Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 110 of 126
Found at i:21783187 original size:30 final size:30
Alignment explanation
Indices: 21783127--21783185 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
21783117 TATTTTAAAA
* *
21783127 ATTATATTTTATGTATTAAAATAATATTTT
1 ATTATAATTTATGTAGTAAAATAATATTTT
*
21783157 ATTATAATTTATG-AGTCAAATAATATTTT
1 ATTATAATTTATGTAGTAAAATAATATTTT
21783186 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (30 bp):
ATTATAATTTATGTAGTAAAATAATATTTT
Found at i:21783839 original size:30 final size:30
Alignment explanation
Indices: 21783805--21783868 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
21783795 TAGTTTCTTC
* * *
21783805 TTTGATCCATAAATTTTGAGAGAATTTTAT
1 TTTGATCCATAAACTTTGAAAAAATTTTAT
*
21783835 TTTGATCCTTAAACTTTGAAAAAATTTTAT
1 TTTGATCCATAAACTTTGAAAAAATTTTAT
21783865 TTTG
1 TTTG
21783869 GTCCCCATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (30 bp):
TTTGATCCATAAACTTTGAAAAAATTTTAT
Found at i:21784278 original size:2 final size:2
Alignment explanation
Indices: 21784273--21784299 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21784263 TATGTAACCA
21784273 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21784300 ATTCTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21785329 original size:188 final size:187
Alignment explanation
Indices: 21785073--21785436 Score: 429
Period size: 188 Copynumber: 1.9 Consensus size: 187
21785063 TACTTATATT
* *
21785073 ATTTTATTTATCAAATAAATTTCTTTAATGAATTATTTAACTTTAATATTTTGGATAATTATTTA
1 ATTTTATTTATCAAATAAATTTATTTAATAAATTATTTAACTTTAATATTTTGGATAATTATTTA
* ** * * * *
21785138 AATTCAAATCAAAATCTTTTTGAA-ATTGAAAATTTTA-CATAAATTTTGAATTCAAATATATTA
66 AATTCAAATCAAAATC-TATCAAAGATTGAAAA-TATAGCATAAAATTTAAATTAAAATATATTA
21785201 AATC-ATAATTTATT-T-TTTAAAAATTTAATCACAGTTTCAAATATATAAAATTTAATAAA
129 AATCTA-AATTT-TTATATTT-AAAATTTAATCACAGTTTCAAATATATAAAATTTAATAAA
* **
21785260 ATTTTATTTTTTCAAAT-AATTATATTTAATAAATTATTTCAA-TTTAATATTTTTTTATAATTA
1 ATTTTA-TTTATCAAATAAATT-TATTTAATAAATTATTT-AACTTTAATA-TTTTGGATAATTA
* *
21785323 -TTAAATTCAATTTAAAATCTATCAAAGATTGAAAATATAGCATAAAATTTAAATTAAAATATAT
62 TTTAAATTCAAATCAAAATCTATCAAAGATTGAAAATATAGCATAAAATTTAAATTAAAATATAT
** *
21785387 TAAATCTAAATTTTTCATATTTTCAATTTAATCATAGTTTCAAATATATA
127 TAAATCTAAATTTTT-ATATTTAAAATTTAATCACAGTTTCAAATATATA
21785437 TCTGTGTGTG
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
187 19 0.13
188 88 0.59
189 40 0.27
190 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (187 bp):
ATTTTATTTATCAAATAAATTTATTTAATAAATTATTTAACTTTAATATTTTGGATAATTATTTA
AATTCAAATCAAAATCTATCAAAGATTGAAAATATAGCATAAAATTTAAATTAAAATATATTAAA
TCTAAATTTTTATATTTAAAATTTAATCACAGTTTCAAATATATAAAATTTAATAAA
Found at i:21786923 original size:22 final size:23
Alignment explanation
Indices: 21786898--21786944 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
21786888 AAGTTAAATT
21786898 TAATTTTT-AATTTTTATATATA
1 TAATTTTTAAATTTTTATATATA
21786920 TAATTTTTAAAATTTTTATATATA
1 TAATTTTT-AAATTTTTATATATA
21786944 T
1 T
21786945 GTGAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TAATTTTTAAATTTTTATATATA
Found at i:21787471 original size:18 final size:19
Alignment explanation
Indices: 21787445--21787484 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21787435 TTTATTAAGA
*
21787445 TAATATAAAAAATTAAAGT
1 TAATATAAAAAAATAAAGT
*
21787464 TAAT-TAAAAAAATAAATT
1 TAATATAAAAAAATAAAGT
21787482 TAA
1 TAA
21787485 ATTTATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAATATAAAAAAATAAAGT
Found at i:21787562 original size:23 final size:23
Alignment explanation
Indices: 21787535--21787578 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21787525 AAAGATACTT
21787535 TTTAAAATA-AAATATTTAATAAA
1 TTTAAAATATAAA-ATTTAATAAA
*
21787558 TTTAAGATATAAAATTTAATA
1 TTTAAAATATAAAATTTAATA
21787579 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTAAAATATAAAATTTAATAAA
Found at i:21793319 original size:3 final size:3
Alignment explanation
Indices: 21793313--21793343 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21793303 CTGCTGATTT
*
21793313 TGA TGA TGA TGA TGA TGA TGA TGA TGT TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
21793344 TATTATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (3 bp):
TGA
Found at i:21798113 original size:6 final size:6
Alignment explanation
Indices: 21798092--21798145 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
21798082 GCTCAATTTG
*
