Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 189 of 190
Found at i:32963860 original size:11 final size:11
Alignment explanation
Indices: 32963834--32963879 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
32963824 GTTTTAATTT
*
32963834 TTTTATATATTA
1 TTTTA-ATAATA
32963846 TTTTAATAATA
1 TTTTAATAATA
32963857 TTTTAAT-ATA
1 TTTTAATAATA
*
32963867 TTTAAATAA-A
1 TTTTAATAATA
32963877 TTT
1 TTT
32963880 ATATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 13 0.42
12 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAATAATA
Found at i:32963868 original size:21 final size:22
Alignment explanation
Indices: 32963834--32963886 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
32963824 GTTTTAATTT
*
32963834 TTTTATATATTATTTTAATAATA
1 TTTTATATATTATTTAAATAA-A
32963857 TTTTA-ATA-TATTTAAATAAA
1 TTTTATATATTATTTAAATAAA
32963877 TTTATATATA
1 TTT-TATATA
32963887 AAATAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 6 0.22
23 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATATATTATTTAAATAAA
Found at i:32965329 original size:10 final size:10
Alignment explanation
Indices: 32965308--32965336 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32965298 TCTTAAAAAA
32965308 TATTTTTT-T
1 TATTTTTTCT
32965317 TATTTTTTCT
1 TATTTTTTCT
32965327 TATTTTTTCT
1 TATTTTTTCT
32965337 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (10 bp):
TATTTTTTCT
Found at i:32965384 original size:16 final size:16
Alignment explanation
Indices: 32965363--32965408 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
32965353 AAAAAACCTT
32965363 AAAAATAAAAAAACAA
1 AAAAATAAAAAAACAA
* *
32965379 ATAAATAAAAATACAA
1 AAAAATAAAAAAACAA
32965395 AAAAATCAAAAAAA
1 AAAAAT-AAAAAAA
32965409 TGAAATGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAATAAAAAAACAA
Found at i:32966249 original size:13 final size:13
Alignment explanation
Indices: 32966231--32966271 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
32966221 AACCACATTT
*
32966231 TTTTTATTTTTTA
1 TTTTTATTTTTAA
32966244 TTTTTATCTTTTAA
1 TTTTTAT-TTTTAA
*
32966258 TTATTATTTTTAA
1 TTTTTATTTTTAA
32966271 T
1 T
32966272 AAAGTCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:32966528 original size:40 final size:40
Alignment explanation
Indices: 32966484--32966734 Score: 153
Period size: 40 Copynumber: 6.1 Consensus size: 40
32966474 AATGACTTCA
* *
32966484 AAAAATAAAGGCTTCTATAAATAGAGGCTTAACAACTTTG
1 AAAAATAAAGGCTCCTATAAACAGAGGCTTAACAACTTTG
* ** * *
32966524 AAAAATAAAAGCTCCCCTAAACAAAAG-TTCAACAACTTTG
1 AAAAATAAAGGCTCCTATAAACAGAGGCTT-AACAACTTTG
* *
32966564 AAAAATAAAGGCTCCTTTAAACAGAGGCTCAACAACTTTG
1 AAAAATAAAGGCTCCTATAAACAGAGGCTTAACAACTTTG
* *** * * * *
32966604 AAAAGTAAATAATATTTCTCTAAACAGATGCTTAATAACTTTG
1 AAAA--ATA-AAGGCTCCTATAAACAGAGGCTTAACAACTTTG
* ** * * * * *
32966647 AAAAATAAATAATGCTATTCTAAACAGAGGTTTCATAACTTTA
1 AAAAAT--A-AAGGCTCCTATAAACAGAGGCTTAACAACTTTG
* * * * * *
32966690 AAAAATAAAAGCTTCTTTAAACAAAGACTTAACAACTTTT
1 AAAAATAAAGGCTCCTATAAACAGAGGCTTAACAACTTTG
32966730 AAAAA
1 AAAAA
32966735 AAGTAAATCT
Statistics
Matches: 163, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
39 2 0.01
40 94 0.58
41 3 0.02
42 2 0.01
43 62 0.38
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.27
Consensus pattern (40 bp):
AAAAATAAAGGCTCCTATAAACAGAGGCTTAACAACTTTG
Found at i:32966669 original size:43 final size:43
Alignment explanation
Indices: 32966581--32966698 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
32966571 AAGGCTCCTT
* * * *
32966581 TAAACAGAGGCTCAACAACTTTGAAAAGTAAATAATATTTCTC
1 TAAACAGAGGCTTAATAACTTTGAAAAATAAATAATATATCTC
* *
32966624 TAAACAGATGCTTAATAACTTTGAAAAATAAATAATGCTAT-TC
1 TAAACAGAGGCTTAATAACTTTGAAAAATAAATAAT-ATATCTC
* * *
32966667 TAAACAGAGGTTTCATAACTTTAAAAAATAAA
1 TAAACAGAGGCTTAATAACTTTGAAAAATAAA
32966699 AGCTTCTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 62 0.97
44 2 0.03
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (43 bp):
TAAACAGAGGCTTAATAACTTTGAAAAATAAATAATATATCTC
Found at i:32966873 original size:56 final size:56
Alignment explanation
Indices: 32966812--32966921 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
32966802 TGCCCATAAG
32966812 TCTTACAAATCATTCATAACATCAAGGATTAAACGATCAAACTAAAGATTAAGGGA
1 TCTTACAAATCATTCATAACATCAAGGATTAAACGATCAAACTAAAGATTAAGGGA
** **
32966868 TCTTACAAATCATTTTTAACATCAAGGATTAAGGGATCAAACTAAAGATTAAGG
1 TCTTACAAATCATTCATAACATCAAGGATTAAACGATCAAACTAAAGATTAAGG
32966922 ATTAAGGGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (56 bp):
TCTTACAAATCATTCATAACATCAAGGATTAAACGATCAAACTAAAGATTAAGGGA
Found at i:32971873 original size:20 final size:21
Alignment explanation
Indices: 32971848--32971908 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
32971838 TAGAATGTTA
32971848 TAAAATTATTTTTTAATA-TT
1 TAAAATTATTTTTTAATACTT
* *
32971868 TAAAATTCTTATCTTTTATACTT
1 TAAAATTATT-T-TTTAATACTT
32971891 TAAAATTATTTTTATAAT
1 TAAAATTATTTTT-TAAT
32971909 TTTTTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.27
21 3 0.09
22 10 0.30
23 11 0.33
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAATTATTTTTTAATACTT
Found at i:32975875 original size:24 final size:24
Alignment explanation
Indices: 32975843--32975903 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
32975833 TATCAATTTT
*
32975843 TAAATTTTTATATAT-TATTTTAA
1 TAAATTTTTATATATATATTTAAA
*
32975866 TAAGATTTTTTTA-ATATATTTAAA
1 TAA-ATTTTTATATATATATTTAAA
*
32975890 TAAATTTATATATA
1 TAAATTTTTATATA
32975904 AAATAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TAAATTTTTATATATATATTTAAA
Found at i:32976701 original size:75 final size:73
Alignment explanation
Indices: 32976554--32976701 Score: 174
Period size: 79 Copynumber: 2.0 Consensus size: 73
32976544 TTAAAACCTT
* **
32976554 AACTATGATTAAGAAATTAACAAAAGATTTTATACTAAAATTAATGGATAGAAGATTTATGTGAC
1 AACTATGATTAAGAAATTAACAAAAGATTTTAAACTAAAATTAATGGATAGAAGA--TATGACAC
**
32976619 GGCAAAAAGA
64 AACAAAAAGA
32976629 AACTATGATTAAGAAATTAACAAAAGAAAGATTTTAAACTAAAATTAATGGATAGAAGA-A-GAC
1 AACTATGATTAAGAAATTAAC---A-AAAGATTTTAAACTAAAATTAATGGATAGAAGATATGAC
*
32976692 ACAATAAAAA
62 ACAACAAAAA
32976702 TCGACAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
75 29 0.46
76 1 0.02
78 1 0.02
79 32 0.51
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (73 bp):
AACTATGATTAAGAAATTAACAAAAGATTTTAAACTAAAATTAATGGATAGAAGATATGACACAA
CAAAAAGA
Found at i:32976960 original size:34 final size:34
Alignment explanation
Indices: 32976922--32976997 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
32976912 TTAAAAATTT
*
32976922 CAAATTTGTCATCAGAACAAATAAATAAAACAAC
1 CAAATTTGTCACCAGAACAAATAAATAAAACAAC
*
32976956 CAAATTTGTCGCCAGAACAAATAAATAAAACAAC
1 CAAATTTGTCACCAGAACAAATAAATAAAACAAC
32976990 CAAATTTG
1 CAAATTTG
32976998 ATTCACGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.53, C:0.18, G:0.08, T:0.21
Consensus pattern (34 bp):
CAAATTTGTCACCAGAACAAATAAATAAAACAAC
Found at i:32979086 original size:11 final size:11
Alignment explanation
Indices: 32979060--32979105 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
32979050 GTTTTAATTT
*
32979060 TTTTATATATTA
1 TTTTA-ATAATA
32979072 TTTTAATAATA
1 TTTTAATAATA
32979083 TTTTAAT-ATA
1 TTTTAATAATA
*
32979093 TTTAAATAA-A
1 TTTTAATAATA
32979103 TTT
1 TTT
32979106 ATATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 13 0.42
12 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAATAATA
Found at i:32979094 original size:21 final size:22
Alignment explanation
Indices: 32979060--32979112 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
32979050 GTTTTAATTT
*
32979060 TTTTATATATTATTTTAATAATA
1 TTTTATATATTATTTAAATAA-A
32979083 TTTTA-ATA-TATTTAAATAAA
1 TTTTATATATTATTTAAATAAA
32979103 TTTATATATA
1 TTT-TATATA
32979113 AAATAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 6 0.22
23 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATATATTATTTAAATAAA
Found at i:32980232 original size:26 final size:27
Alignment explanation
Indices: 32980186--32980238 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
32980176 TTGGAACAAA
32980186 TTTAAAAAATTTCTCACTTTGAAATTT
1 TTTAAAAAATTTCTCACTTTGAAATTT
32980213 TTTAAAAAATTTAC-CA-TTTGAAATTT
1 TTTAAAAAATTT-CTCACTTTGAAATTT
32980239 CTAATAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 10 0.40
27 14 0.56
28 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
TTTAAAAAATTTCTCACTTTGAAATTT
Found at i:32980497 original size:11 final size:11
Alignment explanation
Indices: 32980469--32980498 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32980459 TTCTTAAAAA
*
32980469 TATTTTATTTT
1 TATTTTTTTTT
32980480 TATTTTTTTTT
1 TATTTTTTTTT
32980491 TATTTTTT
1 TATTTTTT
32980499 CTAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:32980555 original size:23 final size:21
Alignment explanation
Indices: 32980527--32980576 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
32980517 AAAAAACCTT
32980527 AAAAATA-AAAAAACACATAAATA
1 AAAAATACAAAAAA-A-ATAAA-A
32980550 AAAAATACAAAAAAAATAAAA
1 AAAAATACAAAAAAAATAAAA
32980571 AAAAAT
1 AAAAAT
32980577 GAAATGGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.27
22 5 0.19
23 8 0.31
24 6 0.23
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAATACAAAAAAAATAAAA
Found at i:32980564 original size:10 final size:11
Alignment explanation
Indices: 32980527--32980575 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
32980517 AAAAAACCTT
32980527 AAAAATAAAAA
1 AAAAATAAAAA
* *
32980538 AACACATAAATA
1 AA-AAATAAAAA
*
32980550 AAAAATACAAA
1 AAAAATAAAAA
32980561 AAAAATAAAAA
1 AAAAATAAAAA
32980572 AAAA
1 AAAA
32980576 TGAAATGGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:32980847 original size:40 final size:40
Alignment explanation
Indices: 32980733--32981047 Score: 227
Period size: 40 Copynumber: 7.6 Consensus size: 40
32980723 CTCAAACTTC
* * * * *
32980733 CTCTAAATAGAGGTTTAATAACTTTAAAAAATAAAATTAAGCTC
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAAT-AAA-T--GCTT
* * ** ** *
32980777 CTCTAAGCAGAGACTTAATGACTTCAAAAAATAAAGGCTT
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAATAAATGCTT
* * *
32980817 CTATAAACAGAGGCTTAACAACTTTGAAAAATAAAAGCTC
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAATAAATGCTT
* * * * *
32980857 CCCTAAACAAAAGTTTAACAACTTTGAAAAATAAATGCTC
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAATAAATGCTT
