGAAA
1 AAAAT-AAA
85838756 A
1 A
85838757 TGAAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 12 0.52
9 4 0.17
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:85838762 original size:15 final size:15
Alignment explanation
Indices: 85838719--85838763 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
85838709 ATAAATTCGT
85838719 AATAGAAAATAAAAA
1 AATAGAAAATAAAAA
*
85838734 AATAAAAAATAAAAA
1 AATAGAAAATAAAAA
85838749 AAT-GAAAATGAAAAA
1 AATAGAAAAT-AAAAA
85838764 TGGAAAGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (15 bp):
AATAGAAAATAAAAA
Found at i:85841243 original size:31 final size:31
Alignment explanation
Indices: 85841203--85841275 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
85841193 AACTATGAAA
*
85841203 ATTTTTATTTTAGTCACAAACGTTTTAGATT
1 ATTTTTATTTTAGTCACAAACGTTTTAGATC
* ** * **
85841234 ATTTCTATTTCGGTCGCTCACGTTTTAGATC
1 ATTTTTATTTTAGTCACAAACGTTTTAGATC
85841265 ATTTTTATTTT
1 ATTTTTATTTT
85841276 GGCCACTCTC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (31 bp):
ATTTTTATTTTAGTCACAAACGTTTTAGATC
Found at i:85841719 original size:24 final size:23
Alignment explanation
Indices: 85841682--85841751 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
85841672 ACTTTTTTAT
*
85841682 AAAAATATTTAAAAATTTAAAAG
1 AAAAATATTAAAAAATTTAAAAG
*
85841705 AAAAATATATAAAAAATTTAAAAT
1 AAAAATAT-TAAAAAATTTAAAAG
* * *
85841729 AAAAGAAATTATAAAATATAAAA
1 AAAA-ATATTAAAAAATTTAAAA
85841752 ATAGATGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
23 8 0.20
24 29 0.73
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (23 bp):
AAAAATATTAAAAAATTTAAAAG
Found at i:85841753 original size:16 final size:15
Alignment explanation
Indices: 85841711--85841753 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
85841701 AAAGAAAAAT
85841711 ATATAAAAAATTTAAA
1 ATAT-AAAAATTTAAA
*
85841727 ATAAAAGAAATTATAAA
1 ATATAA-AAATT-TAAA
85841744 ATATAAAAAT
1 ATATAAAAAT
85841754 AGATGTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 12 0.52
17 9 0.39
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
ATATAAAAATTTAAA
Found at i:85842355 original size:49 final size:49
Alignment explanation
Indices: 85842279--85842386 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
85842269 TCAATTCAAG
* * * * *
85842279 GTGGTTATACGGTCATGGGTTGAAGTATAACTA-GGGCTCCC-AGTTGACA
1 GTGGTTATGCGGTCACGAGTTGAAGTATAAC-ACGAGC-CCCTAGTTAACA
* *
85842328 GTGGTTATGTGGTCACGAGTTGGAGTATAACACGAGCCCCTAGTTAACA
1 GTGGTTATGCGGTCACGAGTTGAAGTATAACACGAGCCCCTAGTTAACA
85842377 GTGGTTATGC
1 GTGGTTATGC
85842387 AATCTCGGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.08
49 45 0.92
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (49 bp):
GTGGTTATGCGGTCACGAGTTGAAGTATAACACGAGCCCCTAGTTAACA
Found at i:85845020 original size:84 final size:84
Alignment explanation
Indices: 85844932--85845196 Score: 194
Period size: 84 Copynumber: 3.0 Consensus size: 84
85844922 AAGACAACTT
85844932 AAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTTGTTAACAATAAAGAACACATTTAGG
1 AAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTTGTTAACAATAAAGAACACATTTAGG
85844997 TTTTTCTTTAATGATAACG
66 TTTTTCTTTAATGATAACG
** * ** * ** * * * *
85845016 AAGGATGGAAACCCGACAGAATAATTTTTACT-ACAACTCCTTTCTATTTAATAAACATAAAGAA
1 AAGGAAAG-AA-GCTTC--TATAAGCTTGACTAACAGCT-CTTT-T-GTT-A-ACA-ATAAAGAA
** ** * ** * * *
85845080 -GGATTTAAGAATTTAC-CAAAAGACAACTT
56 CACATTT-AGGTTTTTCTTTAATGATAAC-G
*
85845109 AAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTTGTTAACAATAAAGAACACCTTTAGG
1 AAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTTGTTAACAATAAAGAACACATTTAGG
85845174 TTTTTCTTTAATGATAACG
66 TTTTTCTTTAATGATAACG
85845193 AAGG
1 AAGG
85845197 CAACCAGAGA
Statistics
Matches: 121, Mismatches: 45, Indels: 30
0.62 0.23 0.15
Matches are distributed among these distances:
84 24 0.20
85 14 0.12
86 3 0.02
87 7 0.06
88 14 0.12
89 14 0.12
90 7 0.06
91 3 0.02
92 15 0.12
93 20 0.17
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (84 bp):
AAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTTGTTAACAATAAAGAACACATTTAGG
TTTTTCTTTAATGATAACG
Found at i:85845138 original size:177 final size:177
Alignment explanation
Indices: 85844842--85845196 Score: 692
Period size: 177 Copynumber: 2.0 Consensus size: 177
85844832 CCAGTATTCA
*
85844842 GATGGAAACCCGACAGAATAATTTTTACTACAACTCTTTTCTATTTAATAAACATAAAGAAGGAT
1 GATGGAAACCCGACAGAATAATTTTTACTACAACTCCTTTCTATTTAATAAACATAAAGAAGGAT
85844907 TTAAGAATTTACCAAAAGACAACTTAAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTT
66 TTAAGAATTTACCAAAAGACAACTTAAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTT
85844972 GTTAACAATAAAGAACACATTTAGGTTTTTCTTTAATGATAACGAAG
131 GTTAACAATAAAGAACACATTTAGGTTTTTCTTTAATGATAACGAAG
85845019 GATGGAAACCCGACAGAATAATTTTTACTACAACTCCTTTCTATTTAATAAACATAAAGAAGGAT
1 GATGGAAACCCGACAGAATAATTTTTACTACAACTCCTTTCTATTTAATAAACATAAAGAAGGAT
85845084 TTAAGAATTTACCAAAAGACAACTTAAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTT
66 TTAAGAATTTACCAAAAGACAACTTAAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTT
*
85845149 GTTAACAATAAAGAACACCTTTAGGTTTTTCTTTAATGATAACGAAG
131 GTTAACAATAAAGAACACATTTAGGTTTTTCTTTAATGATAACGAAG
85845196 G
1 G
85845197 CAACCAGAGA
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 176 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (177 bp):
GATGGAAACCCGACAGAATAATTTTTACTACAACTCCTTTCTATTTAATAAACATAAAGAAGGAT
TTAAGAATTTACCAAAAGACAACTTAAGGAAAGAAGCTTCTATAAGCTTGACTAACAGCTCTTTT
GTTAACAATAAAGAACACATTTAGGTTTTTCTTTAATGATAACGAAG
Found at i:85849635 original size:27 final size:27
Alignment explanation
Indices: 85849597--85849728 Score: 128
Period size: 27 Copynumber: 4.9 Consensus size: 27
85849587 GCAAGGCTGC
* *
85849597 CAGATATAGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGACAG-AGCCACCAGATA
*
85849624 CAGATATTGTGACAGAGCCGCCAGA-A
1 CAGATATTGTGACAGAGCCACCAGATA
*
85849650 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
* * *
85849677 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGACAGAGCCACCAGATA
*
85849704 CAGATATATGTGGCAGAGCCACCAG
1 CAGATAT-TGTGACAGAGCCACCAG
85849729 GACGCTTCCT
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.11
27 77 0.86
28 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:85849703 original size:54 final size:54
Alignment explanation
Indices: 85849615--85849728 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
85849605 GTGACGAAGT
* *
85849615 CACCAGATACAGATATTGTGACAGAGCCGCCAGAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATCGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
* *
85849669 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATACAGAT-ATCGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
85849723 CACCAG
1 CACCAG
85849729 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 5 0.09
54 50 0.91
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (54 bp):
CACCAGATACAGATATCGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:85852982 original size:18 final size:18
Alignment explanation
Indices: 85852949--85852983 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85852939 TTATATATCG
* *
85852949 TTATTATTAGTCTTTTTC
1 TTATTATTACTATTTTTC
85852967 TTATTATTACTATTTTT
1 TTATTATTACTATTTTT
85852984 AATAAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTATTACTATTTTTC
Found at i:85854561 original size:26 final size:26
Alignment explanation
Indices: 85854530--85854637 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85854520 TGAAATGCCC
*
85854530 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85854556 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
85854582 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
85854608 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85854634 ATCA
1 ATCA
85854638 ATTTGTCCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85855186 original size:42 final size:43
Alignment explanation
Indices: 85855125--85855242 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 43
85855115 GATTTGAGAT
* * * *
85855125 TTACGTGTAAGACCATGTCTGAGACATCGGCATC-ATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATAGGCATCGATATTTGA
* * * *
85855167 TTTCATGTAAGACCCTGTCTGGGAGAGAGGTATCGATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATAGGCATCGATATTTGA
* *
85855210 TTACATATAAGACCGC-GTCTGGGACATTGGCAT
1 TTACATGTAAGACC-CTGTCTGGGACATAGGCAT
85855243 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 26 0.43
43 33 0.55
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGGACATAGGCATCGATATTTGA
Found at i:85862287 original size:25 final size:25
Alignment explanation
Indices: 85862228--85862319 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 25
85862218 AGACGAAACA
*
85862228 AAATAATATATAAAACAATTCGAAGT