21798092 ATTTTT ATTTTGT ATTTTT ATTTTT A-TTTT ATTTTT -TTCTTT CTTTTGT
1 ATTTTT ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT ATTTT-T
21798141 ATTTT
1 ATTTT
21798146 ATGTATTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
5 7 0.17
6 22 0.52
7 13 0.31
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:21798116 original size:19 final size:19
Alignment explanation
Indices: 21798092--21798145 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
21798082 GCTCAATTTG
21798092 ATTTTTATTTTGTATTTTT
1 ATTTTTATTTTGTATTTTT
21798111 ATTTTTA-TTT-TATTTTT
1 ATTTTTATTTTGTATTTTT
*
21798128 -TTCTTTCTTTTGTATTTT
1 ATT-TTTATTTTGTATTTT
21798146 ATGTATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 2 0.06
17 10 0.32
18 6 0.19
19 13 0.42
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.80
Consensus pattern (19 bp):
ATTTTTATTTTGTATTTTT
Found at i:21798121 original size:24 final size:24
Alignment explanation
Indices: 21798094--21798147 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
21798084 TCAATTTGAT
21798094 TTTTATTTTGTATT-TTTATTTT-TA
1 TTTTATTTT-T-TTCTTTATTTTGTA
*
21798118 TTTTATTTTTTTCTTTCTTTTGTA
1 TTTTATTTTTTTCTTTATTTTGTA
21798142 TTTTAT
1 TTTTAT
21798148 GTATTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 8 0.30
24 17 0.63
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTTTCTTTATTTTGTA
Found at i:21798138 original size:17 final size:17
Alignment explanation
Indices: 21798092--21798127 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
21798082 GCTCAATTTG
21798092 ATTTTTATTTTGTATTTTT
1 ATTTTTA-TTT-TATTTTT
21798111 ATTTTTATTTTATTTTT
1 ATTTTTATTTTATTTTT
21798128 TTCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (17 bp):
ATTTTTATTTTATTTTT
Found at i:21798193 original size:4 final size:4
Alignment explanation
Indices: 21798184--21798307 Score: 51
Period size: 4 Copynumber: 30.5 Consensus size: 4
21798174 TATGTATATT
* * * * *
21798184 TTTA TTTA TTTA TTTA TTT- TTTC TGTTA -ATA TCTA TATA TGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA
* * * *
21798232 TTTA TCTA GTTA TATA TTTA -TTA TTATAA TTTA TTTA -TTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA TTTA TTTA
* *
21798280 TCTTG TAATA TTT- TTTA TTTA TCTTA TT
1 T-TTA T-TTA TTTA TTTA TTTA T-TTA TT
21798308 GTTATTTTTA
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
3 14 0.16
4 57 0.63
5 16 0.18
6 3 0.03
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:21798269 original size:14 final size:15
Alignment explanation
Indices: 21798144--21798272 Score: 59
Period size: 16 Copynumber: 8.3 Consensus size: 15
21798134 CTTTTGTATT
*
21798144 TTATGTATTTA-TTA
1 TTATATATTTATTTA
*
21798158 TTACTATATATTAATATA
1 TTA-TATAT-TT-ATTTA
*
21798176 TGTATATTTTTATTTA
1 T-TATATATTTATTTA
* * *
21798192 TTTATTTATTTTTTCTG
1 -TTATATATTTATT-TA
* *
21798209 TTA-ATATCTATATA
1 TTATATATTTATTTA
* *
21798223 TGTATTTTATTTATCTA
1 T-TA-TATATTTATTTA
21798240 GTTATATATTTA-TTA
1 -TTATATATTTATTTA
21798255 TTATA-ATTTATTTA
1 TTATATATTTATTTA
21798269 TTAT
1 TTAT
21798273 TTTTTTATCT
Statistics
Matches: 85, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
13 5 0.06
14 17 0.20
15 13 0.15
16 25 0.29
17 15 0.18
18 8 0.09
19 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (15 bp):
TTATATATTTATTTA
Found at i:21798337 original size:21 final size:21
Alignment explanation
Indices: 21798227--21798337 Score: 77
Period size: 21 Copynumber: 5.2 Consensus size: 21
21798217 TATATATGTA
21798227 TTTTATTTATCTAGTTATATAT
1 TTTTATTTATCT-GTTATATAT
* *
21798249 TTATTA-TTATAAT-TTATTTAT
1 TT-TTATTTAT-CTGTTATATAT
* *
21798270 TATTTTTTTATCTTGTAATAT-T
1 T-TTTATTTATC-TGTTATATAT
* *
21798292 TTTTATTTATCTTATTGT-TAT
1 TTTTATTTATC-TGTTATATAT
*
21798313 TTTTAATTATCTGTTATATAT
1 TTTTATTTATCTGTTATATAT
21798334 TTTT
1 TTTT
21798338 TTCTTTTTTC
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
20 5 0.07
21 41 0.60
22 14 0.21
23 8 0.12
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATTTATCTGTTATATAT
Found at i:21798366 original size:20 final size:22
Alignment explanation
Indices: 21798336--21798388 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
21798326 TTATATATTT
*
21798336 TTTTCTTTTTTCGTTTATCTGA
1 TTTTCTTTTTTCGTTTATCAGA
21798358 TTTT-TTTTTTCGTTTATCAGA
1 TTTTCTTTTTTCGTTTATCAGA
21798379 -TTTCTTTTTT
1 TTTTCTTTTTT
21798389 TTCTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.09, C:0.11, G:0.08, T:0.72
Consensus pattern (22 bp):
TTTTCTTTTTTCGTTTATCAGA