* * **
32980897 CTTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAATATTT
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAAT--A-AATGCTT
* *
32980940 CTCTAAACAGATGCTCAACAACTTTGAAAAATAAATAATGCTAT
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAAT--A-AATGCT-T
* * * *
32980984 -TCTAAACAGAGGTTTCATAACTTTGAAAAATAAAAGCTT
1 CTCTAAACAGAGGCTTAACAACTTTGAAAAATAAATGCTT
* * *
32981023 CTTTAAACAAAGACTTAACAACTTT
1 CTCTAAACAGAGGCTTAACAACTTT
32981048 TTAAAAAAAT
Statistics
Matches: 218, Mismatches: 48, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.00
40 117 0.54
41 1 0.00
42 1 0.00
43 71 0.33
44 27 0.12
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (40 bp):
CTCTAAACAGAGGCTTAACAACTTTGAAAAATAAATGCTT
Found at i:32980961 original size:43 final size:43
Alignment explanation
Indices: 32980820--32981017 Score: 162
Period size: 43 Copynumber: 4.7 Consensus size: 43
32980810 AAGGCTTCTA
* * ***
32980820 TAAACAGAGGCTTAACAACTTTGAAAAAT-AA-AA-GCTCCCC
1 TAAACAGAGGCTCAACAACTTTGAAAAATAAATAATGATATTC
* * * * * *
32980860 TAAACAAAAGTTTAACAACTTTGAAAAAT--A-AATGCTCCTT-
1 TAAACAGAGGCTCAACAACTTTGAAAAATAAATAATGAT-ATTC
*
32980900 TAAACAGAGGCTCAACAACTTTGAAAAATAAATAAT-ATTTCTC
1 TAAACAGAGGCTCAACAACTTTGAAAAATAAATAATGATAT-TC
* *
32980943 TAAACAGATGCTCAACAACTTTGAAAAATAAATAATGCTATTC
1 TAAACAGAGGCTCAACAACTTTGAAAAATAAATAATGATATTC
* *
32980986 TAAACAGAGGTTTC-ATAACTTTGAAAAATAAA
1 TAAACAGAGG-CTCAACAACTTTGAAAAATAAA
32981018 AGCTTCTTTA
Statistics
Matches: 132, Mismatches: 17, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
39 3 0.02
40 54 0.41
41 2 0.02
42 3 0.02
43 66 0.50
44 4 0.03
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (43 bp):
TAAACAGAGGCTCAACAACTTTGAAAAATAAATAATGATATTC
Found at i:32981027 original size:126 final size:123
Alignment explanation
Indices: 32980815--32981047 Score: 304
Period size: 126 Copynumber: 1.9 Consensus size: 123
32980805 AAATAAAGGC
* *
32980815 TTCTATAAACAGAGGCTTAACAACTTTGAAAAATAAAAGCTCCCCTAAACAAAAGTTTAACAACT
1 TTCTATAAACAGAGGCTCAACAACTTTGAAAAATAAAAGCTACCCTAAACAAAAGTTTAACAACT
* * *
32980880 TTGAAAAATAAATGCTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAATAT
66 TTGAAAAATAAAAGCTCCTTTAAACAAAGACTCAACAACTTTGAAAAATAAATAATAT
* * ** * * * *
32980938 TTCTCTAAACAGATGCTCAACAACTTTGAAAAATAAATAATGCTATTCTAAACAGAGGTTTCATA
1 TTCTATAAACAGAGGCTCAACAACTTTGAAAAAT-AA-AA-GCTACCCTAAACAAAAGTTTAACA
* *
32981003 ACTTTGAAAAATAAAAGCTTCTTTAAACAAAGACTTAACAACTTT
63 ACTTTGAAAAATAAAAGCTCCTTTAAACAAAGACTCAACAACTTT
32981048 TTAAAAAAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
123 31 0.34
124 2 0.02
125 2 0.02
126 57 0.62
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (123 bp):
TTCTATAAACAGAGGCTCAACAACTTTGAAAAATAAAAGCTACCCTAAACAAAAGTTTAACAACT
TTGAAAAATAAAAGCTCCTTTAAACAAAGACTCAACAACTTTGAAAAATAAATAATAT
Found at i:32988247 original size:3 final size:3
Alignment explanation
Indices: 32988239--32988264 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32988229 TCGGTTTCTT
32988239 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
32988265 TAAAAATAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32988427 original size:20 final size:21
Alignment explanation
Indices: 32988402--32988457 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
32988392 TAGAATGTTA
32988402 TAAAATTATTTTTTAATA-TT
1 TAAAATTATTTTTTAATACTT
* *
32988422 TAAAATTCTTATCTTTTATACTT
1 TAAAATTATT-T-TTTAATACTT
32988445 TAAAATTATTTTT
1 TAAAATTATTTTT
32988458 ATAAGTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 9 0.30
21 3 0.10
22 7 0.23
23 11 0.37
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TAAAATTATTTTTTAATACTT
Found at i:32990362 original size:24 final size:22
Alignment explanation
Indices: 32990305--32990365 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
32990295 ATAATTATTT
* *
32990305 TATATATAAATTTATTTAAATA
1 TATATAAAAATTTATTAAAATA
*
32990327 TATTAAAAAAATCTTATTAAAATAA
1 TA-TATAAAAAT-TTATTAAAAT-A
32990352 TATATAAAAATTTA
1 TATATAAAAATTTA
32990366 AAAATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 2 0.06
23 10 0.31
24 17 0.53
25 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATAAAAATTTATTAAAATA
Found at i:32991357 original size:66 final size:66
Alignment explanation
Indices: 32991251--32991380 Score: 251
Period size: 66 Copynumber: 2.0 Consensus size: 66
32991241 ATGAAGAAAG
32991251 TCACCACCAAAAAGATTAGTGCCAAAAGCTCTCAAAATCATCTTTCTCTCTCTCTCTCTCTCTCT
1 TCACCACCAAAAAGATTAGTGCCAAAAGCTCTCAAAATCATCTTTCTCTCTCTCTCTCTCTCTCT
32991316 C
66 C
*
32991317 TCACCACCAAAAAGATTAGTGCCAAAAGCTCTCAAAATCATCTTTTTCTCTCTCTCTCTCTCTC
1 TCACCACCAAAAAGATTAGTGCCAAAAGCTCTCAAAATCATCTTTCTCTCTCTCTCTCTCTCTC
32991381 AAATCTCTAG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.28, C:0.34, G:0.06, T:0.32
Consensus pattern (66 bp):
TCACCACCAAAAAGATTAGTGCCAAAAGCTCTCAAAATCATCTTTCTCTCTCTCTCTCTCTCTCT
C
Found at i:32991407 original size:13 final size:13
Alignment explanation
Indices: 32991391--32991416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32991381 AAATCTCTAG
32991391 TAATTATCAAGAT
1 TAATTATCAAGAT
32991404 TAATTATCAAGAT
1 TAATTATCAAGAT
32991417 GTTCAATAAA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TAATTATCAAGAT
Found at i:32991782 original size:20 final size:20
Alignment explanation
Indices: 32991746--32991784 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32991736 GTAATATCCT
*
32991746 ATAATTATGTTTAAACAAAA
1 ATAATTATGTATAAACAAAA
32991766 ATAATTAT-TATATAACAAA
1 ATAATTATGTATA-AACAAA
32991785 TAATCATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAATTATGTATAAACAAAA
Found at i:32992783 original size:20 final size:20
Alignment explanation
Indices: 32992722--32992784 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
32992712 TTAATATAAA
32992722 AAATA-TAAAAAATAATTTTT
1 AAATATTAAAAAATAA-TTTT
* * * *
32992742 TAGTATGAAAAATAAGAATTTT
1 AAATAT-TAAAA-AATAATTTT
32992764 AAATATTAAAAAATAATTTT
1 AAATATTAAAAAATAATTTT
32992784 A
1 A
32992785 GAACATTCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 12 0.38
21 4 0.12
22 12 0.38
23 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATATTAAAAAATAATTTT
Found at i:32996551 original size:340 final size:340
Alignment explanation
Indices: 32995968--32996584 Score: 852
Period size: 340 Copynumber: 1.8 Consensus size: 340
32995958 TTTTAATAAG
32995968 AAAATTGAACTTAAGTCTAGGACTTTCTTTGTCAGATGTTTGTCTAGTTCAAAACTTTTCTTTTT
1 AAAATTGAACTTAAGTCTAGGACTTTCTTTGTCAGATGTTTGTCTAGTTCAAAACTTTTCTTTTT
* *
32996033 TGGATTGAAAAAACGAAAAGTTGCACGATTTGATGACAACTTTATTGTTAGACCTAGTTTATCAT
66 TGGATTGAAAAAACGAAAAGTTGCAAGATTTGATGACAACTCTATTGTTAGACCTAGTTTATCAT
*
32996098 GCAATACATACCAGATATGCATGAAAACTTTAAGGTTGTGCTGGTGCATCAAGTTTTCTAGCAAC
131 GCAATACATACCAGATATGCACGAAAACTTTAAGGTTGTGCTGGTGCATCAAGTTTTCTAGCAAC
** * * *
32996163 ACCTAACACAGACAAATTAGAAATATTTATATGCACGAAACATTTTGGAAAACATTCGACTTCGA
196 AAATAACACAAACAAA-TAGAAATATGTACATGCACGAAACATTTTGGAAAACATTCGACTTCGA
*
32996228 ACAATATTGGAAGATTTTAGGCTTTTCTAGCTCATACATATATTATTGTCTTCTAGAACAAGTTA
260 ACAATATCGGAAGATTTTAGGCTTTTCTAGCTCATACATATATTATTGTCTTCTAGAACAAGTTA
32996293 TGGAACCCCAATGAAA
325 TGGAACCCCAATGAAA
** * *
32996309 AAAATTGAACTTGTGTGTAGGATTTTCTTTGTCAGATGTTTGTCTAGTTCAAAACTTTTCTTTTT
1 AAAATTGAACTTAAGTCTAGGACTTTCTTTGTCAGATGTTTGTCTAGTTCAAAACTTTTCTTTTT
* * * * *
32996374 TGGATTGAAAACA-GAAAAGTTG-AGAGATTTGATGGCGACTCTGTTGTCT-GAGCTAGTTTATC
66 TGGATTGAAAAAACGAAAAGTTGCA-AGATTTGATGACAACTCTATTGT-TAGACCTAGTTTATC
* *
32996436 ATGCAATGCATACCAGATATGCACGAAAACTTAATTTTAAGGTTTTGCTGGTGCATCAAGTTTTC
129 ATGCAATACATACCAGATATGCACGAAAAC-----TTTAAGGTTGTGCTGGTGCATCAAGTTTTC
* * * * * *
32996501 TTGCAATAAATAACAGAAAC-AA-A-CAA-ATGTACATGCACGAAACGTTTTGGAAAACATTGGA
189 TAGCAACAAATAACACAAACAAATAGAAATATGTACATGCACGAAACATTTTGGAAAACATTCGA
* * *
32996562 CTTGGAAGAATGTCGGAAGATTT
254 CTTCGAACAATATCGGAAGATTT
32996585 AAGCCTTTGC
Statistics
Matches: 240, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
339 1 0.00
340 117 0.49
341 76 0.32
342 1 0.00
344 2 0.01
345 43 0.18
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (340 bp):
AAAATTGAACTTAAGTCTAGGACTTTCTTTGTCAGATGTTTGTCTAGTTCAAAACTTTTCTTTTT
TGGATTGAAAAAACGAAAAGTTGCAAGATTTGATGACAACTCTATTGTTAGACCTAGTTTATCAT
GCAATACATACCAGATATGCACGAAAACTTTAAGGTTGTGCTGGTGCATCAAGTTTTCTAGCAAC
AAATAACACAAACAAATAGAAATATGTACATGCACGAAACATTTTGGAAAACATTCGACTTCGAA
CAATATCGGAAGATTTTAGGCTTTTCTAGCTCATACATATATTATTGTCTTCTAGAACAAGTTAT
GGAACCCCAATGAAA
Found at i:32997748 original size:23 final size:23
Alignment explanation
Indices: 32997709--32997753 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32997699 TTATAAAAAT
*
32997709 AATTTTAAAGTACAAAAGATAAG
1 AATTTTAAAGTACAAAAAATAAG
*
32997732 AATTTTAAA-TATTAAAAAATAA
1 AATTTTAAAGTA-CAAAAAATAA
32997754 TTTTATAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (23 bp):
AATTTTAAAGTACAAAAAATAAG
Found at i:32999336 original size:21 final size:20
Alignment explanation
Indices: 32999312--32999365 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
32999302 AAAAAATTAT
*
32999312 AAAAATAATTTTTTAGTATG
1 AAAAATAATTTTTTAATATG
** *
32999332 AAAAATAAGGATTTTAATATTA
1 AAAAATAA-TTTTTTAATA-TG
32999354 AAAAATAATTTT
1 AAAAATAATTTT
32999366 AGAACATTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 8 0.31
21 9 0.35
22 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
AAAAATAATTTTTTAATATG
Found at i:33005726 original size:152 final size:152
Alignment explanation
Indices: 33005537--33005899 Score: 708
Period size: 152 Copynumber: 2.4 Consensus size: 152
33005527 AAGAGAAAAC
33005537 CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCATCTTTT
1 CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCATCTTTT
*
33005602 TCCGAAGCCACTTTTAGTGTGAACTTCCTTGGATATGATATGATTTATCTTCTTAAAAATATTCC
66 TCCGAAGCCACTTTCAGTGTGAACTTCCTTGGATATGATATGATTTATCTTCTTAAAAATATTCC
33005667 TTGGATGAAATGTGCCCTTATT
131 TTGGATGAAATGTGCCCTTATT
33005689 CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCATCTTTT
1 CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCATCTTTT
*
33005754 TCCGAAGCCACTTTCAGTGTGTACTTCCTTGGATATGATATGATTTATCTTCTTAAAAATATTCC
66 TCCGAAGCCACTTTCAGTGTGAACTTCCTTGGATATGATATGATTTATCTTCTTAAAAATATTCC
33005819 TTGGATGAAATGTGCCCTTATT
131 TTGGATGAAATGTGCCCTTATT
33005841 CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCA
1 CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCA
33005900 AGGAATATTT
Statistics
Matches: 209, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 209 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (152 bp):
CTTAATCATATCCAAGGAATGATATGATATGATTTAAGAATAAGGGCACATTTCATCCATCTTTT
TCCGAAGCCACTTTCAGTGTGAACTTCCTTGGATATGATATGATTTATCTTCTTAAAAATATTCC
TTGGATGAAATGTGCCCTTATT
Found at i:33007681 original size:27 final size:27
Alignment explanation
Indices: 33007643--33007743 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
33007633 TTAATGGCAA
*
33007643 GATCCCTTAATCCTTAATCTTTAGTTT
1 GATCTCTTAATCCTTAATCTTTAGTTT
* * * * **
33007670 GATCACTTAATCCTTGATGTTAAGAAT
1 GATCTCTTAATCCTTAATCTTTAGTTT
* * *
33007697 GATTTGTAAGATCCCTTAATCTTTAGTTT
1 GATCTCTTA-AT-CCTTAATCTTTAGTTT
*
33007726 GATCTTTTAATCCTTAAT
1 GATCTCTTAATCCTTAAT
33007744 GTTATGAATG
Statistics
Matches: 54, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
27 33 0.61
28 4 0.07
29 17 0.31
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (27 bp):
GATCTCTTAATCCTTAATCTTTAGTTT
Found at i:33007716 original size:56 final size:56
Alignment explanation
Indices: 33007654--33007763 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
33007644 ATCCCTTAAT
*
33007654 CCTTAATCTTTAGTTTGATCACTTAATCCTTGATGTTAAGAATGATTTGTAAGATC
1 CCTTAATCTTTAGTTTGATCACTTAATCCTTAATGTTAAGAATGATTTGTAAGATC
** *
33007710 CCTTAATCTTTAGTTTGATCTTTTAATCCTTAATGTTATGAATGATTTGTAAGA
1 CCTTAATCTTTAGTTTGATCACTTAATCCTTAATGTTAAGAATGATTTGTAAGA
33007764 CTTATGGGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (56 bp):
CCTTAATCTTTAGTTTGATCACTTAATCCTTAATGTTAAGAATGATTTGTAAGATC
Found at i:33007885 original size:40 final size:40
Alignment explanation
Indices: 33007841--33008008 Score: 142
Period size: 40 Copynumber: 4.1 Consensus size: 40
33007831 GGATTTACTT
* * * *
33007841 TTTTTAAAAGTTGTTAAGTCTTTGTTTAAAGAAGCTTTTA
1 TTTTTCAAAGTTATTAAGCCTCTGTTTAAAGAAGCTTTTA
* * * *
33007881 TTTTTCAAAGTTATGAAACCTCTATTTAGAA-TAGCATTATTTA
1 TTTTTCAAAGTTATTAAGCCTCTGTTTA-AAGAAGC--T-TTTA
* * * * *
33007924 TTTTTCAAAGTTGTTGAA-CTTTTGTTTAAGGGAGCTTTTA
1 TTTTTCAAAGTTATT-AAGCCTCTGTTTAAAGAAGCTTTTA
* *
33007964 TTTTTCAAAGTTATTAAGCCTCTGTTTATAGAAGCCTTTA
1 TTTTTCAAAGTTATTAAGCCTCTGTTTAAAGAAGCTTTTA
33008004 TTTTT
1 TTTTT
33008009 TGAAGTCATT
Statistics
Matches: 99, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
39 2 0.02
40 63 0.64
41 3 0.03
42 2 0.02
43 27 0.27
44 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.49
Consensus pattern (40 bp):
TTTTTCAAAGTTATTAAGCCTCTGTTTAAAGAAGCTTTTA
Found at i:33008254 original size:18 final size:16
Alignment explanation
Indices: 33008226--33008265 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 16
33008216 GACTTTATTA
33008226 AAAATAATAATTAAAAGAT
1 AAAA-AATAA-TAAAA-AT
33008245 AAAAAATAATAAAAAT
1 AAAAAATAATAAAAAT
33008261 AAAAA
1 AAAAA
33008266 TAAAAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 5 0.24
19 4 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAATAATAAAAAT
Found at i:33008265 original size:24 final size:22
Alignment explanation
Indices: 33008225--33008272 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
33008215 GGACTTTATT
*
33008225 AAAAATAAT--AATTAAAAGATA
1 AAAAATAATAAAAATAAAA-ATA
33008246 AAAAATAATAAAAATAAAAATA
1 AAAAATAATAAAAATAAAAATA
33008268 AAAAA
1 AAAAA
33008273 GGTGGTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAATAATAAAAATAAAAATA
Found at i:33008271 original size:21 final size:20
Alignment explanation
Indices: 33008224--33008268 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
33008214 TGGACTTTAT
*
33008224 TAAAAATAATAATTAAAAGA
1 TAAAAATAATAAATAAAAGA
33008244 T-AAAA-AAT-AATAAAA-A
1 TAAAAATAATAAATAAAAGA
33008260 TAAAAATAA
1 TAAAAATAA
33008269 AAAAGGTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.09
17 10 0.45
18 5 0.23
19 4 0.18
20 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
TAAAAATAATAAATAAAAGA
Found at i:33009119 original size:16 final size:15
Alignment explanation
Indices: 33009086--33009137 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
33009076 AACCGAGCCA
*
33009086 TTTTATTTTTTTGAATT
1 TTTTGTTTTTTT--ATT
33009103 TTTTGTATTTTTTATT
1 TTTTGT-TTTTTTATT
*
33009119 TATGTGTTTTTTTATT
1 T-TTTGTTTTTTTATT
33009135 TTT
1 TTT
33009138 AAGGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.03
16 14 0.47
17 9 0.30
18 6 0.20
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (15 bp):
TTTTGTTTTTTTATT
Found at i:33009431 original size:25 final size:26
Alignment explanation
Indices: 33009413--33009466 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
33009403 AATGATGAGA
*
33009413 TTCTT-AAAATTTTCAAATGGTAAAT
1 TTCTTAAAAATTTTCAAATGATAAAT
*
33009438 TTCTTAAAAATTTTCAAAGTGAGAAAT
1 TTCTTAAAAATTTTCAAA-TGATAAAT
33009465 TT
1 TT
33009467 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 12 0.48
27 8 0.32
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (26 bp):
TTCTTAAAAATTTTCAAATGATAAAT
Found at i:33009688 original size:20 final size:19
Alignment explanation
Indices: 33009654--33009693 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
33009644 ATATATTTTT
*
33009654 AATAATAAAAATTAAATAA
1 AATAAAAAAAATTAAATAA
*
33009673 AATAAAAAATAATTAATTAA
1 AATAAAAAA-AATTAAATAA
33009693 A
1 A
33009694 CATTTTTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAAAAAAAATTAAATAA
Found at i:33010575 original size:11 final size:11
Alignment explanation
Indices: 33010544--33010589 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
33010534 TTTTATATAT
*
33010544 AAAT-TTATTT
1 AAATATTATTA
33010554 AAATA-TATTA
1 AAATATTATTA
33010564 AAATATTATTA
1 AAATATTATTA
*
33010575 AAATAATATATA
1 AAATATTAT-TA
33010587 AAA
1 AAA
33010590 AAATTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 13 0.42
12 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATATTATTA
Found at i:33010578 original size:21 final size:22
Alignment explanation
Indices: 33010537--33010589 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
33010527 ATAATTATTT
*
33010537 TATATATAAATTTATTTAAAT-A
1 TATATA-AAATTTATTAAAATAA
33010559 TAT-TAAAATATTATTAAAATAA
1 TATATAAAAT-TTATTAAAATAA
33010581 TATATAAAA
1 TATATAAAA
33010590 AAATTAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 11 0.41
22 7 0.26
23 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATAAAATTTATTAAAATAA
Found at i:33013843 original size:24 final size:22
Alignment explanation
Indices: 33013786--33013846 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
33013776 ATAATTATTT
* *
33013786 TATATATAAATTTATTTAAATA
1 TATATAAAAATTTATTAAAATA
*
33013808 TATTAAAAAAATCTTATTAAAATAA
1 TA-TATAAAAAT-TTATTAAAAT-A
33013833 TATATAAAAATTTA
1 TATATAAAAATTTA
33013847 AAAATTGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 2 0.06
23 10 0.31
24 17 0.53
25 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATAAAAATTTATTAAAATA
Found at i:33015191 original size:20 final size:20
Alignment explanation
Indices: 33015155--33015193 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33015145 GTAACATCCT
*
33015155 ATAATTATGTTTAAACAAAA
1 ATAATTATGTATAAACAAAA
33015175 ATAATTAT-TATATAACAAA
1 ATAATTATGTATA-AACAAA
33015194 TATTCATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAATTATGTATAAACAAAA
Found at i:33015323 original size:31 final size:30
Alignment explanation
Indices: 33015263--33015324 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
33015253 AAGTCATAAC
* *
33015263 TATTTAAATAAAAATTTATATCTATTCATT
1 TATTTAAATAAAAATTTATATATAATCATT
*
33015293 TATTATAAAT-AAAATTTTTAGTATAATCATT
1 TATT-TAAATAAAAATTTATA-TATAATCATT
33015324 T
1 T
33015325 CTAATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (30 bp):
TATTTAAATAAAAATTTATATATAATCATT
Found at i:33016946 original size:2 final size:2
Alignment explanation
Indices: 33016934--33016965 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
33016924 ACAAAAGAAT
*
33016934 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33016966 CTTGATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:33017794 original size:2 final size:2
Alignment explanation
Indices: 33017787--33017816 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33017777 TTAGAGATTT
33017787 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
33017817 AAAGAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33018616 original size:21 final size:21
Alignment explanation
Indices: 33018573--33018651 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 21
33018563 TTTTCTTTGT
*
33018573 TTATTTTTTTAGAATGTTCTAAAA
1 TTATTTTTTT--AATATT-TAAAA
33018597 TTATTTTTTTAATATTTAAAA
1 TTATTTTTTTAATATTTAAAA
* * **
33018618 TTCTTATTTTTCATACTAAAAAA
1 TTATT-TTTTTAATA-TTTAAAA
33018641 TTATTTTTTTA
1 TTATTTTTTTA
33018652 TTTTTTATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 9 0.20
22 18 0.39
23 9 0.20
24 10 0.22
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (21 bp):
TTATTTTTTTAATATTTAAAA
Found at i:33020018 original size:2 final size:2
Alignment explanation
Indices: 33020011--33020047 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
33020001 TGGAGATTTA
33020011 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
33020048 AAGATGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33021011 original size:23 final size:22
Alignment explanation
Indices: 33020972--33021018 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
33020962 TCAATTTTTA
* * *
33020972 AATTTTTTTATATTATTTTAAT
1 AATTTTTTAAAATTATTTAAAT
33020994 AATTTTTTAAAATATATTTAAAT
1 AATTTTTTAAAAT-TATTTAAAT
33021017 AA
1 AA
33021019 ATTTATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTTTTAAAATTATTTAAAT
Found at i:33025690 original size:33 final size:33
Alignment explanation
Indices: 33025562--33025779 Score: 116
Period size: 33 Copynumber: 6.5 Consensus size: 33
33025552 AATTTTACTT
* *
33025562 ATAAATAATATT-ATATTAATAAATAATATTATATTA
1 ATAAATATTATTAATATTAATTAAT-A-ATTA-A-TA
* *
33025598 ATAAATAATA-TACTATTAATGTAATATATTAATA
1 ATAAATATTATTAATATTAAT-TAATA-ATTAATA
* *
33025632 A-ATAATATTATT-ATACTAATAAATAATGTAATA
1 ATA-AATATTATTAATATTAATTAATAAT-TAATA
*
33025665 ATAAATATTATTAAT-TTAATTAATAAATATTATA
1 ATAAATATTATTAATATTAATTAAT-AAT-TAATA
* * *
33025699 ATAGTATATTAGTAA-A-TAATATACT-ATTAAT-
1 ATA-AATATTATTAATATTAAT-TAATAATTAATA
*
33025730 ATAATATATTATTAA-ATATAATTAATAAATAATA
1 ATAA-ATATTATTAATAT-TAATTAATAATTAATA
*