1 AAATAATATATAAAAC-ATTCGAAAT
*
85862254 AAACAATATATAAGAAGC-TT-GAAAT
1 AAATAATATATAA-AA-CATTCGAAAT
* *
85862279 AAATAATATATGGAAAAAATT-AAAAT
1 AAATAATATAT--AAAACATTCGAAAT
*
85862305 AAATAATATAAAAAA
1 AAATAATATATAAAA
85862320 ATGGTTCAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
24 4 0.07
25 14 0.25
26 32 0.58
27 4 0.07
28 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (25 bp):
AAATAATATATAAAACATTCGAAAT
Found at i:85862544 original size:26 final size:25
Alignment explanation
Indices: 85862275--85862652 Score: 108
Period size: 26 Copynumber: 14.8 Consensus size: 25
85862265 AAGAAGCTTG
* *
85862275 AAATAAATAATATATGGAAAAAATTA
1 AAATAAATAATATAT-TAAAAATTTA
*
85862301 AAATAAATAATATA-AAAAAATGGTTCA
1 AAATAAATAATATATTAAAAAT--TT-A
* * *
85862328 AAATAAACAGTATA--AAAAA-ATA
1 AAATAAATAATATATTAAAAATTTA
* * * **
85862350 ACACAAATAAGATCA--AAACAATTCG
1 AAATAAATAATAT-ATTAAA-AATTTA
85862375 AAATAAAT-A-AT-TTAAAGCAATTTA
1 AAATAAATAATATATTAAA--AATTTA
*
85862399 AAATAAATAATATA-TAAGACATTTTTTTA
1 AAATAAATAATATATTAA-A-A---ATTTA
* * * *
85862428 AAAGAAATAATATGTAAAAAAATCTA
1 AAATAAATAATATAT-TAAAAATTTA
* *
85862454 AAATAAATCATATATATGAAACAGTTTA
1 AAATAAAT-A-ATATATTAAA-AATTTA
* * *
85862482 AAATATAAAAATGTA-TAAAGCAGTTTA
1 AAATA-AATAATATATTAAA--AATTTA
*
85862509 AAATAGATAATATATTAATAAATTTA
1 AAATAAATAATATATTAA-AAATTTA
*
85862535 AAATAAATAATAT-CTAAAATCATTTA
1 AAATAAATAATATATTAAAA--ATTTA
*
85862561 AAATAAATAATATA--AAACAGTTTA
1 AAATAAATAATATATTAAA-AATTTA
* *
85862585 ATATAAATGATATA-T-AAAATTTA
1 AAATAAATAATATATTAAAAATTTA
* * * *
85862608 CAACAAATAAAATAGTTTAAAA--TA
1 AAATAAATAATATA-TTAAAAATTTA
* *
85862632 AAATATATAAAACTATTAAAA
1 AAATAAATAATA-TATTAAAA
85862653 TGAATAAATA
Statistics
Matches: 268, Mismatches: 50, Indels: 70
0.69 0.13 0.18
Matches are distributed among these distances:
22 9 0.03
23 24 0.09
24 57 0.21
25 16 0.06
26 87 0.32
27 37 0.14
28 16 0.06
29 19 0.07
30 1 0.00
31 2 0.01
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (25 bp):
AAATAAATAATATATTAAAAATTTA
Found at i:85863624 original size:18 final size:18
Alignment explanation
Indices: 85863598--85863645 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
85863588 AAGACTAACG
* * *
85863598 AAATTTAAACAATATAAT
1 AAATATAAACAATAAAAC
*
85863616 AAATATAAAAAATAAAAC
1 AAATATAAACAATAAAAC
85863634 AAA-ATAAACAAT
1 AAATATAAACAAT
85863646 GTTAAAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATATAAACAATAAAAC
Found at i:85863805 original size:15 final size:16
Alignment explanation
Indices: 85863780--85863812 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
85863770 ATACAAAAAG
85863780 AAATAAATAATATATA
1 AAATAAATAATATATA
85863796 AAAT-AATAATATATA
1 AAATAAATAATATATA
85863811 AA
1 AA
85863813 TGAGCTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAAATAATATATA
Found at i:85864908 original size:19 final size:19
Alignment explanation
Indices: 85864866--85864910 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
85864856 TTTTGTATGT
85864866 ATGAAA-AAAAGAGAATAA
1 ATGAAACAAAAGAGAATAA
*
85864884 A-AAAACAAAA-AGAATGAA
1 ATGAAACAAAAGAGAAT-AA
85864902 ATGAAACAA
1 ATGAAACAA
85864911 TAGAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.73, C:0.04, G:0.13, T:0.09
Consensus pattern (19 bp):
ATGAAACAAAAGAGAATAA
Found at i:85866207 original size:10 final size:10
Alignment explanation
Indices: 85866192--85866261 Score: 60
Period size: 10 Copynumber: 7.0 Consensus size: 10
85866182 TGGCCACTCC
85866192 CTTTTCTTTT
1 CTTTTCTTTT
85866202 CTTTTCTTTT
1 CTTTTCTTTT
85866212 C-TTTCTTCTT
1 CTTTTCTT-TT
85866222 -TCTTTCTCTTT
1 CT-TTTCT-TTT
85866233 C-TTTC-TTT
1 CTTTTCTTTT
85866241 C-TTTCTCTTT
1 CTTTTCT-TTT
85866251 CTTTCTCTTTT
1 CTTT-TCTTTT
85866262 TTTATTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
8 8 0.16
9 6 0.12
10 21 0.41
11 12 0.24
12 4 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
CTTTTCTTTT
Found at i:85866218 original size:4 final size:4
Alignment explanation
Indices: 85866194--85866256 Score: 64
Period size: 4 Copynumber: 16.2 Consensus size: 4
85866184 GCCACTCCCT
85866194 TTTC TTTTC TTTTC TTTTC TTTC -TTC TTTC TTTC --TC TTTC TTTC TTTC
1 TTTC -TTTC -TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
85866242 TTTC --TC TTTC TTTC T
1 TTTC TTTC TTTC TTTC T
85866257 CTTTTTTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.08
3 3 0.06
4 32 0.60
5 14 0.26
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:85866218 original size:14 final size:14
Alignment explanation
Indices: 85866192--85866261 Score: 72
Period size: 14 Copynumber: 4.7 Consensus size: 14
85866182 TGGCCACTCC
85866192 CTTTTCTTTTCTTTT
1 CTTTTCTTTTC-TTT
85866207 CTTTTCTTTCTTCTTT
1 CTTTTC-TT-TTCTTT
85866223 C-TTTCTCTTTCTTT
1 CTTTTCT-TTTCTTT
85866237 C-TTTCTTTCTCTTT
1 CTTTTCTTT-TCTTT
85866251 CTTTCTCTTTT
1 CTTT-TCTTTT
85866262 TTTATTTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.04
14 19 0.39
15 14 0.29
16 11 0.22
17 3 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTCTTTTCTTT
Found at i:85869270 original size:19 final size:20
Alignment explanation
Indices: 85869256--85869293 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
85869246 TGTGAAATTT
*
85869256 AATGCATATG-ATGAAATGC
1 AATGCAGATGTATGAAATGC
85869275 AATGCAGATGTATGAAATG
1 AATGCAGATGTATGAAATG
85869294 AATTCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (20 bp):
AATGCAGATGTATGAAATGC
Found at i:85871573 original size:53 final size:52
Alignment explanation
Indices: 85871403--85871641 Score: 179
Period size: 53 Copynumber: 4.6 Consensus size: 52
85871393 ATAAGATACA
* * *
85871403 AAACAATTTGAAATAAATAAT-T-TAAAGCAATTTAAAATAAATAATATAT-
1 AAACAATTTAAAATAAATAATATCTAAAACCATTTAAAATAAATAATATATG
* * * ** *
85871452 AAGACATTTTTTTAAAAGAAA-AATATGTAAAAAAAATCTAAAATAAATCATATATATG
1 AA-ACA---ATTTAAAATAAATAATATCT-AAAACCATTTAAAATAAAT-A-ATATATG
* * * *
85871510 AAACAGTTTAAAATATAA-AA-ATGTATAAAGCATTTTAAAATAGATAATATATG
1 AAACAATTTAAAATA-AATAATATCTA-AAACCA-TTTAAAATAAATAATATATG
85871563 AAACAATTTAAAATAAATAATATCTAAAACCATTTAAAATAAATAATATA--
1 AAACAATTTAAAATAAATAATATCTAAAACCATTTAAAATAAATAATATATG
* * * *
85871613 AAACAGTTTAATATAAATGATATATAAAA
1 AAACAATTTAAAATAAATAATATCTAAAA
85871642 TTTACAATAA
Statistics
Matches: 155, Mismatches: 20, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
49 2 0.01
50 28 0.18
52 22 0.14
53 39 0.25
54 22 0.14
55 30 0.19
56 1 0.01
57 9 0.06
58 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (52 bp):
AAACAATTTAAAATAAATAATATCTAAAACCATTTAAAATAAATAATATATG
Found at i:85871582 original size:26 final size:25
Alignment explanation
Indices: 85871264--85871655 Score: 216
Period size: 26 Copynumber: 15.2 Consensus size: 25
85871254 AGATGAAACA
** *
85871264 AAATAATATATAAAACAATTCGAAGT
1 AAATAATATAT-AAACAATTTAAAAT
* * *
85871290 AAACAATATATAAGA-AGTTTGAAAT
1 AAATAATATATAA-ACAATTTAAAAT
*
85871315 AAATAATATATAGAAAAAAAATTTAAAAT
1 AAATAATATAT----AAACAATTTAAAAT
85871344 AAATAATATA-AAAC-ATGGTTCAAAAT
1 AAATAATATATAAACAAT--TT-AAAAT
* * *
85871370 AAATAGTATA-AAA-AA--TAACAC
1 AAATAATATATAAACAATTTAAAAT
* * *
85871391 AAATAAGATACAAAACAATTTGAAAT
1 AAATAATATA-TAAACAATTTAAAAT
85871417 AAATAAT-T-TAAAGCAATTTAAAAT
1 AAATAATATATAAA-CAATTTAAAAT
* *
85871441 AAATAATATATAAGACATTTTTTTAAAAG
1 AAATAATATATAA-ACA---ATTTAAAAT
* * *
85871470 AAA-AATATGTAAAAAAAATCTAAAAT
1 AAATAATA--TATAAACAATTTAAAAT
*
85871496 AAATCATATATATGAAACAGTTTAAAAT
1 AAAT-A-ATATAT-AAACAATTTAAAAT
* * *
85871524 ATAAAAATGTATAAAGCATTTTAAAAT
1 A-AATAATATATAAA-CAATTTAAAAT
*
85871551 AGATAATATATGAAACAATTTAAAAT
1 AAATAATATAT-AAACAATTTAAAAT
* *
85871577 AAATAATATCTAAAACCATTTAAAAT
1 AAATAATATAT-AAACAATTTAAAAT
* *
85871603 AAATAATATA-AAACAGTTTAATAT
1 AAATAATATATAAACAATTTAAAAT
* *
85871627 AAATGATATAT-AA-AATTTACAAT
1 AAATAATATATAAACAATTTAAAAT
85871650 AAATAA
1 AAATAA
85871656 AATAGTTTAA
Statistics
Matches: 284, Mismatches: 50, Indels: 67
0.71 0.12 0.17
Matches are distributed among these distances:
21 11 0.04
22 1 0.00
23 20 0.07
24 44 0.15
25 23 0.08
26 103 0.36
27 22 0.08
28 19 0.07
29 37 0.13
30 4 0.01
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAAT
Found at i:85871641 original size:50 final size:52
Alignment explanation
Indices: 85871490--85871641 Score: 159
Period size: 50 Copynumber: 2.9 Consensus size: 52
85871480 AAAAAAAATC
* *
85871490 TAAAATAAATCATATATATGAAACAGTTTAAAATATAAA-AATGTAT-AAAGCATTT
1 TAAAATAAAT-A-ATATA-GAAACAGTTT--AATATAAATAATATATAAAACCATTT
* * * *
85871545 TAAAATAGATAATATATGAAACAATTTAAAATAAATAATATCTAAAACCA-TT
1 TAAAATAAATAATATA-GAAACAGTTTAATATAAATAATATATAAAACCATTT
*
85871597 TAAAATAAATAATATA-AAACAGTTTAATATAAATGATATATAAAA
1 TAAAATAAATAATATAGAAACAGTTTAATATAAATAATATATAAAA
85871642 TTTACAATAA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
50 25 0.30
51 7 0.08
52 22 0.26