Found at i:21798715 original size:26 final size:24
Alignment explanation
Indices: 21798677--21798727 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
21798667 ATCGAAAAAA
* *
21798677 TTTTTGGAGATTTTTGGAGAAAATTT
1 TTTTTGGAAATTTCT-G-GAAAATTT
21798703 TTTTTGGAAATTTCTGGAAAATTT
1 TTTTTGGAAATTTCTGGAAAATTT
21798727 T
1 T
21798728 CAGATTCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (24 bp):
TTTTTGGAAATTTCTGGAAAATTT
Found at i:21799294 original size:11 final size:11
Alignment explanation
Indices: 21799280--21799345 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
21799270 TTTAATATTC
21799280 TTTTATCTTTA
1 TTTTATCTTTA
*
21799291 TTTTATTTTTA
1 TTTTATCTTTA
*
21799302 TTTT-TGTTCTA
1 TTTTATCTT-TA
*
21799313 CTTT-TCTTTA
1 TTTTATCTTTA
*
21799323 TTTTTTCTTTA
1 TTTTATCTTTA
21799334 -TTTAT-TTTA
1 TTTTATCTTTA
21799343 TTT
1 TTT
21799346 ATTTTCACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.09
10 14 0.30
11 28 0.61
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:21799297 original size:5 final size:5
Alignment explanation
Indices: 21799266--21799370 Score: 56
Period size: 5 Copynumber: 20.2 Consensus size: 5
21799256 TTAGATTAGG
* * *
21799266 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTATT TTTAT TTT-T GTTCTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTAT TTTAT -TT-TA-T
* *
21799315 TTT-C TTTAT TTTTT CTTTA- TTTAT TTTA- TTTAT TTTCACT TTTAT
1 TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT-A-T TTTAT
*
21799360 TTTGT TTTAT T
1 TTTAT TTTAT T
21799371 ATTCTATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
4 12 0.16
5 40 0.53
6 17 0.22
7 6 0.08
8 1 0.01
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:21799552 original size:58 final size:58
Alignment explanation
Indices: 21799396--21799732 Score: 314
Period size: 58 Copynumber: 5.7 Consensus size: 58
21799386 AATAAAAATA
* *
21799396 AAAAAAAGGCTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCC
1 AAAAAAA-G-TTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTT-C
* * * *
21799457 AAAAAATA-TTTTTG-GGGAAAAGTTGAAAATATTAATTTTTCTTAAAAATAAAATTTC
1 AAAAAA-AGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTC
* *
21799514 AAAAAAAGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAAAGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTT-C
* * * *
21799574 AAAAAAAATATTTT-TGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAATAAATTTT
1 AAAAAAAGT-TTTTGT-GGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA-AAATTTC
* * ** * *
21799633 TAAAAAAGATTTT-TCAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC
1 AAAAAAAGTTTTTGTGGA-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTC
*
21799691 AAAAGAATA-TTTTTAG-GG-AAAAGTTGAAAGTATCAACTTTTC
1 AAAA-AA-AGTTTTT-GTGGAAAAAGTTGAAAGTATCAATTTTTC
21799733 CTGCATAAGA
Statistics
Matches: 232, Mismatches: 29, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
56 1 0.00
57 14 0.06
58 99 0.43
59 58 0.25
60 20 0.09
61 39 0.17
62 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAAGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTC
Found at i:21799623 original size:119 final size:117
Alignment explanation
Indices: 21799396--21799734 Score: 429
Period size: 119 Copynumber: 2.9 Consensus size: 117
21799386 AATAAAAATA
*
21799396 AAAAAAAGGCTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCC-AA
1 AAAAAAA-G-TTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAA
* * *
21799459 AAAATATTTTTGGGGAAAAGTTGAAAATATTAATTTTTCTT-AAAAATAAAATTTC
64 AAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAATTTC
*
21799514 AAAAAAAGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAA
1 AAAAAAAGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCC-AAAA
*
21799579 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTT
65 AAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTC
* * ** * * *
21799633 TAAAAAAGATTTT-TCAAGAAAAGTTGAAAGTATCAATTTTTCTCG-AAATTAAAATTT-CAAAA
1 AAAAAAAGTTTTTGTGGA-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAA
*
21799695 GAATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTTCCT
65 AAATATTTTT-GGGAAAAGTTGAAAGTATCAA-TTTTCCT
21799735 GCATAAGAAC
Statistics
Matches: 198, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
116 39 0.20
117 53 0.27
118 22 0.11
119 78 0.39
120 6 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (117 bp):
AAAAAAAGTTTTTGTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAA
AATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTC
Found at i:21799693 original size:177 final size:179
Alignment explanation
Indices: 21799406--21799734 Score: 447
Period size: 177 Copynumber: 1.8 Consensus size: 179
21799396 AAAAAAAGGC
* * * *
21799406 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAGATTTTTC
** * *
21799471 GGGAAAAGTTGAAAATATTAATTTTTCTTAAAAATAAAATTTCAAAA-AA-AGTTTTT-GTGGAA
66 AAGAAAAGTTGAAAATATCAATTTTTCTCAAAAATAAAATTTCAAAAGAATA-TTTTTAG-GG-A
21799533 AAAGTTGAAAGTATCAA-TTTTCCTTGAAAATCAAAGTTTCCAAAAAAAATA
128 AAAGTTGAAAGTATCAACTTTTCCTTGAAAATCAAAGTTTCCAAAAAAAATA
**
21799584 TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAA-TTTTTAAAAAAGATTTT
1 TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAAGTTTCCAAAAAAGATTTT
* * *
21799646 TCAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCAAAAGAATATTTTTAGGGAA
64 TCAAGAAAAGTTGAAAATATCAATTTTTCTCAAAAATAAAATTTCAAAAGAATATTTTTAGGGAA
21799711 AAGTTGAAAGTATCAACTTTTCCT
129 AAGTTGAAAGTATCAACTTTTCCT
21799735 GCATAAGAAC
Statistics
Matches: 132, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
177 75 0.57
178 50 0.38
179 7 0.05
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (179 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAGATTTTTC
AAGAAAAGTTGAAAATATCAATTTTTCTCAAAAATAAAATTTCAAAAGAATATTTTTAGGGAAAA
GTTGAAAGTATCAACTTTTCCTTGAAAATCAAAGTTTCCAAAAAAAATA
Found at i:21803305 original size:9 final size:10
Alignment explanation
Indices: 21803285--21803318 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
21803275 AAAAAGTCTC
*
21803285 AAAAATGAAA
1 AAAAAAGAAA
21803295 AAAAAAGAAA
1 AAAAAAGAAA
21803305 AAAAAAGAAA
1 AAAAAAGAAA
21803315 AAAA
1 AAAA
21803319 TAAATGCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:21803953 original size:42 final size:42
Alignment explanation
Indices: 21803906--21804162 Score: 284
Period size: 42 Copynumber: 6.1 Consensus size: 42
21803896 GATTGCCAAT
* *
21803906 GAGCAATTTACTTTTCCAAAGTTATGGTGTCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
* * *
21803948 GAGCAATTTACTTTCCCAAAGTCGTGGTGCCTTTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
* * *
21803990 GAACAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAT
1 GAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
* * *
21804031 GAGCAATTTACTTTTCAAAAAGTTGTGGTGCCTCTATTTAGAT
1 GAGCAATTTACTTTTC-CAAAGTTGTGGTGCCTCTGTTTAGAG
* * * * *
21804074 GAGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAG
1 GAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
* * * * *
21804116 GAGCCATTTA-TGTTTCTCAAAGTCGTTGAGCCTCTGTTTAAAG
1 GAGCAATTTACT-TTTC-CAAAGTTGTGGTGCCTCTGTTTAGAG
21804159 GAGC
1 GAGC
21804163 TTTGATCAAA
Statistics
Matches: 185, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
41 38 0.21
42 83 0.45
43 64 0.35
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (42 bp):
GAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
Found at i:21804079 original size:126 final size:127
Alignment explanation
Indices: 21803904--21804155 Score: 319
Period size: 126 Copynumber: 2.0 Consensus size: 127
21803894 ATGATTGCCA
* * *
21803904 ATGAGCAATTTACTTTTCCAAAGTTATGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAG
1 ATGAGCAATTTACTTTTCAAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCCAAAG
* * * *
21803969 TCGTGGTGCCTTTGTTTAGAGGAACAATTTA-CTTTC-CAAAGTCGTGGTGCCTCTGTTTAG
66 TCGTGGAGCCTCTGATTAGAGGAACAATTTATCTTTCTCAAAGTCGTGGAGCCTCTGTTTAG
* * * **
21804029 ATGAGCAATTTACTTTTCAAAAAGTTGTGGTGCCTCTATTTAGATGAGCAATTTATTTTTTCAAA
1 ATGAGCAATTTACTTTTC-AAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCCAAA
* * * * * *
21804094 GTTGTTGAGCCTCTGATTAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTA
65 GTCGTGGAGCCTCTGATTAGAGGAACAATTTATCTTTCTCAAAGTCGTGGAGCCTCTGTTTA
21804156 AAGGAGCTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
125 18 0.17
126 63 0.59
127 4 0.04
128 21 0.20
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (127 bp):
ATGAGCAATTTACTTTTCAAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCCAAAG
TCGTGGAGCCTCTGATTAGAGGAACAATTTATCTTTCTCAAAGTCGTGGAGCCTCTGTTTAG
Found at i:21804399 original size:4 final size:4
Alignment explanation
Indices: 21804386--21804531 Score: 59
Period size: 4 Copynumber: 36.2 Consensus size: 4
21804376 TCTTTTGTAT
* * * * *
21804386 TTTA TGTA TTTA -TTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA TGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA
* * * * * * *