33025764 TTATAATA-TATTAATA
1 ATA-AATATTATTAATA
33025780 AATAATATAA
Statistics
Matches: 145, Mismatches: 19, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
31 13 0.09
32 8 0.06
33 44 0.30
34 38 0.26
35 16 0.11
36 23 0.16
37 3 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (33 bp):
ATAAATATTATTAATATTAATTAATAATTAATA
Found at i:33025714 original size:23 final size:22
Alignment explanation
Indices: 33025562--33025789 Score: 131
Period size: 23 Copynumber: 10.4 Consensus size: 22
33025552 AATTTTACTT
33025562 ATAA-ATAATATTATATTAATAA
1 ATAATATAATA-TATATTAATAA
33025584 AT-A-AT-AT-TATATTAATAA
1 ATAATATAATATATATTAATAA
*
33025602 ATAATATACTAT-TAATGTAATATA
1 ATAATATAATATAT-AT-TAATA-A
* *
33025626 TTAATA-AATA-ATATTATTATA
1 ATAATATAATATATATTAATA-A
* * *
33025647 CTAATA-AATAATGTAATAATAA
1 ATAATATAAT-ATATATTAATAA
* *
33025669 ATATTATTAATTTA-ATTAATAA
1 ATAATA-TAATATATATTAATAA
* *
33025691 ATATTATAATAGTATATTAGTAA
1 ATAATATAATA-TATATTAATAA
* *
33025714 ATAATATACTAT-TAAT-ATAA
1 ATAATATAATATATATTAATAA
*
33025734 TATATTATTAA-ATATAATTAATAA
1 -ATAATA-TAATATAT-ATTAATAA
*
33025758 ATAATATTATAATATATTAATAA
1 ATAATATAAT-ATATATTAATAA
33025781 ATAATATAA
1 ATAATATAA
33025790 AGAATAATAA
Statistics
Matches: 160, Mismatches: 25, Indels: 41
0.71 0.11 0.18
Matches are distributed among these distances:
18 13 0.08
19 1 0.01
20 7 0.04
21 33 0.21
22 34 0.21
23 55 0.34
24 17 0.11
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAATATAATATATATTAATAA
Found at i:33025774 original size:67 final size:66
Alignment explanation
Indices: 33025562--33025788 Score: 215
Period size: 67 Copynumber: 3.5 Consensus size: 66
33025552 AATTTTACTT
* * *
33025562 ATAA-ATAATATTATATTAATAAATAATATTA-TATTAATAAATAATATACTATTAATGTAA-T-
1 ATAATATAATAATATATTAATAAATAATA-TACTATTAAT-AATAA-ATATTATTAATATAATTA
33025623 AT-A
63 ATAA
* *
33025626 TTAATA-AATAATATTATT-ATACTAATAA-ATA--ATGTAATAATAAATATTATTAATTTAATT
1 ATAATATAATAATA-TATTAATA--AATAATATACTAT-TAATAATAAATATTATTAATATAATT
33025686 AATAA
62 AATAA
* * *
33025691 ATATTATAATAGTATATTAGTAAATAATATACTATTAAT-ATAATATATTATTAAATATAATTAA
1 ATAATATAATAATATATTAATAAATAATATACTATTAATAATAA-ATATTATT-AATATAATTAA
33025755 TAA
64 TAA
*
33025758 ATAATATTATAATATATTAATAAATAATATA
1 ATAATATAATAATATATTAATAAATAATATA
33025789 AAGAATAATA
Statistics
Matches: 135, Mismatches: 13, Indels: 27
0.77 0.07 0.15
Matches are distributed among these distances:
62 13 0.10
63 8 0.06
64 25 0.19
65 22 0.16
66 25 0.19
67 42 0.31
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (66 bp):
ATAATATAATAATATATTAATAAATAATATACTATTAATAATAAATATTATTAATATAATTAATA
A
Found at i:33025815 original size:15 final size:16
Alignment explanation
Indices: 33025797--33025830 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33025787 TAAAGAATAA
*
33025797 TAAGTA-GTTTTATTT
1 TAAGTATGTTTTATAT
33025812 TAAGTATGTTTTATAT
1 TAAGTATGTTTTATAT
33025828 TAA
1 TAA
33025831 TATAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
TAAGTATGTTTTATAT
Found at i:33025887 original size:26 final size:25
Alignment explanation
Indices: 33025848--33025912 Score: 94
Period size: 26 Copynumber: 2.6 Consensus size: 25
33025838 TTTTAATATT
*
33025848 AATAATTTAATAATAAATAATTTCA
1 AATATTTTAATAATAAATAATTTCA
**
33025873 ATATATTTTAATAATAAATAATTTTT
1 A-ATATTTTAATAATAAATAATTTCA
33025899 AATATTTTAATAAT
1 AATATTTTAATAAT
33025913 TATATTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 14 0.39
26 22 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATTTTAATAATAAATAATTTCA
Found at i:33028190 original size:60 final size:61
Alignment explanation
Indices: 33028092--33028213 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 61
33028082 AGGAAGAAGC
* * * *
33028092 AGAAGAAGAAAATGATTATGATGACTTTCAGCAAGAAGG-GAAAGATGGT-AGGCTGGAGTTGGA
1 AGAAGAAGAAAATGATGATGAGGACTATCAG--AGAAGGAG-AAGATAGTGA-GCTGGAGTTGGA
*
33028155 AGAAGAAGATAATGATGATGAGGACTATCAG-GAAGGAGAAGATAGTGAGCTGGAGTTGG
1 AGAAGAAGAAAATGATGATGAGGACTATCAGAGAAGGAGAAGATAGTGAGCTGGAGTTGG
33028214 TGGAAGAGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
60 23 0.44
61 2 0.04
63 27 0.52
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (61 bp):
AGAAGAAGAAAATGATGATGAGGACTATCAGAGAAGGAGAAGATAGTGAGCTGGAGTTGGA
Found at i:33029951 original size:35 final size:35
Alignment explanation
Indices: 33029904--33029975 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
33029894 AGAGCTTCGT
*
33029904 AACTTTTTACTTGCAGGCTATTGTAGTTCACTTTG
1 AACTTTTGACTTGCAGGCTATTGTAGTTCACTTTG
* * *
33029939 AACTTTTGACTTGCAGGCTTTTGTAGTTTATTTTG
1 AACTTTTGACTTGCAGGCTATTGTAGTTCACTTTG
33029974 AA
1 AA
33029976 AACCTTTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (35 bp):
AACTTTTGACTTGCAGGCTATTGTAGTTCACTTTG
Found at i:33032613 original size:26 final size:26
Alignment explanation
Indices: 33032574--33032636 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
33032564 TACTGTAGGC
* * *
33032574 ATCCATTTTGGTCCGGA-CTAGATTGG
1 ATCCATTCTAGTCCGAATCTAG-TTGG
* *
33032600 GTCCATTCTAGTCCGAATCTCGTTGG
1 ATCCATTCTAGTCCGAATCTAGTTGG
33032626 ATCCATTCTAG
1 ATCCATTCTAG
33032637 CCCGTGCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
ATCCATTCTAGTCCGAATCTAGTTGG
Found at i:33032781 original size:3 final size:3
Alignment explanation
Indices: 33032773--33032822 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
33032763 AAGATGTGTT
33032773 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33032821 TT
1 TT
33032823 CTTTTTTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33044611 original size:32 final size:32
Alignment explanation
Indices: 33044566--33044663 Score: 101
Period size: 32 Copynumber: 3.1 Consensus size: 32
33044556 TCAGTATTGG
*
33044566 TCATCATATTTTGACTTGTGATTTCATCTCGA
1 TCATTATATTTTGACTTGTGATTTCATCTCGA
* * * * *
33044598 TCATT-TATTTTTGACCT-CGACTTGATCTTGA
1 TCATTATA-TTTTGACTTGTGATTTCATCTCGA
* *
33044629 TCATTATATTTTAACTTGTGATTTCATCCCGA
1 TCATTATATTTTGACTTGTGATTTCATCTCGA
33044661 TCA
1 TCA
33044664 CATGATTCGT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
31 24 0.48
32 26 0.52
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.47
Consensus pattern (32 bp):
TCATTATATTTTGACTTGTGATTTCATCTCGA
Found at i:33044638 original size:63 final size:63
Alignment explanation
Indices: 33044524--33044663 Score: 201
Period size: 63 Copynumber: 2.2 Consensus size: 63
33044514 ATGATTCGTG
* * *
33044524 TTTCATCCCGATCATTTATTTTTTACCTCGACTCAGTATTGGTCATCATATTTTGACTTGTGA
1 TTTCATCCCGATCATTTATTTTTGACCTCGACTCAGTATTGATCATCATATTTTAACTTGTGA
* * * *
33044587 TTTCATCTCGATCATTTATTTTTGACCTCGACT-TGATCTTGATCATTATATTTTAACTTGTGA
1 TTTCATCCCGATCATTTATTTTTGACCTCGACTCAG-TATTGATCATCATATTTTAACTTGTGA
33044650 TTTCATCCCGATCA
1 TTTCATCCCGATCA
33044664 CATGATTCGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 1 0.01
63 67 0.99
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (63 bp):
TTTCATCCCGATCATTTATTTTTGACCTCGACTCAGTATTGATCATCATATTTTAACTTGTGA
Found at i:33044800 original size:88 final size:89
Alignment explanation
Indices: 33044587--33045109 Score: 540
Period size: 88 Copynumber: 5.9 Consensus size: 89
33044577 TGACTTGTGA
* * * * *
33044587 TTTCATCTCGATCATTTATTTTTGACCTCGACTTGATCTTGATCATTATATTTTAACTTGTGATT
1 TTTCATCTCGATCATCTATTTTTGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGATT
* *
33044652 TCATCCCGATCACATGATTCGTGG
66 TCATCTCGATCACATGATTCGTAG
* * * * *
33044676 TTTCATCCCGATTATCTATTTTTAACCTCGACTCGATCTTGATCGTCATATTTTGACTCGTGGTT
1 TTTCATCTCGATCATCTATTTTTGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGATT
* * * *
33044741 TCGTCTCAACCATATGATTCGT-G
66 TCATCTCGATCACATGATTCGTAG
** * *
33044764 TTTCATCTCGATCATCTATTTTCAACTTCGACTCGATCTT-AGTCACCATATTTTGACTCGTGAT
1 TTTCATCTCGATCATCTATTTTTGACCTCGACTCGATCTTGA-TCATCATATTTTGACTCGTGAT
* *
33044828 TTTATTTCGATCACATGATT-GTAG
65 TTCATCTCGATCACATGATTCGTAG
* * * * *
33044852 TTTCATC-CTGATCATTTATTTTTGACCTCGACTCGATCTTGGTCGTCATATTTTGACTTGTGGT
1 TTTCATCTC-GATCATCTATTTTTGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGAT
* *
33044916 TTCAT-TCCGGTCACATGATTCGTGG
65 TTCATCT-CGATCACATGATTCGTAG
* * * * * *
33044941 TTTCATC-CTAATCATCTATTTTCGATCTCG-TTCGATCTTGGTCATCATATTTTGACTCATGAT
1 TTTCATCTC-GATCATCTATTTTTGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGAT
* * *
33045004 TTTATCCCGATCATATGATTCGTAG
65 TTCATCTCGATCACATGATTCGTAG
* * ** *
33045029 TTTCTTCTCGATCAT-TCATTTTTGACCTCGATTCGATCTTGATCGCCATATTTTGACTCATGAT
1 TTTCATCTCGATCATCT-ATTTTTGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGAT
* *
33045093 TTTATCCCGATCACATG
65 TTCATCTCGATCACATG
33045110 GATCATTTAT
Statistics
Matches: 362, Mismatches: 62, Indels: 20
0.82 0.14 0.05
Matches are distributed among these distances:
87 6 0.02
88 208 0.57
89 148 0.41
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (89 bp):
TTTCATCTCGATCATCTATTTTTGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGATT
TCATCTCGATCACATGATTCGTAG
Found at i:33044946 original size:177 final size:176
Alignment explanation
Indices: 33044587--33045087 Score: 600
Period size: 177 Copynumber: 2.8 Consensus size: 176
33044577 TGACTTGTGA
* * * * * * *
33044587 TTTCATCTCGATCATTTATTTTTGACCTCGACTTGATCTTGATCATTATATTTTAACTTGTGATT
1 TTTCATCTCGATCATCTATTTTCGACTTCGACTCGATCTTG-TCATCATATTTTGACTCGTGATT
* * * * * *
33044652 TCATCCCGATCACATGATTCGTGGTTTCATCCCGATTATCTATTTTTAACCTCGACTCGATCTTG
65 TTATCCCGATCACATGATTCGTAGTTTCATCCTGATCATTTATTTTTGACCTCGACTCGATCTTG
*
33044717 ATCGTCATATTTTGACTCGTGGTTTCGTCTCAACCATATGATTCGTG
130 ATCGTCATATTTTGACTCGTGGTTTCGTCTCAACCACATGATTCGTG
* *
33044764 TTTCATCTCGATCATCTATTTTCAACTTCGACTCGATCTTAGTCACCATATTTTGACTCGTGATT
1 TTTCATCTCGATCATCTATTTTCGACTTCGACTCGATCTT-GTCATCATATTTTGACTCGTGATT
**
33044829 TTATTTCGATCACATGATT-GTAGTTTCATCCTGATCATTTATTTTTGACCTCGACTCGATCTTG
65 TTATCCCGATCACATGATTCGTAGTTTCATCCTGATCATTTATTTTTGACCTCGACTCGATCTTG
* * * ***
33044893 GTCGTCATATTTTGACTTGTGGTTTCAT-TCCGGTCACATGATTCGTGG
130 ATCGTCATATTTTGACTCGTGGTTTCGTCT-CAACCACATGATTCGT-G
* * *
33044941 TTTCATC-CTAATCATCTATTTTCGA-TCTCG-TTCGATCTTGGTCATCATATTTTGACTCATGA
1 TTTCATCTC-GATCATCTATTTTCGACT-TCGACTCGATCTT-GTCATCATATTTTGACTCGTGA
* * * *
33045003 TTTTATCCCGATCATATGATTCGTAGTTTC-TTCTCGATCATTCATTTTTGACCTCGATTCGATC
63 TTTTATCCCGATCACATGATTCGTAGTTTCATCCT-GATCATTTATTTTTGACCTCGACTCGATC
*
33045067 TTGATCGCCATATTTTGACTC
127 TTGATCGTCATATTTTGACTC
33045088 ATGATTTTAT
Statistics