53 20 0.24
54 1 0.01
55 9 0.11
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (52 bp):
TAAAATAAATAATATAGAAACAGTTTAATATAAATAATATATAAAACCATTT
Found at i:85878386 original size:31 final size:31
Alignment explanation
Indices: 85878318--85878376 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
85878308 ATTTAATGGA
*
85878318 GAGTGACCAAAATAGAAACGGTCTAAAACAT
1 GAGTGACCAAAATAGAAACGATCTAAAACAT
* *
85878349 GAGTGACCAAAATATAAATGATCTAAAA
1 GAGTGACCAAAATAGAAACGATCTAAAA
85878377 GGTTAGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAACGATCTAAAACAT
Found at i:85880061 original size:3 final size:3
Alignment explanation
Indices: 85880050--85880081 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
85880040 ATTATTTTGT
85880050 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85880082 CCTATTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:85880639 original size:16 final size:16
Alignment explanation
Indices: 85880620--85880650 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85880610 TACACCCATA
*
85880620 TATATGTACATATTTT
1 TATATATACATATTTT
85880636 TATATATACATATTT
1 TATATATACATATTT
85880651 ATCGTTTCTT
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:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:85892933 original size:46 final size:44
Alignment explanation
Indices: 85892866--85893195 Score: 222
Period size: 44 Copynumber: 7.6 Consensus size: 44
85892856 ATAATACAGG
*
85892866 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
85892912 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
85892956 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
85892995 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
85893036 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
85893082 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
85893126 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
85893169 TCCTATCTCCCTGA-AGTTACAGTGGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAA
85893196 TGGATTAAAA
Statistics
Matches: 225, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 28 0.12
42 5 0.02
43 25 0.11
44 70 0.31
45 1 0.00
46 70 0.31
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:85892983 original size:44 final size:46
Alignment explanation
Indices: 85892869--85893194 Score: 187
Period size: 46 Copynumber: 7.5 Consensus size: 46
85892859 ATACAGGTCT
* * * *
85892869 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
85892915 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * * * *
85892959 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * * *
85892998 TATCTCTCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * *
85893039 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* ** * *
85893085 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* * *
85893129 TATCTCCCTGAGATTACAGCGGAGCAGATC---GAA-GACACTATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCA-GATCC
85893172 TATCTCCCTGA-AGTTACAGTGGA
1 TATCTCCCTGAGA-TTACAGTGGA
85893195 ATGGATTAAA
Statistics
Matches: 221, Mismatches: 40, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 3 0.01
41 28 0.13
42 5 0.02
43 24 0.11
44 62 0.28
45 3 0.01
46 68 0.31
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:85895378 original size:16 final size:16
Alignment explanation
Indices: 85895359--85895389 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85895349 TACACCCATA
*
85895359 TATATGTACATATTTT
1 TATATATACATATTTT
85895375 TATATATACATATTT
1 TATATATACATATTT
85895390 ATCGTTTCTT
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:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:85898322 original size:11 final size:11
Alignment explanation
Indices: 85898306--85898330 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85898296 CCTATAAAGT
85898306 AAAAAAAATAA
1 AAAAAAAATAA
85898317 AAAAAAAATAA
1 AAAAAAAATAA
85898328 AAA
1 AAA
85898331 GAGAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:85900514 original size:18 final size:18
Alignment explanation
Indices: 85900493--85900527 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85900483 TAGGGACAAA
* *
85900493 GTTAGGGTCAGGGTAAGG
1 GTTAAGGTCAAGGTAAGG
85900511 GTTAAGGTCAAGGTAAG
1 GTTAAGGTCAAGGTAAG
85900528 TACTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
GTTAAGGTCAAGGTAAGG
Found at i:85904579 original size:16 final size:16
Alignment explanation
Indices: 85904548--85904600 Score: 72
Period size: 15 Copynumber: 3.2 Consensus size: 16
85904538 TAGTGCCTAG
*
85904548 GGTTTATTGTTGGTTTAG
1 GGTTT-TTG-TGGTTTAA
85904566 GGTTTTTGTGGTTTAA
1 GGTTTTTGTGGTTTAA
85904582 GG-TTTTGTGGTTTAA
1 GGTTTTTGTGGTTTAA
85904597 GGTT
1 GGTT
85904601 AGGGTTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 15 0.45
16 10 0.30
17 3 0.09
18 5 0.15
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (16 bp):
GGTTTTTGTGGTTTAA
Found at i:85905010 original size:118 final size:118
Alignment explanation
Indices: 85904800--85905274 Score: 440
Period size: 125 Copynumber: 3.9 Consensus size: 118
85904790 TTGTTTTTCA
* * *
85904800 TTTTCTACAGTAGTTTCT-GAAAAATTAATTTTGAGAAGAC-AGTTTTGATAAAATAGTGAAAAA
1 TTTTCTACAGTAGTTTCTAGAAAAA-TAATTTTGAGAAGACGA-TTATGAAAAAATAGTGCAAAA
* * *
85904863 ACGCTTCAAGTAGGATACACTGTCAGCAAAAGTACT-AAAAAACGTGGATGCTCT
64 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAACGTGGATGCTCT
* *
85904917 TTTTCTATAGTAGTTTCTAGAAAAATAATTTTGAGAAGACGATTATGAAAAAATAATGCCAAAAA
1 TTTTCTACAGTAGTTTCTAGAAAAATAATTTTGAGAAGACGATTATGAAAAAATAGTG-CAAAAA
*
85904982 CGCTTCAAGCAGGATGCACTGCCAGCAAAATTACTAAAAAAAGCTCCCACGTGGATGCTCT
65 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAA------ACGTGGATGCTCT
* * * * *
85905043 TTTTCTACAGTAGTTCCTA-AAAGATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAAA
1 TTTTCTACAGTAGTTTCTAGAAAAATAATTTTGAGAAGACGATTATGAAAAAATAGTG-CAAAAA
* * * *
85905107 TGCTTCAAGCAGGATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGCGGACGCTCT
65 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAA------ACGTGGATGCTCT
* * * * * * * *
85905168 TCTTCTACAGTAGTTT-TTGAAAAAATAATTTTGACAAAATGATTCTAAAAAAATAGTATC-AAA
1 TTTTCTACAGTAGTTTCTAG-AAAAATAATTTTGAGAAGACGATTATGAAAAAATAGT-GCAAAA
* ** * *
85905231 ACTACTTCAAATAAGATGCACTGTCAGCAAAATTACTGAAAAAA
64 AC-GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAA
85905275 GCTCCCACCT
Statistics
Matches: 304, Mismatches: 39, Indels: 28
0.82 0.11 0.08
Matches are distributed among these distances:
117 45 0.15
118 43 0.14
119 1 0.00
120 5 0.02
124 1 0.00
125 117 0.38
126 92 0.30
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (118 bp):
TTTTCTACAGTAGTTTCTAGAAAAATAATTTTGAGAAGACGATTATGAAAAAATAGTGCAAAAAC
GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAACGTGGATGCTCT
Found at i:85905112 original size:125 final size:125
Alignment explanation
Indices: 85904904--85905311 Score: 546
Period size: 126 Copynumber: 3.2 Consensus size: 125
85904894 GTACTAAAAA
* * * *
85904904 ACGTGGATGCTCTTTTTCTATAGTAGTTTCTAGAAAAATAATTTTGAGAAGACGATTATGAAAAA
1 ACGTGGATGCTCTTTTTCTACAGTAGTTCCTA-AAAAATAATTTTGAGAAGACGATTCTAAAAAA
* * * * *
85904969 ATAATGCCAAAAACGCTTCAAGCAGGATGCACTGCCAGCAAAATTACTAAAAAAAGCTCCC
65 ATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCC
* *
85905030 ACGTGGATGCTCTTTTTCTACAGTAGTTCCTAAAAGATAATTTTGAGAAGACGGTTCTAAAAAAA
1 ACGTGGATGCTCTTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTAAAAAAA
*
85905095 TAGTGTCAAAAATGCTTCAAGCAGGATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCC
66 TAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCC
* * * ** * * *
85905155 ACGCGGACGCTCTTCTTCTACAGTAGTTTTTGAAAAAATAATTTTGACAAAATGATTCTAAAAAA
1 ACGTGGATGCTCTTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTAAAAAA
* * * ** *
85905220 ATAGTATCAAAACTACTTCAAATAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCC
65 ATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCC
* *
85905281 ACCTGGGTGCTCTTTTTCTACAGTAGTTCCT
1 ACGTGGATGCTCTTTTTCTACAGTAGTTCCT
85905312 GTTTGGCTTT
Statistics
Matches: 245, Mismatches: 36, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
125 109 0.44
126 136 0.56
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (125 bp):
ACGTGGATGCTCTTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTAAAAAAA
TAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCC
Found at i:85908779 original size:18 final size:18
Alignment explanation
Indices: 85908753--85908796 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
85908743 GACTAGGAAA
* *
85908753 AGGAAACATATAAAGGTT
1 AGGATACATATAAAGGCT
*
85908771 AGGATACATATAAGGGCT
1 AGGATACATATAAAGGCT
85908789 AGGATACA
1 AGGATACA
85908797 CAATTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:85918009 original size:12 final size:13
Alignment explanation