21804434 TATC TTTA TTTA TTTA TTTA TTTT TGTTA -ATA TCTA TATA TGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA
* * * *
21804483 TTTA TCTA GTTA TATA TTTA -TTA TTATAA TTTA TTTA -TTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA TTTA TTTA
21804531 T
1 T
21804532 CTTGTAATAT
Statistics
Matches: 104, Mismatches: 27, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
3 14 0.13
4 77 0.74
5 7 0.07
6 6 0.06
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:21804487 original size:45 final size:47
Alignment explanation
Indices: 21804381--21804508 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 47
21804371 TTCTTTCTTT
*
21804381 TGTATTTTATGTATTTATTATTTATTTATTATTACTATGTATTAATATA
1 TGTATTTTATTTATTTATTATTTATTTATTATTAC-A-GTATTAATATA
* * *
21804430 TGTA-TATCTTTATTTATTTATTTATTT-TTGTTA-A-TATCT-ATATA
1 TGTATTTTATTTATTTA-TTATTTATTTATTATTACAGTAT-TAATATA
* *
21804474 TGTATTTTATTTATCTAGTTATATATTTATTATTA
1 TGTATTTTATTTATTTA-TTATTTATTTATTATTA
21804509 TAATTTATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
44 12 0.18
45 19 0.29
46 6 0.09
48 14 0.22
49 14 0.22
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (47 bp):
TGTATTTTATTTATTTATTATTTATTTATTATTACAGTATTAATATA
Found at i:21804588 original size:21 final size:21
Alignment explanation
Indices: 21804478--21804588 Score: 79
Period size: 21 Copynumber: 5.2 Consensus size: 21
21804468 TATATATGTA
21804478 TTTTATTTATCTAGTTATATAT
1 TTTTATTTATCT-GTTATATAT
* *
21804500 TTATTA-TTATAAT-TTATTTAT
1 TT-TTATTTAT-CTGTTATATAT
* *
21804521 TATTTTTTTATCTTGTAATAT-T
1 T-TTTATTTATC-TGTTATATAT
21804543 TTTTATTTATC--TTATCATTAT
1 TTTTATTTATCTGTTAT-A-TAT
*
21804564 TTTTAATTATCTGTTATATAT
1 TTTTATTTATCTGTTATATAT
21804585 TTTT
1 TTTT
21804589 TTTTCTTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 1 0.01
21 37 0.54
22 15 0.22
23 12 0.17
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTTATTTATCTGTTATATAT
Found at i:21804603 original size:42 final size:41
Alignment explanation
Indices: 21804478--21804603 Score: 107
Period size: 42 Copynumber: 3.0 Consensus size: 41
21804468 TATATATGTA
*
21804478 TTTTATTTATCTAGTTATATATTTATTATTATAATTTATTT-ATTAT
1 TTTTA-TTATCT-GTTATATATTT-TT-TT-TTATTT-TTTCATTAT
* *
21804524 TTTT-TTATCT-TGTA-ATATTTTTTATTTATCTTATCATTAT
1 TTTTATTATCTGT-TATATATTTTTT-TTTATTTTTTCATTAT
*
21804564 TTTTAATTATCTGTTATATATTTTTTTTTCTTTTTTCATT
1 TTTT-ATTATCTGTTATATATTTTTTTTTATTTTTTCATT
21804604 TATCTGATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
39 2 0.03
40 14 0.21
41 3 0.04
42 26 0.39
43 12 0.18
44 6 0.09
46 4 0.06
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (41 bp):
TTTTATTATCTGTTATATATTTTTTTTTATTTTTTCATTAT
Found at i:21804633 original size:20 final size:21
Alignment explanation
Indices: 21804590--21804640 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
21804580 TATATTTTTT
**
21804590 TTTCTTTTTTCATTTATCTGA
1 TTTCTTTTTTCATTTATCAAA
*
21804611 TTT-TTTTTTCGTTTATCAAA
1 TTTCTTTTTTCATTTATCAAA
21804631 TTTCTTTTTT
1 TTTCTTTTTT
21804641 TTTTTTTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTCTTTTTTCATTTATCAAA
Found at i:21805744 original size:18 final size:18
Alignment explanation
Indices: 21805721--21805759 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21805711 AAGAACAATC
*
21805721 ATTCTT-TTCTTCCTTTTT
1 ATTCTTATTCTT-ATTTTT
21805739 ATTCTTATTCTTATTTTT
1 ATTCTTATTCTTATTTTT
21805757 ATT
1 ATT
21805760 TATTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTCTTATTCTTATTTTT
Found at i:21813061 original size:20 final size:20
Alignment explanation
Indices: 21813036--21813085 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
21813026 TCTGAGTTTT
21813036 AAGGGAGAAGTTCTTAGGTA
1 AAGGGAGAAGTTCTTAGGTA
21813056 AAGGGAGAAGTTCTTAGGTA
1 AAGGGAGAAGTTCTTAGGTA
*
21813076 AAGAGAGAAG
1 AAGGGAGAAG
21813086 GAAAAATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.36, T:0.20
Consensus pattern (20 bp):
AAGGGAGAAGTTCTTAGGTA
Found at i:21814191 original size:46 final size:47
Alignment explanation
Indices: 21814139--21814232 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
21814129 TGTGATTATT
* *
21814139 TATGATTATTT-ATGTGTATTAACATATTTGTTT-ATTTTGTATAGCA
1 TATGATT-TTTCATATGTACTAACATATTTGTTTCATTTTGTATAGCA
* *
21814185 TATGATTTTTCATATGTACTAACTTATTTGTTTGCTTTTTGTATAGCA
1 TATGATTTTTCATATGTACTAACATATTTGTTT-CATTTTGTATAGCA
21814233 CTTAATTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 3 0.07
46 26 0.63
48 12 0.29
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (47 bp):