Matches: 278, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
175 1 0.00
176 128 0.46
177 148 0.53
178 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (176 bp):
TTTCATCTCGATCATCTATTTTCGACTTCGACTCGATCTTGTCATCATATTTTGACTCGTGATTT
TATCCCGATCACATGATTCGTAGTTTCATCCTGATCATTTATTTTTGACCTCGACTCGATCTTGA
TCGTCATATTTTGACTCGTGGTTTCGTCTCAACCACATGATTCGTG
Found at i:33045067 original size:265 final size:252
Alignment explanation
Indices: 33044586--33045340 Score: 853
Period size: 265 Copynumber: 2.9 Consensus size: 252
33044576 TTGACTTGTG
* * * *
33044586 ATTTCATCTCGATCATTTATTTTTGACCTCGACTTGATCTTGATCATTATATTTTAACTTGTGAT
1 ATTTCATCT-GATCATTTATTTTTGACCTCGACTTGATCTTGGTCATCATATTTTGACTTGTGGT
* * *
33044651 TTCATCCCGATCACATGATTCGTGGTTTCATCCCGATTATCTATTTTTAACCTCGACTCGATCTT
65 TTCATTCCGATCACATGATTCGTGGTTTCATCCTGATTATCTATTTTCAA-CTCGACTCGATCTT
* * * * *
33044716 GATCGTCATATTTTGACTCGTGGTTTCGTCTCAACCATATGATTCGTGTTTCATCTCGATCATCT
129 GGTCGTCATATTTTGACTCGTGGTTTCATCCCAATCATATGATTCGTGTTTCTTCTCGATCATCT
* * *
33044781 ATTTTCAACTTCGACTCGATCTT-AGTCACCATATTTTGACTCGTGATTTTATTTCGATCACATG
194 ATTTTTAACCTCGACTCGATCTTGA-TCACCATATTTTGACTCATGATTTTA--TC---C-C--G
*
33044845 ATTGT
250 A-T-C
* *
33044850 AGTTTCATCCTGATCATTTATTTTTGACCTCGACTCGATCTTGGTCGTCATATTTTGACTTGTGG
1 A-TTTCAT-CTGATCATTTATTTTTGACCTCGACTTGATCTTGGTCATCATATTTTGACTTGTGG
* * * * *
33044915 TTTCATTCCGGTCACATGATTCGTGGTTTCATCCTAATCATCTATTTTCGATCTCG-TTCGATCT
64 TTTCATTCCGATCACATGATTCGTGGTTTCATCCTGATTATCTATTTTC-AACTCGACTCGATCT
* * * * *
33044979 TGGTCATCATATTTTGACTCATGATTTTATCCCGATCATATGATTCGTAGTTTCTTCTCGATCAT
128 TGGTCGTCATATTTTGACTCGTGGTTTCATCCCAATCATATGATTCGT-GTTTCTTCTCGATCAT
* * *
33045044 -TCATTTTTGACCTCGATTCGATCTTGATCGCCATATTTTGACTCATGATTTTATCCCGATC
192 CT-ATTTTTAACCTCGACTCGATCTTGATCACCATATTTTGACTCATGATTTTATCCCGATC
* * * *
33045105 A---CAT-GGATCATTTATTTTTGACCTCGACTTGGTCTTGGTCTTCATGTTTTGACTTGTGGTT
1 ATTTCATCTGATCATTTATTTTTGACCTCGACTTGATCTTGGTCATCATATTTTGACTTGTGGTT
* * ** * *
33045166 TCGTTTCGATCACATGATTTATGATTTCAT-CTCGATTATCTATTTTCAACTTCGACTCAATCTT
66 TCATTCCGATCACATGATTCGTGGTTTCATCCT-GATTATCTATTTTCAAC-TCGACTCGATCTT
*
33045230 GGTCGTCATATTTTGACTCGTGGTTTCATCCCAATCACATGATTCGTGGTTT-TATCTCGATCAT
129 GGTCGTCATATTTTGACTCGTGGTTTCATCCCAATCATATGATTCGT-GTTTCT-TCTCGATCAT
* *
33045294 CTATTTTTTACCTCGACTCGATCTTGATCATCATATTTTGACTCATG
192 CTATTTTTAACCTCGACTCGATCTTGATCACCATATTTTGACTCATG
33045341 GTTTCATCTC
Statistics
Matches: 422, Mismatches: 58, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
248 4 0.01
249 92 0.22
250 103 0.24
251 4 0.01
255 1 0.00
256 1 0.00
257 2 0.00
259 1 0.00
260 1 0.00
263 2 0.00
264 48 0.11
265 159 0.38
266 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (252 bp):
ATTTCATCTGATCATTTATTTTTGACCTCGACTTGATCTTGGTCATCATATTTTGACTTGTGGTT
TCATTCCGATCACATGATTCGTGGTTTCATCCTGATTATCTATTTTCAACTCGACTCGATCTTGG
TCGTCATATTTTGACTCGTGGTTTCATCCCAATCATATGATTCGTGTTTCTTCTCGATCATCTAT
TTTTAACCTCGACTCGATCTTGATCACCATATTTTGACTCATGATTTTATCCCGATC
Found at i:33045244 original size:89 final size:89
Alignment explanation
Indices: 33045110--33045567 Score: 317
Period size: 89 Copynumber: 5.0 Consensus size: 89
33045100 CGATCACATG
* ** *** * * * * ** *
33045110 GATCATTTATTTTTGACCTCGACTTGGTCTTGGTCTTCATGTTTTGACTTGTGGTTTCGTTTCGA
1 GATCATCTATTTTCAACCTCGACTCAATCTTGGTCATCATATTTTGACTCGTGGTTTCATCCCAA
*
33045175 TCACATGATTTATGATTTCATCTC
66 TCACATGATTCATGATTTCATCTC
* * *
33045199 GATTATCTATTTTCAACTTCGACTCAATCTTGGTCGTCATATTTTGACTCGTGGTTTCATCCCAA
1 GATCATCTATTTTCAACCTCGACTCAATCTTGGTCATCATATTTTGACTCGTGGTTTCATCCCAA
* * *
33045264 TCACATGATTCGTGGTTTTATCTC
66 TCACATGATTCATGATTTCATCTC
** * * * * **
33045288 GATCATCTATTTTTTACCTCGACTCGATCTTGATCATCATATTTTGACTCATGGTTTCATCTCGG
1 GATCATCTATTTTCAACCTCGACTCAATCTTGGTCATCATATTTTGACTCGTGGTTTCATCCCAA
* *
33045353 TCATATGATTCGA-GGTTTCATCTTAGTC
66 TCACATGATTC-ATGATTTCATC----TC
* * * * * *
33045381 ACATGATTCGTGATTTT-ATTTTCGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGAT
1 -GATCA-TC-T-ATTTTCA---AC---CTCGACTCAATCTTGGTCATCATATTTTGACTCGTGGT
** *
33045445 TTCATCTGAATCACATGATTCATGATTTTATCTC
56 TTCATCCCAATCACATGATTCATGATTTCATCTC
* * *** * * * *
33045479 GATCATCTATTTTCGACATCGACTTGGTCTTGTTTATCATATTTTGACTCGTGGTTTCATCTCGA
1 GATCATCTATTTTCAACCTCGACTCAATCTTGGTCATCATATTTTGACTCGTGGTTTCATCCCAA
* *
33045544 TCACATGATTCGTGATTTTATCTC
66 TCACATGATTCATGATTTCATCTC
33045568 AGTCACATGA
Statistics
Matches: 294, Mismatches: 58, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
89 205 0.70
92 1 0.00
93 2 0.01
94 8 0.03
95 3 0.01
96 3 0.01
97 8 0.03
98 2 0.01
99 1 0.00
101 1 0.00
102 60 0.20
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (89 bp):
GATCATCTATTTTCAACCTCGACTCAATCTTGGTCATCATATTTTGACTCGTGGTTTCATCCCAA
TCACATGATTCATGATTTCATCTC
Found at i:33045339 original size:250 final size:249
Alignment explanation
Indices: 33044861--33045340 Score: 653
Period size: 250 Copynumber: 1.9 Consensus size: 249
33044851 GTTTCATCCT
*
33044861 GATCATTTATTTTTGACCTCGACTCGATCTTGGTCGTCATATTTTGACTTGTGGTTTCATTCCGG
1 GATCATTTATTTTTGACCTCGACTCGATCTTGGTCGTCATATTTTGACTTGTGGTTTCATTCCGA
* * * * *
33044926 TCACATGATTCGTGGTTTCATCCTAATCATCTATTTTCGATCTCGTTCGATCTTGGTCATCATAT
66 TCACATGATTCATGATTTCATCCTAATCATCTATTTTCAATCTCGCTCAATCTTGGTCATCATAT
* * *
33044991 TTTGACTCATGATTTTATCCCGATCATATGATTCGTAGTTTCTTCTCGATCATTCATTTTTGACC
131 TTTGACTCATGATTTCATCCCAATCACATGATTCGTAGTTTCTTCTCGATCATTCATTTTTGACC
* *
33045056 TCGATTCGATCTTGATCGCCATATTTTGACTCATGATTTTATCCCGATCACATG
196 TCGACTCGATCTTGATCACCATATTTTGACTCATGATTTTATCCCGATCACATG
* * * * * *
33045110 GATCATTTATTTTTGACCTCGACTTGGTCTTGGTCTTCATGTTTTGACTTGTGGTTTCGTTTCGA
1 GATCATTTATTTTTGACCTCGACTCGATCTTGGTCGTCATATTTTGACTTGTGGTTTCATTCCGA
* * * *
33045175 TCACATGATTTATGATTTCAT-CTCGATTATCTATTTTCAA-CTTCGACTCAATCTTGGTCGTCA
66 TCACATGATTCATGATTTCATCCT-AATCATCTATTTTCAATC-TCG-CTCAATCTTGGTCATCA
* * *
33045238 TATTTTGACTCGTGGTTTCATCCCAATCACATGATTCGTGGTTT-TATCTCGATCA-TCTATTTT
128 TATTTTGACTCATGATTTCATCCCAATCACATGATTCGTAGTTTCT-TCTCGATCATTC-ATTTT
* *
33045301 TTACCTCGACTCGATCTTGATCATCATATTTTGACTCATG
191 TGACCTCGACTCGATCTTGATCACCATATTTTGACTCATG
33045341 GTTTCATCTC
Statistics
Matches: 200, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
248 3 0.01
249 95 0.47
250 102 0.51
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.44
Consensus pattern (249 bp):
GATCATTTATTTTTGACCTCGACTCGATCTTGGTCGTCATATTTTGACTTGTGGTTTCATTCCGA
TCACATGATTCATGATTTCATCCTAATCATCTATTTTCAATCTCGCTCAATCTTGGTCATCATAT
TTTGACTCATGATTTCATCCCAATCACATGATTCGTAGTTTCTTCTCGATCATTCATTTTTGACC
TCGACTCGATCTTGATCACCATATTTTGACTCATGATTTTATCCCGATCACATG
Found at i:33045371 original size:26 final size:26
Alignment explanation
Indices: 33045340--33045390 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
33045330 TTTGACTCAT
* *
33045340 GGTTTCATCTCGGTCATATGATTCGA
1 GGTTTCATCTCAGTCACATGATTCGA
*
33045366 GGTTTCATCTTAGTCACATGATTCG
1 GGTTTCATCTCAGTCACATGATTCG
33045391 TGATTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GGTTTCATCTCAGTCACATGATTCGA
Found at i:33045536 original size:191 final size:191
Alignment explanation
Indices: 33045206--33045579 Score: 532
Period size: 191 Copynumber: 2.0 Consensus size: 191
33045196 CTCGATTATC
* * * *
33045206 TATTTTCAACTTCGACTCAATCTTGGTCGTCATATTTTGACTCGTGGTTTCATCCCAATCACATG
1 TATTTTCAACCTCGACTCAATCTTGATCATCATATTTTGACTCGTGATTTCATCCCAATCACATG
* * ** *
33045271 ATTCGTGGTTTTATCTCGATCATCTATTTTTTACCTCGACTCGATCTTGATCATCATATTTTGAC
66 ATTCATGATTTTATCTCGATCATCTATTTTCGACATCGACTCGATCTTGATCATCATATTTTGAC
* * * *
33045336 TCATGGTTTCATCTCGGTCATATGATTCGAGGTTTCATCTTAGTCACATGATTCGTGATTT
131 TCATGGTTTCATCTCGATCACATGATTCGAGATTTCATCTCAGTCACATGATTCGTGATTT
* * **
33045397 TATTTTCGACCTCGACTCGATCTTGATCATCATATTTTGACTCGTGATTTCATCTGAATCACATG
1 TATTTTCAACCTCGACTCAATCTTGATCATCATATTTTGACTCGTGATTTCATCCCAATCACATG
* * * *
33045462 ATTCATGATTTTATCTCGATCATCTATTTTCGACATCGACTTGGTCTTGTTTATCATATTTTGAC
66 ATTCATGATTTTATCTCGATCATCTATTTTCGACATCGACTCGATCTTGATCATCATATTTTGAC
* * *
33045527 TCGTGGTTTCATCTCGATCACATGATTCGTGATTTTATCTCAGTCACATGATT
131 TCATGGTTTCATCTCGATCACATGATTCGAGATTTCATCTCAGTCACATGATT
33045580 TGTGGTTTCA
Statistics
Matches: 159, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
191 159 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (191 bp):
TATTTTCAACCTCGACTCAATCTTGATCATCATATTTTGACTCGTGATTTCATCCCAATCACATG
ATTCATGATTTTATCTCGATCATCTATTTTCGACATCGACTCGATCTTGATCATCATATTTTGAC
TCATGGTTTCATCTCGATCACATGATTCGAGATTTCATCTCAGTCACATGATTCGTGATTT
Found at i:33045556 original size:26 final size:26
Alignment explanation
Indices: 33045527--33045591 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
33045517 ATATTTTGAC
33045527 TCGTGGTTTCATCTC-GATCACATGAT
1 TCGTGGTTTCATCTCAG-TCACATGAT
* *
33045553 TCGTGATTTTATCTCAGTCACATGAT
1 TCGTGGTTTCATCTCAGTCACATGAT
*
33045579 TTGTGGTTTCATC
1 TCGTGGTTTCATC
33045592 CTAATCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (26 bp):
TCGTGGTTTCATCTCAGTCACATGAT
Found at i:33046988 original size:13 final size:13
Alignment explanation
Indices: 33046970--33046994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33046960 TGAAAAACAT
33046970 TTGAATTTTTTGA
1 TTGAATTTTTTGA
33046983 TTGAATTTTTTG
1 TTGAATTTTTTG
33046995 GCAAAAGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGAATTTTTTGA
Found at i:33047402 original size:13 final size:12
Alignment explanation
Indices: 33047384--33047415 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
33047374 AAACTGTAAA
33047384 AAAAAAAAAAAGG
1 AAAAAAAAAAA-G
33047397 AAAAAAAAAAAG
1 AAAAAAAAAAAG
33047409 AAAAAAA
1 AAAAAAA
33047416 GAGAAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:33050281 original size:331 final size:332
Alignment explanation
Indices: 33049668--33050296 Score: 978
Period size: 331 Copynumber: 1.9 Consensus size: 332
33049658 AAACAGTGCA
* * *
33049668 AGCAAACACCAGATTCGAAGATATTTACAAAATAGGACATGTCTTTTTGAAATCATTTTTATTAG
1 AGCAAACACCAGATTCGAAGAAATTTACAAAATAAGACAAGTCTTTTTGAAATCATTTTTATTAG
33049733 ATCTACATAAAAAAAAAATTAGGGAAAAAAAAACCCAAATCAATGATGTAAAAAAAAGTTGAAAA
66 ATCTACAT-------AAA-TA--GAAAAAAAAACCCAAATCAATGATGTAAAAAAAAGTTGAAAA
* * *
33049798 CTGAAGTAGCAATAATGACTAAAAGAAATATACCTTGCTCTTGGTGACGGTCATTGACATTAATA
121 CTGAAGTAGCAATAATGACTAAAAGAAAAATACCTTGCTCTTGGTGACAGTAATTGACATTAATA
* * *
33049863 GCAGGGAATAACAAGGTTCCATTAGCTTGCATCTGATAAAGCCTCTTAACTCCAGTTGTAGTTTC