Indices: 85917988--85918013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85917978 TTGCCTCACA
85917988 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
85918001 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
85918014 ATAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:85920658 original size:6 final size:6
Alignment explanation
Indices: 85920648--85920695 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
85920638 AATATATATT
* *
85920648 TTTTAT TTTTAA TTAT-A TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
85920695 T
1 T
85920696 ATAATCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:85920668 original size:12 final size:12
Alignment explanation
Indices: 85920651--85920719 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
85920641 ATATATTTTT
85920651 TATTTTTAATTA
1 TATTTTTAATTA
*
85920663 TA-TTTTAATTT
1 TATTTTTAATTA
* *
85920674 TAATTTTAATTT
1 TATTTTTAATTA
*
85920686 TAATTTTAATATAA
1 TATTTTTAAT-T-A
85920700 TCAATTTTT-ATTA
1 T--ATTTTTAATTA
85920713 TATTTTT
1 TATTTTT
85920720 CAAATTGTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
11 16 0.33
12 21 0.43
13 3 0.06
14 2 0.04
15 2 0.04
16 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTTTAATTA
Found at i:85920673 original size:18 final size:17
Alignment explanation
Indices: 85920648--85920718 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
85920638 AATATATATT
*
85920648 TTTTATTTTTAATTATA
1 TTTTAATTTTAATTATA
*
85920665 TTTTAATTTTAATTTTAA
1 TTTTAATTTTAATTAT-A
85920683 TTTTAATTTTAA-TATA
1 TTTTAATTTTAATTATA
* * *
85920699 -ATCAATTTTTATTATA
1 TTTTAATTTTAATTATA
85920715 TTTT
1 TTTT
85920719 TCAAATTGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 8 0.19
16 5 0.12
17 17 0.40
18 13 0.30
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAATTTTAATTATA
Found at i:85920756 original size:41 final size:41
Alignment explanation
Indices: 85920705--85920792 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
85920695 TATAATCAAT
*
85920705 TTTTATTATATTTTTCAAATTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTCAAATTGTGTATTGTTTTAAGAATTG
** * * * * *
85920746 TTTTAATATATTTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTCAAATTGTGTATTGTTTTAAGAATTG
85920787 TTTTAA
1 TTTTAA
85920793 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (41 bp):
TTTTAATATATTTTTCAAATTGTGTATTGTTTTAAGAATTG
Found at i:85928344 original size:33 final size:33
Alignment explanation
Indices: 85928303--85928370 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
85928293 ATTTTTTTAA
85928303 GTGTGTTTTTAAGTCAACCGGTGTTCTCTATTT
1 GTGTGTTTTTAAGTCAACCGGTGTTCTCTATTT
85928336 GTGTGTTTTTAAGTCAACCGGTGTTCTCTATTT
1 GTGTGTTTTTAAGTCAACCGGTGTTCTCTATTT
85928369 GT
1 GT
85928371 AAAGAGAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (33 bp):
GTGTGTTTTTAAGTCAACCGGTGTTCTCTATTT
Found at i:85928991 original size:15 final size:16
Alignment explanation
Indices: 85928968--85928997 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85928958 AATTTTGATT
85928968 AAGTATTAATTAATTA
1 AAGTATTAATTAATTA
85928984 AAGT-TTAATTAATT
1 AAGTATTAATTAATT
85928998 TAATTAGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
AAGTATTAATTAATTA
Found at i:85936098 original size:15 final size:15
Alignment explanation
Indices: 85936078--85936109 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
85936068 CTCTACGGCT
85936078 CAAAGCATCAGCCAA
1 CAAAGCATCAGCCAA
85936093 CAAAGCATCAGCCAA
1 CAAAGCATCAGCCAA
85936108 CA
1 CA
85936110 CATTGGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.34, G:0.12, T:0.06
Consensus pattern (15 bp):
CAAAGCATCAGCCAA
Found at i:85940148 original size:54 final size:54
Alignment explanation
Indices: 85940086--85940194 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
85940076 TATGTTAGGG
*
85940086 CCTTGGCCCATATCAGATACAAATGCATATACAGTAAATCAGAGTCCTACCCAC
1 CCTTGGCCCATATCAGATACAAATGCATATACAGTAAACCAGAGTCCTACCCAC
*
85940140 CCTTGGCCCATATTAGATACAAATGCATATACAGTAAACCAGAGTCCTACCCAC
1 CCTTGGCCCATATCAGATACAAATGCATATACAGTAAACCAGAGTCCTACCCAC
85940194 C
1 C
85940195 AGCCTCTACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (54 bp):
CCTTGGCCCATATCAGATACAAATGCATATACAGTAAACCAGAGTCCTACCCAC
Found at i:85944239 original size:20 final size:20
Alignment explanation
Indices: 85944203--85944240 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85944193 ATATTCGATA
*
85944203 AACATGAAATATTCATTTCC
1 AACATGAAACATTCATTTCC
85944223 AACAT-AAACATTACATTT
1 AACATGAAACATT-CATTT
85944241 ATGTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (20 bp):
AACATGAAACATTCATTTCC
Found at i:85949675 original size:36 final size:36
Alignment explanation
Indices: 85949628--85949701 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
85949618 TTTACTTATT
85949628 TTTCTTTAACTTTTTAATT-AAATAACTTAATTAACC
1 TTTCTTTAACTTTTTAATTAAAAT-ACTTAATTAACC
85949664 TTTCTTTAACTTTTTAATTAAAATACTTAATTAACC
1 TTTCTTTAACTTTTTAATTAAAATACTTAATTAACC
85949700 TT
1 TT
85949702 ACATTTTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (36 bp):
TTTCTTTAACTTTTTAATTAAAATACTTAATTAACC
Found at i:85961371 original size:17 final size:19
Alignment explanation
Indices: 85961337--85961377 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
85961327 CATGTGATTT
*
85961337 GCCCATGTGGGTCCACAC-
1 GCCCATGTGGGCCCACACG
85961355 GCCCATGT-GGCCCACACG
1 GCCCATGTGGGCCCACACG
85961373 GCCCA
1 GCCCA
85961378 AATTGGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.17, C:0.44, G:0.27, T:0.12
Consensus pattern (19 bp):
GCCCATGTGGGCCCACACG
Found at i:85986197 original size:44 final size:43
Alignment explanation
Indices: 85986108--85986229 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 43
85986098 GTGAATTGGA
*
85986108 ATAGCTTCGACT-AT-ATG-TGGCACTAAGTGTGCGATACTAAG
1 ATAGCTTCGGCTAATCATGATGGCACTAAGTGTGCGATACT-AG
* * *
85986149 ATAGCTTCGGTTTAAT-GTGATGGCACTAAGTGTGCGATATCGT-T
1 ATAGCTTCGG-CTAATCATGATGGCACTAAGTGTGCGATA-C-TAG
**
85986193 ATAGCTTCGGCTAATCATTTTGGCACTAAGTGTGCGA
1 ATAGCTTCGGCTAATCATGATGGCACTAAGTGTGCGA
85986230 GTTCCTTGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
41 9 0.13
42 1 0.01
43 8 0.12
44 47 0.70
45 1 0.01
46 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
ATAGCTTCGGCTAATCATGATGGCACTAAGTGTGCGATACTAG
Found at i:85988949 original size:24 final size:23
Alignment explanation
Indices: 85988913--85989001 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 23
85988903 GTTGAAACGA
*
85988913 TAAGCTCTGACGAGCTAAGAAGAG
1 TAAGCTCTTACGAGCTAA-AAGAG
85988937 TAAGCTCTTACGAGCTAAAACG-G
1 TAAGCTCTTACGAGCTAAAA-GAG
** *
85988960 TAAGCTCCAACGAGCTGAAAACAG
1 TAAGCTCTTACGAGCT-AAAAGAG
85988984 TAAGCTCTTACGAGCTAA
1 TAAGCTCTTACGAGCTAA
85989002 TATATCGGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 19 0.34
24 37 0.66
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (23 bp):
TAAGCTCTTACGAGCTAAAAGAG
Found at i:85988958 original size:47 final size:47
Alignment explanation
Indices: 85988907--85989001 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
85988897 TATTGAGTTG
** *
85988907 AAACGATAAGCTCTGACGAGCT-AAGAAGAGTAAGCTCTTACGAGCTA
1 AAACGATAAGCTCCAACGAGCTGAA-AACAGTAAGCTCTTACGAGCTA
*
85988954 AAACGGTAAGCTCCAACGAGCTGAAAACAGTAAGCTCTTACGAGCTA
1 AAACGATAAGCTCCAACGAGCTGAAAACAGTAAGCTCTTACGAGCTA
85989001 A
1 A
85989002 TATATCGGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 41 0.95
48 2 0.05
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (47 bp):
AAACGATAAGCTCCAACGAGCTGAAAACAGTAAGCTCTTACGAGCTA
Found at i:85992727 original size:68 final size:63
Alignment explanation
Indices: 85992654--85992796 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 63
85992644 CATGTGTACG
* * * *
85992654 AGAGAGCTACGAGACATTATGATGTAGCTAGGTAGCATGGGTGATACTATGTGTACACCATGTAG
1 AGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTAGCATGCGTGAGA-GAAG-G-ACACCATGTAG
85992719 ACA
61 ACA
* * *
85992722 AGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGGAGAAGGACACCATGTAGACA
1 AGAGAGCTACGAGACATATATGTAGCTAGGTAGCATGCGTGAGAGAAGGACACCATGTAGACA
85992783 AGAGAGCTACGAGA
1 AGAGAGCTACGAGA
85992797 TAAACTGGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
61 25 0.38
62 2 0.03
63 2 0.03
64 21 0.32
65 3 0.05
66 1 0.02
67 1 0.02
68 11 0.17
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.20
Consensus pattern (63 bp):
AGAGAGCTACGAGACATATATGTAGCTAGGTAGCATGCGTGAGAGAAGGACACCATGTAGACA
Found at i:85992756 original size:64 final size:64
Alignment explanation
Indices: 85992675--85992851 Score: 188
Period size: 61 Copynumber: 2.8 Consensus size: 64
85992665 AGACATTATG
* * * *
85992675 ATGTAGCTAGGTAGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
85992739 ATGTAGCTAGGTCGCATGCGTGGGA-GAAG-G-ACACCATGTAGACAAGAGAGCTACGAGATAA
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * *
85992800 ACTG--GCTAGGTCACATGGGTGGTACTAAT-TGTTCACCATGT-TACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAGACAAGAGAGC
85992852 CGAACTATAT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
60 17 0.18
61 30 0.32
62 15 0.16
63 10 0.11
64 21 0.23
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:85999926 original size:10 final size:10
Alignment explanation
Indices: 85999899--85999955 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
85999889 TTAAATTCTA
85999899 AAAGATAAAT
1 AAAGATAAAT
85999909 ATAA-ATAAAT
1 A-AAGATAAAT
*
85999919 AAAGATAATT
1 AAAGATAAAT
85999929 AAAGATAAAT
1 AAAGATAAAT
*
85999939 GAAGA-AAA-
1 AAAGATAAAT
*
85999947 AAAGCTAAA
1 AAAGATAAA
85999956 ATTAAATCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.08
9 8 0.21
10 26 0.67
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:86003151 original size:8 final size:7
Alignment explanation
Indices: 86003138--86003202 Score: 55
Period size: 8 Copynumber: 9.0 Consensus size: 7
86003128 ATCTAAACAA
86003138 AATAAAGT
1 AATAAA-T
86003146 AATAAAT
1 AATAAAT
86003153 AATAAAAT
1 AAT-AAAT
86003161 AAAATAAAGT
1 --AATAAA-T
86003171 AATAAAT
1 AATAAAT
86003178 AATAAA-
1 AATAAAT
*
86003184 AATAAAG
1 AATAAAT
86003191 AA-AAAT
1 AATAAAT
86003197 AA-AAAT
1 AATAAAT
86003203 TGGGTTGCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
6 15 0.29
7 13 0.25
8 16 0.31
9 3 0.06
10 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:86003164 original size:25 final size:26
Alignment explanation
Indices: 86003136--86003189 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
86003126 TTATCTAAAC
86003136 AAAATAAAGTAATAAATAAT-AAAAT
1 AAAATAAAGTAATAAATAATAAAAAT
86003161 AAAATAAAGTAATAAATAATAAAAAT
1 AAAATAAAGTAATAAATAATAAAAAT
86003187 AAA
1 AAA
86003190 GAAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAATAAAGTAATAAATAATAAAAAT
Found at i:86003202 original size:25 final size:25
Alignment explanation
Indices: 86003150--86003202 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
86003140 TAAAGTAATA
*
86003150 AATAATAAAATAAAATAAAGTAATA
1 AATAATAAAATAAAATAAAATAATA
86003175 AATAATAAAAATAAAGA-AAAATAA-A
1 AATAAT-AAAATAAA-ATAAAATAATA
86003200 AAT
1 AAT
86003203 TGGGTTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 10 0.40
26 14 0.56
27 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (25 bp):
AATAATAAAATAAAATAAAATAATA
Found at i:86006715 original size:30 final size:30
Alignment explanation
Indices: 86006675--86006740 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
86006665 TTAACGCATA
86006675 TTCATT-CATAATCTCATTTCTCTCTAACT
1 TTCATTCCATAATCTCATTTCTCTCTAACT
* *
86006704 TTGATTCCATAATCTCATTTCTCTCTAGCT
1 TTCATTCCATAATCTCATTTCTCTCTAACT
86006734 TTCATTC
1 TTCATTC
86006741 TTTTCCACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.21, C:0.27, G:0.03, T:0.48
Consensus pattern (30 bp):
TTCATTCCATAATCTCATTTCTCTCTAACT
Found at i:86015467 original size:113 final size:114
Alignment explanation
Indices: 86015322--86015556 Score: 393
Period size: 114 Copynumber: 2.1 Consensus size: 114
86015312 TAAATACTCA
*
86015322 ATTATTG-AGGAGTATTGTTAGGCATAAGGCTTCAAATTAAGTTT-GAGGGTGGTAAAACCCATT
1 ATTATTGAAGGAGTATTGTTAGGCATAAAGCTTCAAATTAAGTTTGGAGGGTGGTAAAACCCATT
*
86015385 AGTTGGAACGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
66 AGTAGGAACGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
* * *
86015434 ATTATTGAAGGAGTATTGTTGGGCATAAAGCTTCAAATTAAGTTTGGGGGGTGGTAAAACCCGTT
1 ATTATTGAAGGAGTATTGTTAGGCATAAAGCTTCAAATTAAGTTTGGAGGGTGGTAAAACCCATT
* *
86015499 AGTAGGAAGGATGTACCTCGACAGGATCCAAGACAAAGTTAGGGTTAAG
66 AGTAGGAACGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
86015548 ATTATTGAA
1 ATTATTGAA
86015557 CCTAAAAATT
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
112 7 0.06
113 35 0.31
114 72 0.63
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (114 bp):
ATTATTGAAGGAGTATTGTTAGGCATAAAGCTTCAAATTAAGTTTGGAGGGTGGTAAAACCCATT
AGTAGGAACGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
Found at i:86019824 original size:36 final size:36
Alignment explanation
Indices: 86019781--86019851 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
86019771 TCGTTAGTTA
86019781 ACATACGATGGATAATTTGATGGTTTTATTTTGTTG
1 ACATACGATGGATAATTTGATGGTTTTATTTTGTTG
86019817 ACATACGATGGATAATTTGATGGTTTTATTTTGTT
1 ACATACGATGGATAATTTGATGGTTTTATTTTGTT
86019852 AGATCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (36 bp):
ACATACGATGGATAATTTGATGGTTTTATTTTGTTG
Found at i:86020827 original size:51 final size:48
Alignment explanation
Indices: 86020766--86020861 Score: 131
Period size: 48 Copynumber: 1.9 Consensus size: 48
86020756 GAGGTGACAG
*
86020766 AGAAAACGAAAGAAAAAG-AGACTGGATTGAAAAATGTTGAAGACGATGCAA
1 AGAAAACGAAAGAAAAAGTAG-CAGG---GAAAAATGTTGAAGACGATGCAA
*
86020817 AGAAAACGAAAGAGAAAGTAGCAGGGAAAAATGTTGAAGACGATG
1 AGAAAACGAAAGAAAAAGTAGCAGGGAAAAATGTTGAAGACGATG
86020862 GTGAATAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
48 20 0.48
51 20 0.48
52 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.12
Consensus pattern (48 bp):
AGAAAACGAAAGAAAAAGTAGCAGGGAAAAATGTTGAAGACGATGCAA
Found at i:86026669 original size:42 final size:42
Alignment explanation
Indices: 86026607--86026688 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
86026597 TTCTAAATGA
*
86026607 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGG
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAAATAAGG
* *
86026649 GAAAATAGTTCCTTTTTTCTAATAAACTACTAAAAAATAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAAATAA
86026689 AATAAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAAATAAGG
Found at i:86026703 original size:42 final size:42
Alignment explanation
Indices: 86026608--86026703 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
86026598 TCTAAATGAG
* * * *
86026608 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGGG
1 AAAATAGTTCCTTTATTCTAATAAACTACTAAAAAATAAAGA
* *
86026650 AAAATAGTTCCTTTTTTCTAATAAACTACTAAAAAATAAAATA
1 AAAATAGTTCCTTTATTCTAATAAACTACTAAAAAAT-AAAGA
86026693 AAAATA-TTCCT
1 AAAATAGTTCCT
86026704 AGAATAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 39 0.83
43 8 0.17
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (42 bp):
AAAATAGTTCCTTTATTCTAATAAACTACTAAAAAATAAAGA
Found at i:86026734 original size:19 final size:18
Alignment explanation
Indices: 86026699--86026753 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
86026689 AATAAAAATA
86026699 TTCCTAGAATAAAATTTATC
1 TTCCTA-AAT-AAATTTATC
86026719 TTCCTAAATAAGATTTATC
1 TTCCTAAATAA-ATTTATC
*
86026738 TACCTAAATAAATTTA
1 TTCCTAAATAAATTTA
86026754 AAATATATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 7 0.21
19 20 0.61
20 6 0.18
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (18 bp):
TTCCTAAATAAATTTATC
Found at i:86033890 original size:3 final size:3
Alignment explanation
Indices: 86033882--86033916 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
86033872 TGTTTATTCA
86033882 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
86033917 AACCTTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:86035842 original size:23 final size:23
Alignment explanation
Indices: 86035816--86035879 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
86035806 GAAAAATGAG
86035816 TATATGAAAAATAGAGAATCAA-A
1 TATATGAAAAATAGAGAAT-AACA
* *
86035839 TATAGGAAAAGAAAGAGAATAACA
1 TATATGAAAA-ATAGAGAATAACA
* *
86035863 AATATGGAAAATAGAGA
1 TATATGAAAAATAGAGA
86035880 TACGTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.61, C:0.03, G:0.19, T:0.17
Consensus pattern (23 bp):
TATATGAAAAATAGAGAATAACA
Found at i:86036791 original size:49 final size:49
Alignment explanation
Indices: 86036719--86036812 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
86036709 CACCTTACAC
* * *
86036719 ACATAAAGCTCGCTAATGAGACTTCATAGATGTAGTATCAAAATACAGA
1 ACATAAAGCTCACTAATGAGACTTCATAGATGGACTATCAAAATACAGA
* *
86036768 ACATAAAGCTCACTGATGAGACTTCATATATGGACTATCAAAATA
1 ACATAAAGCTCACTAATGAGACTTCATAGATGGACTATCAAAATA
86036813 GATATTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (49 bp):
ACATAAAGCTCACTAATGAGACTTCATAGATGGACTATCAAAATACAGA
Found at i:86039902 original size:25 final size:25
Alignment explanation
Indices: 86039873--86039943 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
86039863 TTTTTTTTCG
* *
86039873 AAATTTTATTAGAGGTAAAATCGTC
1 AAATTTTATCAGAGGTAAAATCATC
* * *
86039898 AAATTTTATCGGGGGTAAAATCATT
1 AAATTTTATCAGAGGTAAAATCATC
*
86039923 AAATTTTACCAG-GAGTAAAAT
1 AAATTTTATCAGAG-GTAAAAT
86039944 TGTTAAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (25 bp):
AAATTTTATCAGAGGTAAAATCATC
Found at i:86039949 original size:25 final size:25
Alignment explanation
Indices: 86039887--86039950 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