TATGATTTTTCATATGTACTAACATATTTGTTTCATTTTGTATAGCA
Found at i:21815101 original size:27 final size:26
Alignment explanation
Indices: 21815066--21815128 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
21815056 TTGGTTTTTA
*
21815066 TTTTTATTTTCATTATTTAATATATAT
1 TTTTTATTTTCATTATCTAATATAT-T
** *
21815093 TTTTTATTTTTTTTATCTATTATATT
1 TTTTTATTTTCATTATCTAATATATT
21815119 TTTATTATTT
1 TTT-TTATTT
21815129 ATCTGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTATTTTCATTATCTAATATATT
Found at i:21815118 original size:18 final size:17
Alignment explanation
Indices: 21815095--21815219 Score: 80
Period size: 17 Copynumber: 7.5 Consensus size: 17
21815085 ATATATATTT
21815095 TTTATTTTTTTTATCTA
1 TTTATTTTTTTTATCTA
*
21815112 -TTA-TATTTTTAT-TA
1 TTTATTTTTTTTATCTA
** *
21815126 TTTATCTGATTTTATTTA
1 TTTAT-TTTTTTTATCTA
*
21815144 -TTATTATTATTTATCTA
1 TTTATT-TTTTTTATCTA
* *
21815161 TTTCTTTTATTTATCTA
1 TTTATTTTTTTTATCTA
*
21815178 TTTTTTTTTTGTTATCTA
1 TTTATTTTTT-TTATCTA
* * * *
21815196 -TTAATATATTTATCTT
1 TTTATTTTTTTTATCTA
21815212 TTTATTTT
1 TTTATTTT
21815220 GATTAATTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
14 2 0.02
15 11 0.13
16 10 0.12
17 47 0.57
18 13 0.16
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTATTTTTTTTATCTA
Found at i:21815140 original size:14 final size:13
Alignment explanation
Indices: 21815097--21815163 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
21815087 ATATATTTTT
*
21815097 TATTTTTTTTATC
1 TATTTTATTTATC
*
21815110 TATTATATTT-T-
1 TATTTTATTTATC
21815121 TA--TTATTTATC
1 TATTTTATTTATC
21815132 TGATTTTATTTAT-
1 T-ATTTTATTTATC
21815145 TATTATTATTTATC
1 TATT-TTATTTATC
21815159 TATTT
1 TATTT
21815164 CTTTTATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
9 5 0.11
10 1 0.02
11 3 0.07
12 5 0.11
13 18 0.41
14 12 0.27
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (13 bp):
TATTTTATTTATC
Found at i:21815144 original size:45 final size:44
Alignment explanation
Indices: 21815070--21815184 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 44
21815060 TTTTTATTTT
* * * *
21815070 TATTTTCATTATTTAATATATATTTTTTATTTTTTTTATCTAT-TA
1 TATTTTTATTATTT-ATCTAT-TTTTTTATTATTATTATCTATCTA
*
21815115 TATTTTTATTATTTATCTGATTTTATTTATTATTATTATTTATCTA
1 TATTTTTATTATTTATCT-ATTTT-TTTATTATTATTATCTATCTA
*
21815161 T-TTCTT-TTATTTATCTATTTTTTT
1 TATTTTTATTATTTATCTATTTTTTT
21815185 TTTGTTATCT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.05
43 5 0.08
44 16 0.26
45 34 0.56
46 3 0.05
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (44 bp):
TATTTTTATTATTTATCTATTTTTTTATTATTATTATCTATCTA
Found at i:21815145 original size:27 final size:27
Alignment explanation
Indices: 21815108--21815172 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
21815098 ATTTTTTTTA
21815108 TCTATTATATTTTTATTATTTATCTGATT
1 TCTATT-TATTTTTATTATTTATCT-ATT
*
21815137 T-TATTTATTATTATTATTTATCTATT
1 TCTATTTATTTTTATTATTTATCTATT
21815163 TCT-TTTATTT
1 TCTATTTATTT
21815173 ATCTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 10 0.30
27 18 0.55
28 4 0.12
29 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (27 bp):
TCTATTTATTTTTATTATTTATCTATT
Found at i:21815147 original size:24 final size:23
Alignment explanation
Indices: 21815095--21815179 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
21815085 ATATATATTT
*
21815095 TTTATT-TTTTTTATCTATTATA
1 TTTATTATTATTTATCTATTATA
*
21815117 TTT-TTATTATTTATCTGATTTTA
1 TTTATTATTATTTATCT-ATTATA
* *
21815140 TTTATTATTA-TTATTTA-TCTA
1 TTTATTATTATTTATCTATTATA
*
21815161 TTTCTT-TTATTTATCTATT
1 TTTATTATTATTTATCTATT
21815180 TTTTTTTTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.06
21 16 0.31
22 14 0.27
23 13 0.25
24 6 0.12
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (23 bp):
TTTATTATTATTTATCTATTATA
Found at i:21815213 original size:26 final size:25
Alignment explanation
Indices: 21815104--21815214 Score: 56
Period size: 26 Copynumber: 4.5 Consensus size: 25
21815094 TTTTATTTTT
* *
21815104 TTTATCTA-TTATATT-TTTAT-TA
1 TTTATCTATTTTTATTATTAATATA
*
21815126 TTTATCTGA-TTTTATTTATTATTATTA
1 TTTATCT-ATTTTTA-TTATTAATA-TA
* *
21815153 TTTATCTATTTCTT-TTATTTATCTA
1 TTTATCTATTT-TTATTATTAATATA
* *
21815178 TTT-TTTTTTTGTTATCTATTAATATA
1 TTTATCTATTT-TTAT-TATTAATATA
21815204 TTTATCT-TTTT
1 TTTATCTATTTT
21815215 ATTTTGATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 9 0.13
25 10 0.15
26 21 0.31
27 13 0.19
28 2 0.03