186 GCAGGGAACAACAAGGTTCCATTAGCTCGCAACTGATAAAGCCTCTTAACTCCAGTTGTAGTTTC
*
33049928 CTCATAAACACCAACCAATCTCTCCTTCATCTGCGTATACTATCTCTCTTCAACCCATATCTAAT
251 CTCAGAAACACCAACCAATCTCTCCTTCATCTGCGTATACTATCTCTCTTCAACCCATATCTAAT
33049993 CAAGATCTTAATAGATC
316 CAAGATCTTAATAGATC
33050010 AGCAAACACCAGATTCGAAGAAATTTACAAAATAAGACAAGTCTTTTTGAAATCATTTTTATTAG
1 AGCAAACACCAGATTCGAAGAAATTTACAAAATAAGACAAGTCTTTTTGAAATCATTTTTATTAG
*
33050075 ATCTGCAT-AA-A-AAAAAAAAA-CCAAGATCAATGATGTAAAAAAAAAAGTTGAAAACTGAAGT
66 ATCTACATAAATAGAAAAAAAAACCCAA-ATCAATGATGT--AAAAAAAAGTTGAAAACTGAAGT
33050136 AGCAATAATGACTAAAAGAAAAATACCTTGCTCTTGGTGACAGTAATTGACATTAATAGCAGGGA
128 AGCAATAATGACTAAAAGAAAAATACCTTGCTCTTGGTGACAGTAATTGACATTAATAGCAGGGA
* * *
33050201 ACAAGAAGGTTCCATTAGCTCGCAACTGATAAAGCCTCTTAACTCCTGTTGTAGTTTGCTCAGAA
193 ACAACAAGGTTCCATTAGCTCGCAACTGATAAAGCCTCTTAACTCCAGTTGTAGTTTCCTCAGAA
*
33050266 ACACCAACCAATCTCTCCTTCATCTTCGTAT
258 ACACCAACCAATCTCTCCTTCATCTGCGTAT
33050297 TCTTCTTGGG
Statistics
Matches: 269, Mismatches: 15, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
328 4 0.01
329 20 0.07
331 173 0.64
332 1 0.00
334 2 0.01
342 69 0.26
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (332 bp):
AGCAAACACCAGATTCGAAGAAATTTACAAAATAAGACAAGTCTTTTTGAAATCATTTTTATTAG
ATCTACATAAATAGAAAAAAAAACCCAAATCAATGATGTAAAAAAAAGTTGAAAACTGAAGTAGC
AATAATGACTAAAAGAAAAATACCTTGCTCTTGGTGACAGTAATTGACATTAATAGCAGGGAACA
ACAAGGTTCCATTAGCTCGCAACTGATAAAGCCTCTTAACTCCAGTTGTAGTTTCCTCAGAAACA
CCAACCAATCTCTCCTTCATCTGCGTATACTATCTCTCTTCAACCCATATCTAATCAAGATCTTA
ATAGATC
Found at i:33052036 original size:14 final size:15
Alignment explanation
Indices: 33052017--33052050 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
33052007 CAACTTTGTG
33052017 TTCATGT-CGGGTGA
1 TTCATGTACGGGTGA
33052031 TTCATGTACCGGGTGA
1 TTCATGTA-CGGGTGA
33052047 TTCA
1 TTCA
33052051 CGGCAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (15 bp):
TTCATGTACGGGTGA
Found at i:33052766 original size:11 final size:11
Alignment explanation
Indices: 33052747--33052776 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33052737 ATACAATAAC
*
33052747 ATAATATAAAT
1 ATAAAATAAAT
33052758 ATAAAATAAAT
1 ATAAAATAAAT
33052769 ATAAAATA
1 ATAAAATA
33052777 TAAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAAAATAAAT
Found at i:33053365 original size:14 final size:14
Alignment explanation
Indices: 33053346--33053376 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33053336 ATTAATTAAC
33053346 CAATTAATTAAATT
1 CAATTAATTAAATT
*
33053360 CAATTAATTCAATT
1 CAATTAATTAAATT
33053374 CAA
1 CAA
33053377 ATCTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
CAATTAATTAAATT
Found at i:33053555 original size:20 final size:20
Alignment explanation
Indices: 33053527--33053564 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33053517 AAATCTTTGG
*
33053527 ATAATGAGTAATCTAGTTGA
1 ATAACGAGTAATCTAGTTGA
33053547 ATAACGAGTAATCTAGTT
1 ATAACGAGTAATCTAGTT
33053565 TGACAAGTTA
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:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (20 bp):
ATAACGAGTAATCTAGTTGA
Found at i:33053698 original size:29 final size:27
Alignment explanation
Indices: 33053642--33053702 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
33053632 AATTTTAGAT
* *
33053642 AAATAAATTATTTAATCTTTTAAATTA
1 AAATAAAATATTTAATCTTATAAATTA
*
33053669 AAATAAAATATATTATATCTTATAATTTA
1 AAATAAAATAT-TTA-ATCTTATAAATTA
33053698 AAATA
1 AAATA
33053703 TATAACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.34
28 3 0.10
29 16 0.55
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATAAAATATTTAATCTTATAAATTA
Found at i:33054065 original size:6 final size:7
Alignment explanation
Indices: 33054044--33054068 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33054034 AGAAATAAAC
33054044 TTTATTT
1 TTTATTT
33054051 TTTATTT
1 TTTATTT
33054058 TTTATTT
1 TTTATTT
33054065 TTTA
1 TTTA
33054069 CCCTTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:33054479 original size:11 final size:11
Alignment explanation
Indices: 33054442--33054502 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
33054432 GATTTTTAAA
33054442 TTTTA-AAT-T
1 TTTTATAATAT
33054451 TTTATATAAATAAT
1 TTT-TAT-AAT-AT
*
33054465 TTTTTTAATAT
1 TTTTATAATAT
33054476 TTTTATAA-AT
1 TTTTATAATAT
*
33054486 TTTTAAAATAT
1 TTTTATAATAT
33054497 TTTTAT
1 TTTTAT
33054503 TATCTTATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.07
10 11 0.26
11 16 0.38
12 6 0.14
13 2 0.05
14 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTATAATAT
Found at i:33054488 original size:21 final size:21
Alignment explanation
Indices: 33054462--33054502 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33054452 TTATATAAAT
**
33054462 AATTTTTTTAATATTTTTATA
1 AATTTTTAAAATATTTTTATA
33054483 AATTTTTAAAATATTTTTAT
1 AATTTTTAAAATATTTTTAT
33054503 TATCTTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
AATTTTTAAAATATTTTTATA
Found at i:33054499 original size:32 final size:32
Alignment explanation
Indices: 33054434--33054500 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
33054424 ATAAATGTGA
*
33054434 TTTTTAAATTTTAAATTTTTATATAAATAATT
1 TTTTTAAATTTTAAAATTTTATATAAATAATT
33054466 TTTTTAATATTTTTATAAATTTT-TA-AAAT-ATT
1 TTTTTAA-A-TTTTA-AAATTTTATATAAATAATT
33054498 TTT
1 TTT
33054501 ATTATCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
32 13 0.42
33 5 0.16
34 7 0.23
35 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTTTAAATTTTAAAATTTTATATAAATAATT
Found at i:33054534 original size:19 final size:19
Alignment explanation
Indices: 33054510--33054551 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
33054500 TATTATCTTA
33054510 TCATCGATTCGAAGACCCT
1 TCATCGATTCGAAGACCCT
33054529 TCATCGATTCGAAGACCCT
1 TCATCGATTCGAAGACCCT
33054548 TCAT
1 TCAT
33054552 TCGAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (19 bp):
TCATCGATTCGAAGACCCT
Found at i:33055221 original size:23 final size:23
Alignment explanation
Indices: 33055173--33055239 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
33055163 ATACAAACTA
* **
33055173 AAATTAAATTAAAATAAAATTTT
1 AAATTAAATTAAATTAAAATAAT
33055196 AAATTAAATTAAATTAAAGA-AAT
1 AAATTAAATTAAATTAAA-ATAAT
33055219 AAA-TAAA--AAATT-AAATAAT
1 AAATTAAATTAAATTAAAATAAT
33055238 AA
1 AA
33055240 TCATAGTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.03
19 7 0.18
20 5 0.13
22 4 0.10
23 21 0.54
24 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (23 bp):
AAATTAAATTAAATTAAAATAAT
Found at i:33056894 original size:23 final size:20
Alignment explanation
Indices: 33056855--33056908 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
33056845 TATATATAAT
*
33056855 TAAAAAAATATACTTAAAGATG
1 TAAAAAAACATACTTAAA-A-G
*
33056877 TAAAAAAACACTATTTAAAAG
1 TAAAAAAACA-TACTTAAAAG
33056898 TAAAAACAACA
1 TAAAAA-AACA
33056909 AACAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 14 0.50
23 7 0.25
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.22
Consensus pattern (20 bp):
TAAAAAAACATACTTAAAAG
Found at i:33058826 original size:341 final size:344
Alignment explanation
Indices: 33058197--33058863 Score: 965
Period size: 341 Copynumber: 1.9 Consensus size: 344
33058187 AACAGAGCAA
* * *
33058197 GCAAACACCAAGATTCGGAGAATTTTACAAAATAAGACCTGTCTTTTGAAATCATTTTTATTAGA
1 GCAAACACCAAGATTCGAAGAAATTTACAAAATAAGACATGTCTTTTGAAATCATTTTTATTAGA
* * *
33058262 TCTGTATTATAAAAAATAAAAAAAAAACCCAGATCCATGACCGTAAAAAAAAGCTGAAAACCGAA
66 TCTGCATTATAAAAAATAAAAAAAAAACCCAGATCCAGGACCGT-AAAAAAAGCTAAAAACCGAA
* *
33058327 GCAGCAACAATGACTAAAAGAAATTATACCTTGCTCTTGGTGACAGTCATCGACATTAATAAAAG
130 GCAGCAACAATGACTAAAAGAAATTATACCTTGCTCTTGCTGACAGTAATCGACATTAATAAAAG
* *
33058392 GGAACACAAGGTTCCATTAGCTTGCATCTGTAAAGCCTCTTAACTCCAGTTGTAGTTTCGTCAAA
195 GGAACACAAGGTTCCATTAGCTTGCAACTGTAAAGACTCTTAACTCCAGTTGTAGTTTCGTCAAA
** *
33058457 AACACCAACCAATCTCTCTTTAATCTTCGTATACTTCTTGGGATCTGTCTT-CAACCAATATCTA
260 AACACCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGT-TTGCAACCAATATCTA
33058521 ATCAAGATCTTTATTAGATCT
324 ATCAAGATCTTTATTAGATCT
33058542 GCAAACACC-AGATTCGAAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTTTATTAG
1 GCAAACACCAAGATTCGAAGAAATTTACAAAATAAGACATGTC-TTTTGAAATCATTTTTATTAG
* * *
33058606 ATCTGCATTA-AAAAAA-AAAAAAAAAA-CCAGATCCAGGA-TGT-AAAAAAGTTAAAAACTGAA
65 ATCTGCATTATAAAAAATAAAAAAAAAACCCAGATCCAGGACCGTAAAAAAAGCTAAAAACCGAA
* ** * * **
33058666 GTAGCAGTAATGACTGAAAGAAA-TATACCTTGCTCTTGCTGACAGTAATTGACATTAATAGCAG
130 GCAGCAACAATGACTAAAAGAAATTATACCTTGCTCTTGCTGACAGTAATCGACATTAATAAAAG
33058730 GGAACAACAAGGTTCCATTAGCTTGCAACTGATAAAGACTCTTTAACTCCAGTTGTAGTTT-GCT
195 GGAAC-ACAAGGTTCCATTAGCTTGCAACTG-TAAAGACTC-TTAACTCCAGTTGTAGTTTCG-T
* * * *
33058794 CAGAAACACCAACCAATCTCTCCCTCATCTTCGTATACTTCTTGCGATCTGTTTGCAACCCATCT
256 CAAAAACACCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGTTTGCAACCAATAT
33058859 CTAAT
321 CTAAT
33058864 TATCGTCAAA
Statistics
Matches: 289, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
338 41 0.14
339 59 0.20
340 11 0.04
341 82 0.28
342 11 0.04
343 10 0.03
344 36 0.12
345 39 0.13
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (344 bp):
GCAAACACCAAGATTCGAAGAAATTTACAAAATAAGACATGTCTTTTGAAATCATTTTTATTAGA
TCTGCATTATAAAAAATAAAAAAAAAACCCAGATCCAGGACCGTAAAAAAAGCTAAAAACCGAAG
CAGCAACAATGACTAAAAGAAATTATACCTTGCTCTTGCTGACAGTAATCGACATTAATAAAAGG
GAACACAAGGTTCCATTAGCTTGCAACTGTAAAGACTCTTAACTCCAGTTGTAGTTTCGTCAAAA
ACACCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGTTTGCAACCAATATCTAAT
CAAGATCTTTATTAGATCT
Found at i:33062158 original size:21 final size:19
Alignment explanation
Indices: 33062132--33062176 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
33062122 AAGATACGAA
*
33062132 AATAATATGATTTAAAATTTT
1 AATAATATGATAT-AAA-TTT
*
33062153 AATAATATTATATAAATTT
1 AATAATATGATATAAATTT
33062172 AATAA
1 AATAA
33062177 AATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AATAATATGATATAAATTT
Found at i:33062582 original size:20 final size:20
Alignment explanation
Indices: 33062557--33062595 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33062547 CACTTTAATA
33062557 ATTTAT-TTCATATATTTTTT
1 ATTTATATTCA-ATATTTTTT
*
33062577 ATTTATATTTAATATTTTT
1 ATTTATATTCAATATTTTT
33062596 ATAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTATATTCAATATTTTTT
Found at i:33063720 original size:25 final size:26
Alignment explanation