86039877 TTTATTAGAG
* * * *
86039887 GTAAAATCGTCAAATTTTATCGGGG
1 GTAAAATCGTTAAATTTTACCAGGA
*
86039912 GTAAAATCATTAAATTTTACCAGGA
1 GTAAAATCGTTAAATTTTACCAGGA
*
86039937 GTAAAATTGTTAAA
1 GTAAAATCGTTAAA
86039951 AAATTTATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (25 bp):
GTAAAATCGTTAAATTTTACCAGGA
Found at i:86041131 original size:21 final size:21
Alignment explanation
Indices: 86041085--86041131 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
86041075 CCATTTTTGA
*
86041085 CTTTCCCTCTTTCCTCTATAT
1 CTTTCCCTCTATCCTCTATAT
* *
86041106 TTTTCCCTCTCATCC-CTTTAT
1 CTTTCCCTCT-ATCCTCTATAT
86041127 CTTTC
1 CTTTC
86041132 TCCTATAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.09, C:0.38, G:0.00, T:0.53
Consensus pattern (21 bp):
CTTTCCCTCTATCCTCTATAT
Found at i:86041337 original size:17 final size:17
Alignment explanation
Indices: 86041308--86041340 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
86041298 AAATGTTTCT
86041308 TTTCAACCTTTTTTTTG
1 TTTCAACCTTTTTTTTG
86041325 TTTC-ACCTATTTTTTT
1 TTTCAACCT-TTTTTTT
86041341 TAAATTCCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTCAACCTTTTTTTTG
Found at i:86044908 original size:35 final size:35
Alignment explanation
Indices: 86044862--86044931 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
86044852 AATAAATAAG
86044862 TTAAATAAAATCATTTTTAGCCCATCTTCTTCATC
1 TTAAATAAAATCATTTTTAGCCCATCTTCTTCATC
*
86044897 TTAAATAAAATCATTTTTAGTCCATCTTCTTCATC
1 TTAAATAAAATCATTTTTAGCCCATCTTCTTCATC
86044932 AAAACCGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (35 bp):
TTAAATAAAATCATTTTTAGCCCATCTTCTTCATC
Found at i:86046532 original size:16 final size:16
Alignment explanation
Indices: 86046511--86046544 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
86046501 CCAAACTTCT
86046511 GGCTTTTCGGCATTTC
1 GGCTTTTCGGCATTTC
*
86046527 GGCTTTTTGGCATTTC
1 GGCTTTTCGGCATTTC
86046543 GG
1 GG
86046545 GATTTGCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.21, G:0.29, T:0.44
Consensus pattern (16 bp):
GGCTTTTCGGCATTTC
Found at i:86053609 original size:61 final size:61
Alignment explanation
Indices: 86053514--86053637 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
86053504 CGAGTTCTGA
*
86053514 AAGCTATTTTATAAACATCCGCCTCCTTAACCTTCAATTGGTGATACCCCAAACGTAGATC
1 AAGCTATCTTATAAACATCCGCCTCCTTAACCTTCAATTGGTGATACCCCAAACGTAGATC
* *
86053575 AAGCTATCTTATAAACATCCGCCTCTTTAACCTTCAATTGGTGATACCTCAAACGTAGATC
1 AAGCTATCTTATAAACATCCGCCTCCTTAACCTTCAATTGGTGATACCCCAAACGTAGATC
86053636 AA
1 AA
86053638 TCTTTGAGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (61 bp):
AAGCTATCTTATAAACATCCGCCTCCTTAACCTTCAATTGGTGATACCCCAAACGTAGATC
Found at i:86057245 original size:28 final size:28
Alignment explanation
Indices: 86057205--86057276 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
86057195 CCCCTTTAGG
* *
86057205 CCCAATCTCATTCATATGGCCCATCTGC
1 CCCAATCACATTCATATGGCCCATCAGC
* *
86057233 CCCAATCACATTCATATGGCCTATCAGG
1 CCCAATCACATTCATATGGCCCATCAGC
*
86057261 CCCAATCAAATTCATA
1 CCCAATCACATTCATA
86057277 GCCATGCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGC
Found at i:86061545 original size:16 final size:16
Alignment explanation
Indices: 86061521--86061552 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
86061511 AGGATGAAAT
*
86061521 AAAATTAAAATAAAAG
1 AAAAATAAAATAAAAG
86061537 AAAAATAAAATAAAAG
1 AAAAATAAAATAAAAG
86061553 GTAGTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:86065450 original size:27 final size:27
Alignment explanation
Indices: 86065420--86065597 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
86065410 ATATTGAGTC
* * * *
86065420 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
86065447 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86065474 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
86065502 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
86065529 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
86065556 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86065583 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86065598 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:86065559 original size:82 final size:81
Alignment explanation
Indices: 86065441--86065596 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
86065431 TGCTATATAA
* *
86065441 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
86065506 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
86065523 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
86065587 CACTTAGTGC
65 CACTTAGTGC
86065597 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86076529 original size:27 final size:27
Alignment explanation
Indices: 86076499--86076676 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
86076489 ATATTGAGTC
* * * *
86076499 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
86076526 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86076553 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
86076581 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
86076608 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
86076635 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86076662 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86076677 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:86076638 original size:82 final size:81
Alignment explanation
Indices: 86076520--86076675 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
86076510 TGCTATATAA
* *
86076520 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
86076585 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
86076602 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
86076666 CACTTAGTGC
65 CACTTAGTGC
86076676 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86084706 original size:27 final size:27
Alignment explanation
Indices: 86084676--86084853 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
86084666 ATATTGAGTC
* * * *
86084676 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
86084703 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86084730 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
86084758 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
86084785 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
86084812 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
86084839 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86084854 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:86084815 original size:82 final size:81
Alignment explanation
Indices: 86084697--86084852 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
86084687 TGCTATATAA
* *
86084697 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
86084762 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
86084779 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
86084843 CACTTAGTGC
65 CACTTAGTGC
86084853 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86098772 original size:7 final size:7
Alignment explanation
Indices: 86098727--86098785 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
86098717 TTTAAAATAA
86098727 AAATATT
1 AAATATT
86098734 AAAT-TT
1 AAATATT
*
86098740 AAAT-TA
1 AAATATT
* *
86098746 AAAAATA
1 AAATATT
*
86098753 AAAAATT
1 AAATATT
86098760 ATAATATT
1 A-AATATT
86098768 AAATATTT
1 AAATA-TT
86098776 AAATATT
1 AAATATT
86098783 AAA
1 AAA
86098786 AACATTGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 10 0.22
7 22 0.49
8 13 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATATT
Found at i:86098779 original size:28 final size:27
Alignment explanation
Indices: 86098715--86098780 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
86098705 CAATTAGATT
86098715 TATTTAAAATAAAAATATTAAATTTAAA
1 TATTT-AAATAAAAATATTAAATTTAAA
**
86098743 T-TAAAAAATAAAAA-ATTATAATATTAAA
1 TAT-TTAAATAAAAATATTA-AAT-TTAAA
86098771 TATTTAAATA
1 TATTTAAATA
86098781 TTAAAAACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
26 4 0.13
27 13 0.43
28 12 0.40
29 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTTAAATAAAAATATTAAATTTAAA
Found at i:86099330 original size:19 final size:19
Alignment explanation
Indices: 86099286--86099333 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
86099276 ATTTTTTATA
* *
86099286 ATATATATTTTTCTGGATT
1 ATATATATTTTTATGAATT
86099305 ATATATATTTTTATGAATT
1 ATATATATTTTTATGAATT
* *
86099324 TTTTATATTT
1 ATATATATTT
86099334 ATTTCTACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (19 bp):
ATATATATTTTTATGAATT
Found at i:86104433 original size:19 final size:19
Alignment explanation
Indices: 86104411--86104448 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
86104401 TTGAAATTTA
*
86104411 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