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTATCTATTTTTATTATTAATATA
Found at i:21815427 original size:19 final size:18
Alignment explanation
Indices: 21815394--21815429 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21815384 GAACAAAAGA
*
21815394 AGACACACAAAGAAACAC
1 AGACACAAAAAGAAACAC
21815412 AGACACAAAGAAGAAACA
1 AGACACAAA-AAGAAACA
21815430 GAAGCTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.22, G:0.14, T:0.00
Consensus pattern (18 bp):
AGACACAAAAAGAAACAC
Found at i:21816144 original size:20 final size:18
Alignment explanation
Indices: 21816119--21816169 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
21816109 TATTTTTTTG
21816119 TTATTTTTTTATTCTCATT
1 TTATTTTTTTATT-TCATT
*
21816138 TT-TATTTTTTATTTTATT
1 TTAT-TTTTTTATTTCATT
*
21816156 TTATTATTTTATTT
1 TTATTTTTTTATTT
21816170 TCTTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTTTATTTCATT
Found at i:21816151 original size:13 final size:13
Alignment explanation
Indices: 21816137--21816170 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
21816127 TTATTCTCAT
21816137 TTTTATTTT-TTA
1 TTTTATTTTATTA
21816149 TTTTATTTTATTA
1 TTTTATTTTATTA
21816162 TTTTATTTT
1 TTTTATTTT
21816171 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:21816175 original size:17 final size:17
Alignment explanation
Indices: 21816138--21816175 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21816128 TATTCTCATT
*
21816138 TTTATTTTTTATTTTAT
1 TTTATTTTTTATTTTAC
21816155 TTTATTATTTTATTTT-C
1 TTTATT-TTTTATTTTAC
21816172 TTTA
1 TTTA
21816176 AATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTTATTTTAC
Found at i:21816257 original size:58 final size:57
Alignment explanation
Indices: 21816194--21816399 Score: 258
Period size: 58 Copynumber: 3.6 Consensus size: 57
21816184 TAAAAAAAAT
*
21816194 ATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGG
1 ATTTTT-GAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAAAATGG
*
21816252 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAA-AAG-TTTCAAAAAAT--
1 ATTTTTGA-AAAAAGTTGAAAGTATCAATTTTTCT-TAAA--AATAAGTTTTC-AAAAATGG
** *
21816310 ATTTTTTGGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAGTTTTCAAAAATGG
1 A-TTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAAAATGG
**
21816368 ATTTTTGAGGAAAGTTGAAAGTATCAATTTTT
1 ATTTTTGAAAAAAGTTGAAAGTATCAATTTTT
21816400 TCTGTACAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
55 2 0.02
56 9 0.07
57 37 0.29
58 57 0.44
59 13 0.10
60 9 0.07
61 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (57 bp):
ATTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAAAATGG
Found at i:21816402 original size:116 final size:116
Alignment explanation
Indices: 21816187--21816399 Score: 367
Period size: 116 Copynumber: 1.8 Consensus size: 116
21816177 ATAAAATTAA
21816187 AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGG
1 AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGG
21816252 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTC
66 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTC
* * *
21816303 AAAAAATATTTTTTGG-GAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAGTTTTCAAAAATG
1 AAAAAATA-TTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATG
*
21816367 GATTTTTGAG-GAAAGTTGAAAGTATCAATTTTT
65 GATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
21816400 TCTGTACAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 22 0.24
116 63 0.68
117 7 0.08
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (116 bp):
AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGG
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTC
Found at i:21819094 original size:12 final size:12
Alignment explanation
Indices: 21819077--21819136 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
21819067 ACAATGGATG
21819077 AAAAATGAGAAA
1 AAAAATGAGAAA
*
21819089 AAAAATGA-TAA
1 AAAAATGAGAAA
21819100 AAAAA-GA-AAA
1 AAAAATGAGAAA
* *
21819110 AAAAAAGAAAGAAG
1 AAAAATG--AGAAA
21819124 AAAAATGAGAAA
1 AAAAATGAGAAA
21819136 A
1 A
21819137 TGAAAAAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 9 0.23
11 8 0.21
12 13 0.33
13 1 0.03
14 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAAATGAGAAA
Found at i:21821727 original size:13 final size:13
Alignment explanation
Indices: 21821705--21821734 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21821695 TTTATTTATG
21821705 ATTATATAAACAT
1 ATTATATAAACAT
*
21821718 ATTATTTAAACAT
1 ATTATATAAACAT
21821731 ATTA
1 ATTA