Indices: 33063687--33063749 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
33063677 TATAAACTTT
* * *
33063687 TAAAAATATTTTTACTTTATATTT-C
1 TAAAAATATTTTGACATTATATTTAA
33063712 TAAAAATA-TTTGACATTATATTTAA
1 TAAAAATATTTTGACATTATATTTAA
33063737 TAAAAATTATTTT
1 TAAAAA-TATTTT
33063750 AAATTACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 13 0.41
25 14 0.44
26 2 0.06
27 3 0.09
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (26 bp):
TAAAAATATTTTGACATTATATTTAA
Found at i:33063755 original size:26 final size:24
Alignment explanation
Indices: 33063703--33063755 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
33063693 TATTTTTACT
* *
33063703 TTATATTTCTAAAAATATTTGACA
1 TTATATTTATAAAAATATTTGAAA
*
33063727 TTATATTTAATAAAAATTATTTTAAA
1 TTATATTT-ATAAAAA-TATTTGAAA
33063753 TTA
1 TTA
33063756 CAATAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 6 0.25
26 10 0.42
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TTATATTTATAAAAATATTTGAAA
Found at i:33071835 original size:2 final size:2
Alignment explanation
Indices: 33071828--33071865 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
33071818 TTAGAGATTT
33071828 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
33071866 AAAAGATGAT
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33072655 original size:21 final size:21
Alignment explanation
Indices: 33072612--33072687 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
33072602 TTTTCTTTCT
*
33072612 TTATTTTTTTAGAATGTTGTAAAA
1 TTATTTTTTT--AATATT-TAAAA
33072636 TTATTTTTTTAATATTTAAAA
1 TTATTTTTTTAATATTTAAAA
* * **
33072657 TTCTTATTTTTCATACTAAAAAA
1 TTATT-TTTTTAATA-TTTAAAA
33072680 TTATTTTT
1 TTATTTTT
33072688 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 9 0.20
22 16 0.36
23 9 0.20
24 10 0.23
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATTTTTTTAATATTTAAAA
Found at i:33075026 original size:23 final size:25
Alignment explanation
Indices: 33074986--33075034 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
33074976 ATTAATTTTT
*
33074986 AAATTTTTATATATTATTTTAATAA
1 AAATTTTTATATATTATTTAAATAA
33075011 AAATTTTTA-ATA-TATTTAAATAA
1 AAATTTTTATATATTATTTAAATAA
33075034 A
1 A
33075035 TTTATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AAATTTTTATATATTATTTAAATAA
Found at i:33075842 original size:75 final size:73
Alignment explanation
Indices: 33075695--33075842 Score: 174
Period size: 79 Copynumber: 2.0 Consensus size: 73
33075685 TTAAAACCTT
* **
33075695 AACTATGATTAAGAAATTAACAAAAGATTTTATACTAAAATTAATGGATAGAAGATTTATGTGAC
1 AACTATGATTAAGAAATTAACAAAAGATTTTAAACTAAAATTAATGGATAGAAGA--TATGACAC
**
33075760 GGCAAAAAGA
64 AACAAAAAGA
33075770 AACTATGATTAAGAAATTAACAAAAGAAAGATTTTAAACTAAAATTAATGGATAGAAGA-A-GAC
1 AACTATGATTAAGAAATTAAC---A-AAAGATTTTAAACTAAAATTAATGGATAGAAGATATGAC
*
33075833 ACAATAAAAA
62 ACAACAAAAA
33075843 TCGACAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
75 29 0.46
76 1 0.02
78 1 0.02
79 32 0.51
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (73 bp):
AACTATGATTAAGAAATTAACAAAAGATTTTAAACTAAAATTAATGGATAGAAGATATGACACAA
CAAAAAGA
Found at i:33076102 original size:34 final size:34
Alignment explanation
Indices: 33076063--33076138 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
33076053 TTAAAAATTT
*
33076063 CAAATTTGTCATCAGAACAAATAAATAAAACAAC
1 CAAATTTGTCACCAGAACAAATAAATAAAACAAC
* *
33076097 TAAATTTGTCGCCAGAACAAATAAATAAAACAAC
1 CAAATTTGTCACCAGAACAAATAAATAAAACAAC
33076131 CAAATTTG
1 CAAATTTG
33076139 ATTCACGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.22
Consensus pattern (34 bp):
CAAATTTGTCACCAGAACAAATAAATAAAACAAC
Found at i:33079699 original size:26 final size:26
Alignment explanation
Indices: 33079651--33079707 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
33079641 TTTGTAATTA
* *
33079651 TTTTTCAATCCAAATAATAAAAA-AT
1 TTTTTCAATCAAAAAAATAAAAACAT
* *
33079676 CTTTTTCAATTAAAAAAATTAAAACAT
1 -TTTTTCAATCAAAAAAATAAAAACAT
33079703 TTTTT
1 TTTTT
33079708 AAAAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTTTCAATCAAAAAAATAAAAACAT
Found at i:33088706 original size:15 final size:15
Alignment explanation
Indices: 33088686--33088718 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
33088676 TTGTTCTAGC
33088686 TGATGATGATC-ACGA
1 TGATGATGA-CGACGA
33088701 TGATGATGACGACGA
1 TGATGATGACGACGA
33088716 TGA
1 TGA
33088719 AGAATTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (15 bp):
TGATGATGACGACGA
Found at i:33088868 original size:60 final size:61
Alignment explanation
Indices: 33088770--33088891 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 61
33088760 AGGAAGAAGC
* * * *
33088770 AGAAGAAGAAAATGATTATGATGACTTTCAGCAAGAAGG-GAAAGATGGT-AGGCTGGAGTTGGA
1 AGAAGAAGAAAATGATGATGAGGACTATCAG--AGAAGGAG-AAGATAGTGA-GCTGGAGTTGGA
*
33088833 AGAAGAAGATAATGATGATGAGGACTATCAG-GAAGGAGAAGATAGTGAGCTGGAGTTGG
1 AGAAGAAGAAAATGATGATGAGGACTATCAGAGAAGGAGAAGATAGTGAGCTGGAGTTGG
33088892 TGGAAGAGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
60 23 0.44
61 2 0.04
63 27 0.52
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (61 bp):
AGAAGAAGAAAATGATGATGAGGACTATCAGAGAAGGAGAAGATAGTGAGCTGGAGTTGGA
Found at i:33090818 original size:17 final size:19
Alignment explanation
Indices: 33090796--33090830 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
33090786 TTGACCTAAC
33090796 TCTGAATT-TGG-ATAAAT
1 TCTGAATTATGGAATAAAT
33090813 TCTGAATTATGGAATAAA
1 TCTGAATTATGGAATAAA
33090831 ATTGATGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (19 bp):
TCTGAATTATGGAATAAAT
Found at i:33091590 original size:6 final size:6
Alignment explanation
Indices: 33091579--33091607 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33091569 CACTCCTCTC
33091579 CCCCTT CCCCTT CCCCTT CCCCTT CCCCT
1 CCCCTT CCCCTT CCCCTT CCCCTT CCCCT
33091608 GCCTTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCCTT
Found at i:33092900 original size:3 final size:3
Alignment explanation
Indices: 33092892--33092962 Score: 99
Period size: 3 Copynumber: 23.0 Consensus size: 3
33092882 ATTTATTTAT
*
33092892 TTA TTA TTA TTA TTA TTA TTA TTA TT- TCTT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
33092937 TTA TTA TTA TTA TTA CTTA TTGA TTA
1 TTA TTA TTA TTA TTA -TTA TT-A TTA
33092963 GATTAGAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
2 1 0.02
3 55 0.87
4 7 0.11
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:33093085 original size:19 final size:19
Alignment explanation
Indices: 33093061--33093107 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
33093051 TGAGAAAAAG
33093061 TTGAAAATACCAATTTTCC
1 TTGAAAATACCAATTTTCC
*
33093080 TTGAAAATACCAATTTTCT
1 TTGAAAATACCAATTTTCC
33093099 TTGAAAATA
1 TTGAAAATA
33093108 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (19 bp):
TTGAAAATACCAATTTTCC
Found at i:33093174 original size:58 final size:57
Alignment explanation
Indices: 33093093--33093291 Score: 195
Period size: 58 Copynumber: 3.4 Consensus size: 57
33093083 AAAATACCAA
* * * *
33093093 TTTTCTTTGAAAAT-AATTTTTTAAAAAATATTTTTAAGGAAAAGGTAAAAGTATCAAT
1 TTTTC-TTAAAAATAAAATTTTTAAAAAATATTTTTAA-AAAAAGTTAAAAGTATCAAT
* *
33093151 TTTTCTTAAAAATAAAATTTTTAAAAAAATATTTTTGAATAAAAGTTAAACGTATCAAT
1 TTTTCTTAAAAATAAAATTTTT-AAAAAATATTTTT-AAAAAAAGTTAAAAGTATCAAT
** * * * * * *
33093210 TTTTC-TCGAAATTAAAGTTTCAGAAAAATATTTTGAAAAAAAGTTGAAAGTACCAAT
1 TTTTCTTAAAAATAAAATTTTTA-AAAAATATTTTTAAAAAAAGTTAAAAGTATCAAT
*
33093267 TTTTCTTAAAAAAAAAACTTTTTAA
1 TTTTCTTAAAAATAAAA-TTTTTAA
33093292 GGAAAAGTTG
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
57 31 0.27
58 42 0.37
59 39 0.34
60 2 0.02
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (57 bp):
TTTTCTTAAAAATAAAATTTTTAAAAAATATTTTTAAAAAAAGTTAAAAGTATCAAT
Found at i:33093185 original size:59 final size:58
Alignment explanation
Indices: 33093107--33093291 Score: 201
Period size: 59 Copynumber: 3.2 Consensus size: 58
33093097 CTTTGAAAAT
* * *
33093107 AATTTTTTAAAAAATATTTTTAAGGAAAAGGTAAAAGTATCAATTTTTCTTAAAAATAA
1 AATTTTTAAAAAAATATTTTTAA-AAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAA
* * ** *
33093166 AATTTTTAAAAAAATATTTTTGAATAAAAGTTAAACGTATCAATTTTTC-TCGAAATTA
1 AATTTTTAAAAAAATATTTTT-AAAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAA
* * * * * * *
33093224 AAGTTTCAGAAAAATATTTTGAAAAAAAGTTGAAAGTACCAATTTTTCTTAAAAAAAA
1 AATTTTTAAAAAAATATTTTTAAAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAA
33093282 AACTTTTTAA
1 AA-TTTTTAA
33093292 GGAAAAGTTG
Statistics
Matches: 101, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
57 23 0.23
58 30 0.30
59 46 0.46
60 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (58 bp):
AATTTTTAAAAAAATATTTTTAAAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAA
Found at i:33093413 original size:16 final size:15
Alignment explanation
Indices: 33093375--33093414 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
33093365 AGCTGAATCA
33093375 TTATTCTTTTTTTTTT
1 TTATT-TTTTTTTTTT
* *
33093391 TCATTTTATTTTTTT
1 TTATTTTTTTTTTTT
33093406 TTATTTTTT
1 TTATTTTTT
33093415 CATTTTCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (15 bp):
TTATTTTTTTTTTTT
Found at i:33095361 original size:18 final size:18
Alignment explanation
Indices: 33095327--33095362 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33095317 AAAAAAAGAT
*
33095327 AGAGGAGGAATCTGAATA
1 AGAGGAGGAATCCGAATA
*
33095345 AGAGGAGGAGTCCGAATA
1 AGAGGAGGAATCCGAATA
33095363 GGAGAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.36, T:0.14
Consensus pattern (18 bp):
AGAGGAGGAATCCGAATA
Found at i:33097575 original size:60 final size:59
Alignment explanation
Indices: 33097484--33097961 Score: 498
Period size: 60 Copynumber: 8.0 Consensus size: 59
33097474 TTTTTTGCAA
* * **
33097484 AAAAATAAAAATTTTCAAAAAGAAATATTTTTGAAGAAAAACTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAA-TTTCAAAAA-AAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
**
33097546 AAAAAT-AAATTTCAAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTATTT
1 AAAAATAAAATTTC-AAAAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* **
33097606 TAAAATAAAATTTC-AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAAATTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* **
33097664 GAAAATCAAAATTTTC-AAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAA-TTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*** ** ***
33097724 AAAAATATTTTTTTTTTTAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATA---AAATTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * ** *
33097786 AAAAATGAATTTTCAAAAAAAGGATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTT
1 AAAAATAAAATTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
** **
33097845 GGAAATCAATGTTTCAAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAATTTCAAAAAAAA-A-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * * *
33097907 AAAAAT-AAATTTC-CAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCGATTTTCC
1 AAAAATAAAATTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
33097962 CTACGCAAGA
Statistics
Matches: 357, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.09
58 38 0.11
59 76 0.21
60 110 0.31
61 10 0.03
62 92 0.26
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAATAAAATTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:33097616 original size:121 final size:118
Alignment explanation
Indices: 33097484--33097961 Score: 536
Period size: 121 Copynumber: 4.0 Consensus size: 118
33097474 TTTTTTGCAA
* **
33097484 AAAAATAAAAATTTTCAAAAAGAAATATTTTTGAAGAAAAACTGAAAGTATCAATTTTCCTTAAA
1 AAAAAT-AAAATTTTCAAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
* **
33097549 AAT-AAATTTCAAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTATTT
64 AATAAAATTTC--AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* ** *
33097606 TAAAATAAAA-TTTC-AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 AAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
*
33097669 TCAAAATTTTCAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
66 T-AAAA-TTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*** * **
33097724 AAAAATATTTTTTTTTTTAAAAAAGGT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAAATA---AAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * *
33097788 AAATGAATTTTCAAAAAAAGGATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTT
63 AAATAAAATTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
** *
33097845 GGAAAT-CAATGTTTCAAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAAATAAAAT-TTTC-AAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * *
33097909 AAAT-AAATTTCCAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCGATTTTCC
63 AAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
33097962 CTACGCAAGA
Statistics
Matches: 303, Mismatches: 40, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
117 1 0.00
118 82 0.27
119 47 0.16
120 30 0.10
121 90 0.30
122 48 0.16
123 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (118 bp):
AAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
TAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:33098014 original size:13 final size:13
Alignment explanation
Indices: 33097996--33098020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33097986 CTTCCTTCCT
33097996 ATTTTGATTTTTG
1 ATTTTGATTTTTG
33098009 ATTTTGATTTTT
1 ATTTTGATTTTT
33098021 CTTTAACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
ATTTTGATTTTTG
Found at i:33101164 original size:8 final size:8
Alignment explanation
Indices: 33101153--33101217 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
33101143 GAAAAATGAA
33101153 AAAAAAAG
1 AAAAAAAG
33101161 AAAAAAAAG
1 -AAAAAAAG
*
33101170 AAAAAAAA
1 AAAAAAAG
33101178 AAAAGAAAG
1 AAAA-AAAG
* *
33101187 AAAGAAGG
1 AAAAAAAG
*
33101195 AAAAAATG
1 AAAAAAAG
* *
33101203 AGAAAATG
1 AAAAAAAG
33101211 AAAAAAA
1 AAAAAAA
33101218 AAGAGATTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
8 32 0.70
9 14 0.30
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:33101177 original size:13 final size:13
Alignment explanation
Indices: 33101151--33101185 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
33101141 ATGAAAAATG
*
33101151 AAAAAA-AAAGAA
1 AAAAAAGAAAAAA
33101163 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
33101176 AAAAAAGAAA
1 AAAAAAGAAA
33101186 GAAAGAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:33101218 original size:10 final size:9
Alignment explanation
Indices: 33101152--33101189 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
33101142 TGAAAAATGA
33101152 AAAAAAAAG
1 AAAAAAAAG
33101161 AAAAAAAAG
1 AAAAAAAAG
33101170 AAAAAAAA-
1 AAAAAAAAG
*
33101178 AAAAGAAAG
1 AAAAAAAAG
33101187 AAA
1 AAA
33101190 GAAGGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:33102538 original size:41 final size:41
Alignment explanation
Indices: 33102425--33102842 Score: 655
Period size: 42 Copynumber: 10.1 Consensus size: 41
33102415 ATGATTGTCA
* *
33102425 AGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTTTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
33102465 AGGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
33102507 AGGAGCAATTTACTTTTCAAAGTCGTTGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
33102548 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
33102590 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
33102632 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
33102674 AGGAGCAATTTACTTTCCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--TCGTGGTGCCTCTGTTTAG
*
33102715 AGAAGCAATTTACTTTT-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
33102755 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
33102796 AGGAGCAATTTACTTTTCAATGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
33102837 AGGAGC
1 AGGAGC
33102843 TTTGAAAAAA
Statistics
Matches: 352, Mismatches: 17, Indels: 17
0.91 0.04 0.04
Matches are distributed among these distances:
38 4 0.01
40 45 0.13
41 143 0.41
42 152 0.43
43 8 0.02
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:33102595 original size:125 final size:123
Alignment explanation
Indices: 33102425--33102842 Score: 655
Period size: 125 Copynumber: 3.4 Consensus size: 123
33102415 ATGATTGTCA
* *
33102425 AGGAGCAATTTACTTTCAAAGTCGTGGTGCCTTTATTTAGAGGAGCAATTTACTTTTTCAAAGTC
1 AGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTC
* *
33102490 ATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
33102548 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
1 AGGAGCAATTTAC-TTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
33102613 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
64 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
33102674 AGGAGCAATTTACTTTCCAAAGTTTCGT--TGCCTCTGTTTAGAGAAGCAATTTAC-TTTT-AAA
1 AGGAGCAATTTACTTT-CAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAA
* *
33102735 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
63 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
33102796 AGGAGCAATTTACTTTTCAATGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
33102843 TTTGAAAAAA
Statistics
Matches: 277, Mismatches: 10, Indels: 17
0.91 0.03 0.06
Matches are distributed among these distances:
120 4 0.01
122 61 0.22
123 51 0.18
124 7 0.03
125 110 0.40
126 40 0.14
127 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (123 bp):
AGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:33102858 original size:1 final size:1
Alignment explanation
Indices: 33102847--33102909 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
33102837 AGGAGCTTTG
* ** * * * * *
33102847 AAAAAATAAAAAAAAACCAAAAAACAAAAACAAAAAAAATAAAAAAACAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33102910 GTTGCCTCTA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:33102875 original size:6 final size:6
Alignment explanation
Indices: 33102848--33102909 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
33102838 GGAGCTTTGA
* *
33102848 AAAAAT AAAAA- AAAACC AAAAAAC AAAAAC AAAAA- AAATAA- AAAAAC
1 AAAAAC AAAAAC AAAAAC -AAAAAC AAAAAC AAAAAC AAA-AAC AAAAAC
33102895 AAAAAC AAAAA- AAAA
1 AAAAAC AAAAAC AAAA
33102910 GTTGCCTCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
5 13 0.26
6 32 0.64
7 5 0.10
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:33102875 original size:23 final size:23
Alignment explanation
Indices: 33102848--33102909 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
33102838 GGAGCTTTGA
*
33102848 AAAAATAAAAAAAAACCAAAAAAC
1 AAAAA-AAAAAAAAACAAAAAAAC
* *
33102872 AAAAACAAAAAAAATAAAAAAAC
1 AAAAAAAAAAAAAACAAAAAAAC
33102895 AAAAACAAAAAAAAA
1 AAAAA-AAAAAAAAA
33102910 GTTGCCTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAAAAACAAAAAAAC
Found at i:33102884 original size:22 final size:23
Alignment explanation
Indices: 33102855--33102908 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
33102845 TGAAAAAATA
*
33102855 AAAAAAAACCAAAAAACAAAAAC
1 AAAAAAAACAAAAAAACAAAAAC
*
33102878 AAAAAAAATAAAAAAACAAAAAC
1 AAAAAAAACAAAAAAACAAAAAC
33102901 AAAAAAAA
1 AAAAAAAA
33102909 AGTTGCCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAAAAAACAAAAAC
Found at i:33103462 original size:18 final size:18
Alignment explanation
Indices: 33103428--33103463 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33103418 AAAAAAAGAT
*
33103428 AGAGGAGGAATCTGAATA
1 AGAGGAGGAATCCGAATA
*
33103446 AGAGGAGGAGTCCGAATA
1 AGAGGAGGAATCCGAATA
33103464 GGAGAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.36, T:0.14
Consensus pattern (18 bp):
AGAGGAGGAATCCGAATA
Found at i:33105811 original size:59 final size:58
Alignment explanation
Indices: 33105594--33105882 Score: 364
Period size: 61 Copynumber: 4.9 Consensus size: 58
33105584 AAAAAATAAA
* *
33105594 AATTTTCAAAAAGAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT
1 AATTTTCAAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * **
33105653 AAATTTCAAAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAAT
1 AATTTTC--AAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
33105714 CAATGTTTCAAAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCGATTTTCCTTAAAAAT
1 -AAT-TTTC-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
**
33105775 GAATTTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 -AATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * * * *
33105834 AAATTTC-CAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCGATTTTCC
1 AATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
33105883 CTACGCAAGA
Statistics
Matches: 201, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
57 36 0.18
58 6 0.03
59 53 0.26
60 8 0.04
61 82 0.41
62 12 0.06
63 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Done.