86104430 AATTTTTATTTTATTTTCT
1 AATTTTTATTTTATTTTCT
86104449 CCTGATAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:86111530 original size:19 final size:19
Alignment explanation
Indices: 86111506--86111545 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
86111496 TGTGTTATCA
*
86111506 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
*
86111525 TAAATTTATAGACATAACT
1 TAAATTCATAGACATAACT
86111544 TA
1 TA
86111546 CACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:86119385 original size:42 final size:43
Alignment explanation
Indices: 86119303--86119396 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
86119293 TCCCAAACGT
* * *
86119303 GGTCTTACATGTAACCGAATATCGATGCCACTGTTCCAGACAG
1 GGTCTTACATGAAACCAAATATCGATGCCACTGTCCCAGACAG
* *
86119346 GGTCTTACATGAAATCAAATAT-GATGCCGA-TGTCCCAGACAT
1 GGTCTTACATGAAACCAAATATCGATGCC-ACTGTCCCAGACAG
*
86119388 AGTCTTACA
1 GGTCTTACA
86119397 CATAAATCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.55
43 20 0.45
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAACCAAATATCGATGCCACTGTCCCAGACAG
Found at i:86123848 original size:49 final size:49
Alignment explanation
Indices: 86123670--86123863 Score: 212
Period size: 49 Copynumber: 3.9 Consensus size: 49
86123660 TCTATTGTGA
* *
86123670 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAACACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTT
* * * * ** *
86123721 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACT-GT-T
**
86123771 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTATACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
* *
86123820 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
86123864 TAGCTTCGAC
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 40 0.34
50 40 0.34
51 35 0.29
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
Found at i:86124089 original size:16 final size:19
Alignment explanation
Indices: 86124068--86124104 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
86124058 GGAATGGATT
86124068 AAGTGAA-ATT-GT-GTAA
1 AAGTGAACATTAGTAGTAA
86124084 AAGTGAACATTAGTAGTAA
1 AAGTGAACATTAGTAGTAA
86124103 AA
1 AA
86124105 CAGTATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 2 0.11
19 6 0.33
ACGTcount: A:0.49, C:0.03, G:0.22, T:0.27
Consensus pattern (19 bp):
AAGTGAACATTAGTAGTAA
Found at i:86127026 original size:48 final size:48
Alignment explanation
Indices: 86126973--86127290 Score: 386
Period size: 48 Copynumber: 6.6 Consensus size: 48
86126963 TCATACCGAT
* *
86126973 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* *
86127021 ACCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
**
86127069 GGTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
*
86127117 GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCACACATATC-AC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * * * *
86127164 GTCGATGCCATGTCCCAGACATGGTCTTACGCTAGCACATAAATAAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * * * * * * * *
86127212 GCCGATTCCATGTCCTAGACAAGGTCTTAAACTGACTCTCATCTCGGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AAC
* * *
86127261 GCTGATGCCATGTCCTAGACACGGTCTTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTAC
86127291 TCGGGATCTC
Statistics
Matches: 230, Mismatches: 38, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
47 40 0.17
48 163 0.71
49 27 0.12
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
Found at i:86127140 original size:144 final size:144
Alignment explanation
Indices: 86126973--86127290 Score: 395
Period size: 143 Copynumber: 2.2 Consensus size: 144
86126963 TCATACCGAT
*
86126973 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCACACATATCA-CACCGATGCCATGTCCCA
* * * ** * *
86127038 AACATGGTCTTACACTGGCACACATATCAACGGTGATGCCATGTCCCAGACATGGTCTTACACTG
65 AACATGGTCTTACACTAGCACACAAATAAACGCCGATGCCATGTCCCAGACAAGGTCTTAAACTG
*
86127103 GCACACATATC-AAC
130 ACACACATATCGAAC
* ** *
86127117 GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCACACATATCACGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCACACATATCACACCGATGCCATGTCCCAA
* * * *
86127182 ACATGGTCTTACGCTAGCACATAAATAAACGCCGATTCCATGTCCTAGACAAGGTCTTAAACTGA
66 ACATGGTCTTACACTAGCACACAAATAAACGCCGATGCCATGTCCCAGACAAGGTCTTAAACTGA
* * * * *
86127247 CTCTCATCTCGGAT
131 CACACATATCGAAC
* * *
86127261 GCTGATGCCATGTCCTAGACACGGTCTTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTAC
86127291 TCGGGATCTC
Statistics
Matches: 148, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
143 76 0.51
144 72 0.49
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCACACATATCACACCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCACACAAATAAACGCCGATGCCATGTCCCAGACAAGGTCTTAAACTGA
CACACATATCGAAC
Found at i:86129976 original size:21 final size:21
Alignment explanation
Indices: 86129946--86129990 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
86129936 TATCAAAAGT
*
86129946 ATGAATTTTGGACTGAATTAA
1 ATGAAATTTGGACTGAATTAA
86129967 ATGAAATTTGGACTGAATTAA
1 ATGAAATTTGGACTGAATTAA
86129988 ATG
1 ATG
86129991 GAAGGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (21 bp):
ATGAAATTTGGACTGAATTAA
Found at i:86132280 original size:11 final size:10
Alignment explanation
Indices: 86132248--86132303 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 10
86132238 CATGAGATTT
86132248 TGATAT-ACA
1 TGATATGACA
*
86132257 TGATTTGACA
1 TGATATGACA
86132267 TGATATGCACA
1 TGATATG-ACA
*
86132278 TGATATG-TA
1 TGATATGACA
86132287 TGATATGCACA
1 TGATATG-ACA
86132298 TGATAT
1 TGATAT
86132304 ATTCATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 13 0.33
10 9 0.23
11 17 0.44
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:86132291 original size:20 final size:20
Alignment explanation
Indices: 86132266--86132303 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
86132256 ATGATTTGAC
86132266 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
86132286 ATGATATGCACATGATAT
1 ATGATATGCACATGATAT
86132304 ATTCATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:86132401 original size:24 final size:24
Alignment explanation
Indices: 86132348--86132420 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
86132338 GCAGGAAGTA
* *
86132348 AAAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGGCTTTGCCCCAG-TTATC
* *
86132373 GAAAGGGGCTTTGCCCCAGTTATT
1 AAAAGGGGCTTTGCCCCAGTTATC
* **
86132397 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGGGGCTTTGCC-CCAGTTAT
86132421 ATGATAAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 14 0.36
25 25 0.64
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (24 bp):
AAAAGGGGCTTTGCCCCAGTTATC
Found at i:86140174 original size:20 final size:20
Alignment explanation
Indices: 86140149--86140186 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
86140139 ATGATTTGAC
86140149 ATGATAGGCACATGATATGT
1 ATGATAGGCACATGATATGT
*
86140169 ATGATATGCACATGATAT
1 ATGATAGGCACATGATAT
86140187 ATTCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGATAGGCACATGATATGT
Found at i:86140183 original size:11 final size:10
Alignment explanation
Indices: 86140131--86140186 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
86140121 CATGAGATTT
86140131 TGATAT-ACA
1 TGATATGACA
*
86140140 TGATTTGACA
1 TGATATGACA
*
86140150 TGATAGGCACA
1 TGATATG-ACA
*
86140161 TGATATG-TA
1 TGATATGACA
86140170 TGATATGCACA
1 TGATATG-ACA
86140181 TGATAT
1 TGATAT
86140187 ATTCATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 13 0.35
10 8 0.22
11 16 0.43
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:86144030 original size:11 final size:11
Alignment explanation
Indices: 86144014--86144038 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
86144004 AGCAAGCCAT
86144014 TTTCGCATGGC
1 TTTCGCATGGC
86144025 TTTCGCATGGC
1 TTTCGCATGGC
86144036 TTT
1 TTT
86144039 AAATACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.24, G:0.24, T:0.44
Consensus pattern (11 bp):
TTTCGCATGGC
Found at i:86153785 original size:8 final size:8
Alignment explanation
Indices: 86153772--86153810 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
86153762 CATGATTCAC
86153772 ATATAAAT
1 ATATAAAT
86153780 ATATAAAT
1 ATATAAAT
*
86153788 ATACTTATAT
1 ATA--TAAAT
86153798 ATATAAAT
1 ATATAAAT
86153806 ATATA
1 ATATA
86153811 TATAAGCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.74
10 7 0.26
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:86153801 original size:12 final size:12
Alignment explanation
Indices: 86153772--86153815 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
86153762 CATGATTCAC
86153772 ATATAAATATAT
1 ATATAAATATAT
**
86153784 AAATATACTTATAT
1 --ATATAAATATAT
86153798 ATATAAATATAT
1 ATATAAATATAT
86153810 ATATAA
1 ATATAA
86153816 GCCATAGCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
14 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:86154801 original size:43 final size:41
Alignment explanation
Indices: 86154666--86154803 Score: 136
Period size: 43 Copynumber: 3.3 Consensus size: 41
86154656 CGTCCCAAAC
* *
86154666 GTGGTCTTACATGCAATCACATATCGATGTCACTGTCCTAGAT
1 GTGGTCTTACATG-AATCACATATCGATGCCAATGTCC-AGAT
* * * *
86154709 AG-GGTCTTACACGAATCAAATA-CGATTCCAATGTCCCAGAC
1 -GTGGTCTTACATGAATCACATATCGATGCCAATGT-CCAGAT
*
86154750 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCTCAGAT
1 GTGGTCTTACATG-AATCACATATCGATGCCAATGTC-CAGAT
*
86154793 GTGATCTTACA
1 GTGGTCTTACA
86154804 CGAGAATACA
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
41 22 0.29
42 19 0.25
43 34 0.45
44 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
GTGGTCTTACATGAATCACATATCGATGCCAATGTCCAGAT
Found at i:86154801 original size:84 final size:84
Alignment explanation
Indices: 86154652--86154806 Score: 215
Period size: 84 Copynumber: 1.8 Consensus size: 84
86154642 TTGTGCAATG
* * * *
86154652 CCAACGTCCCAAACGTGGTCTTACATGCAATCACATATCGATGTCACTGTCCTAGATAGGGTCTT
1 CCAACGTCCCAAACATGGTCTTACATGCAATCACATATCGATGCCAATGTCCTAGATAGGATCTT
86154717 ACACGAATCAAATACGATT
66 ACACGAATCAAATACGATT
* * *
86154736 CCAATGTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATGT-CTCAGAT-GTGATC
1 CCAACGTCCCAAACATGGTCTTACATGCAATCACATATCGATGCCAATGTCCT-AGATAG-GATC
86154799 TTACACGA
64 TTACACGA
86154807 GAATACACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 3 0.05
84 59 0.95
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (84 bp):
CCAACGTCCCAAACATGGTCTTACATGCAATCACATATCGATGCCAATGTCCTAGATAGGATCTT
ACACGAATCAAATACGATT
Found at i:86173029 original size:41 final size:43
Alignment explanation
Indices: 86172931--86173071 Score: 189
Period size: 43 Copynumber: 3.3 Consensus size: 43
86172921 ATATCGTACA
86172931 ATGCCAATGTCCCAGAC-GTGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGCAATCACATATCG
** *
86172974 ATGCCGCTGTCCCAGACAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGCAATCACATATCG
* * *
86173015 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGCAATCACATATCG
*
86173058 ATGCCAACGTCCCA
1 ATGCCAATGTCCCA
86173072 AATGTGGTCT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
41 28 0.33
42 16 0.19
43 41 0.48
44 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGCAATCACATATCG
Found at i:86175237 original size:49 final size:49
Alignment explanation
Indices: 86175184--86175279 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
86175174 ATTCGAAGCG
* *
86175184 ATCTCAAAAACGTAAAAATTATCAAAAATCGAACAAATTACATACCTTC
1 ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCTTC
86175233 ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCT
1 ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCT
86175280 AAATCAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (49 bp):
ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCTTC
Found at i:86195561 original size:28 final size:28
Alignment explanation
Indices: 86195521--86195588 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
86195511 TAGATGTACT
*
86195521 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
86195549 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
86195577 TTTATACCCCTA
1 ATTATACCCCTA
86195589 GGGTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:86195796 original size:29 final size:28
Alignment explanation
Indices: 86195694--86195785 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 28
86195684 AGGAAGCGTC
*
86195694 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
86195722 CTGGTGGCCCTGCCACATATATATCTGTT
1 CTGGTGGCACTGCCACA-AAATATCTGTT
86195751 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
86195780 CTGGTG
1 CTGGTG
86195786 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 24 0.43
29 32 0.57
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:86208405 original size:45 final size:45
Alignment explanation
Indices: 86208346--86208432 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
86208336 TATGTGATCT
* * *
86208346 GAACTCATTTAGTTGTGGTCTGATTTCATGATATATGTGACATTC
1 GAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATTC
*
86208391 GAACTAATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACA
1 GAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACA
86208433 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.39
Consensus pattern (45 bp):
GAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATTC
Found at i:86234885 original size:50 final size:50
Alignment explanation
Indices: 86234766--86235244 Score: 444
Period size: 50 Copynumber: 9.5 Consensus size: 50
86234756 ATTGTGAGAA
* *** *
86234766 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
*
86234818 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
86234868 CACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
** * * *
86234919 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** *
86234969 CACATGTGTAGTACTAAGTGTAGGCTACTACATGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
86235019 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * *
86235070 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA-GT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** *
86235119 CACGA-GTGTAGTACTAAGTGTAGGCTACTACATGTACTAGATAGTTAGGT
1 CAC-ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
86235169 CGCATGTGTAATACTAAGTGCAGGCTATTATGCGTACCAGCTAGCTTCGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGT
* * * * *
86235220 TACAAGGGTAGTAATATGTGCAGGC
1 CACATGTGTAGTACTAAGTGCAGGC
86235245 AACCGTGTAT
Statistics
Matches: 344, Mismatches: 74, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
49 44 0.13
50 160 0.47
51 100 0.29
52 40 0.12
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:86234954 original size:101 final size:99
Alignment explanation
Indices: 86234766--86235208 Score: 438
Period size: 101 Copynumber: 4.4 Consensus size: 99
86234756 ATTGTGAGAA
* * * *** *
86234766 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAG--TTA-GTCACGTGTGTAGTA
*
86234831 CTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
63 CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * *
86234868 CACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCATGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TAGTT-AGTCACGTGTGTAGTAC
* *
86234933 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
64 TAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* ** * * *
86234969 CACATGTGTAGTACTAAGTGTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTTA-GTCACGTGTGTAGTACT
* * * * * *
86235034 AAGTGCAGGCTACTATGCGTACCTGACAACTTCA-AT
65 AAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * *
86235070 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGTCACGAGTGTAGTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTTAGTCACGTGTGTAGTACTA
* * *
86235135 AGTGTAGGCTACTACATGTACTAGATAGTTAGGT
66 AGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
86235169 CGCATGTGTAATACTAAGTGCAGGCTATTATGCGTACCAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG
86235209 CTAGCTTCGG
Statistics
Matches: 274, Mismatches: 61, Indels: 15
0.78 0.17 0.04
Matches are distributed among these distances:
98 1 0.00
99 38 0.14
100 72 0.26
101 127 0.46
102 36 0.13
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (99 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTTAGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:86235042 original size:151 final size:151
Alignment explanation
Indices: 86234770--86235206 Score: 698
Period size: 151 Copynumber: 2.9 Consensus size: 151
86234760 TGAGAACACA
* * * * *
86234770 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACATGTGTAGTACTAA
* ** * * *
86234835 GTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTATAGTACTAAGTGCAGGCTACTATG
64 GTGTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
*
86234900 CGTACCCGACAACTTCAATCATG
129 CGTACCCGACAACTTCAATCACG
86234923 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
86234988 GTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
*
86235053 TACCTGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
86235074 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA-GTCACGA-GTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAC-ATGTGTAGTACTAAG
* *
86235137 TGTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAATACTAAGTGCAGGCTATTATGC
65 TGTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
86235202 GTACC
130 GTACC
86235207 AGCTAGCTTC
Statistics
Matches: 268, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
150 86 0.32
151 146 0.54
153 36 0.13
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
GTAGGCTACTACATGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGACAACTTCAATCACG
Done.