21821735 ACAAAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTATATAAACAT
Found at i:21824796 original size:17 final size:18
Alignment explanation
Indices: 21824774--21824807 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21824764 AAAAATGATT
21824774 AATTATAAT-TTTTTTTC
1 AATTATAATCTTTTTTTC
21824791 AATTATAATCTTTTTTT
1 AATTATAATCTTTTTTT
21824808 TATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTATAATCTTTTTTTC
Found at i:21830012 original size:25 final size:25
Alignment explanation
Indices: 21829984--21830032 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
21829974 GGTAACACTT
* *
21829984 AAAATCCGTCAGTAATTACCGATGA
1 AAAATCCATCAATAATTACCGATGA
*
21830009 AAAATCCATTAATAATTACCGATG
1 AAAATCCATCAATAATTACCGATG
21830033 GATTTATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATCCATCAATAATTACCGATGA
Found at i:21830155 original size:32 final size:33
Alignment explanation
Indices: 21830085--21830155 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
21830075 AAAATCATAT
* **
21830085 GTAAATTCGTTGGTAATGGGTTTTTTTTCGTCG
1 GTAAATCCGTTGGTAATGAATTTTTTTTCGTCG
* * *
21830118 ATAAATCCTTTGGTAATGAATTTTTTTT-GTTG
1 GTAAATCCGTTGGTAATGAATTTTTTTTCGTCG
21830150 GTAAAT
1 GTAAAT
21830156 TTGCCAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
32 8 0.26
33 23 0.74
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.49
Consensus pattern (33 bp):
GTAAATCCGTTGGTAATGAATTTTTTTTCGTCG
Found at i:21830455 original size:18 final size:19
Alignment explanation
Indices: 21830432--21830471 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21830422 GTAAATTACA
21830432 ATTTAAACATG-TATAATT
1 ATTTAAACATGCTATAATT
* *
21830450 ATTTAAATATGCTATTATT
1 ATTTAAACATGCTATAATT
21830469 ATT
1 ATT
21830472 AATTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTTAAACATGCTATAATT
Found at i:21831125 original size:17 final size:17
Alignment explanation
Indices: 21831103--21831146 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
21831093 CTAAAATATC
*
21831103 ACAACTTTAAACAATTA
1 ACAACTTCAAACAATTA
*
21831120 ACAACTTCAAACAATTC
1 ACAACTTCAAACAATTA
*
21831137 ACAAGTTCAA
1 ACAACTTCAA
21831147 GCATAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (17 bp):
ACAACTTCAAACAATTA
Found at i:21833094 original size:15 final size:15
Alignment explanation
Indices: 21833084--21833135 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
21833074 CCATCATCAA
*
21833084 CATCATTATCATTAT
1 CATCATCATCATTAT
* * *
21833099 CATTATCACCATTTT
1 CATCATCATCATTAT
21833114 CATCATCATCATTAT
1 CATCATCATCATTAT
21833129 CATCATC
1 CATCATC
21833136 TTCTTCTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (15 bp):
CATCATCATCATTAT
Found at i:21833121 original size:3 final size:3
Alignment explanation
Indices: 21833075--21833135 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
21833065 TGTGTTTCAC
* * * * * **
21833075 CAT CAT CAA CAT CAT TAT CAT TAT CAT TAT CAC CAT TTT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
*
21833123 CAT TAT CAT CAT C
1 CAT CAT CAT CAT C
21833136 TTCTTCTTCT
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:21833130 original size:12 final size:12
Alignment explanation
Indices: 21833079--21833135 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
21833069 TTTCACCATC
*
21833079 ATCAACATCATT
1 ATCATCATCATT
*
21833091 ATCATTATCATT
1 ATCATCATCATT
* *
21833103 ATCACCAT-TTT
1 ATCATCATCATT
21833114 CATCATCATCATT
1 -ATCATCATCATT
21833127 ATCATCATC
1 ATCATCATC
21833136 TTCTTCTTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
11 2 0.06
12 32 0.89
13 2 0.06
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (12 bp):
ATCATCATCATT
Found at i:21834439 original size:59 final size:58
Alignment explanation
Indices: 21834376--21834510 Score: 148
Period size: 59 Copynumber: 2.3 Consensus size: 58
21834366 ACCAAGATCT
* *
21834376 AAATAAATTTCAACAATTATAA-AACCAACAAAAACTCAATAAATTGGTAACCAAAAAC-C
1 AAATAAATTTCAACAA--AGAATAACCAACAAAAACTCAACAAATTGGTAACC-AAAACTC
* * * * *
21834435 AAATAAATTTCAGCAAAGAATTAACTAACAAAAACTCAACACATTGGTAACCATAACTT
1 AAATAAATTTCAACAAAGAA-TAACCAACAAAAACTCAACAAATTGGTAACCAAAACTC
*
21834494 AAACAAATTTCAACAAA
1 AAATAAATTTCAACAAA
21834511 TTTATAACAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 3 0.05
58 4 0.06
59 57 0.89
ACGTcount: A:0.56, C:0.19, G:0.04, T:0.21
Consensus pattern (58 bp):
AAATAAATTTCAACAAAGAATAACCAACAAAAACTCAACAAATTGGTAACCAAAACTC
Found at i:21834862 original size:28 final size:29
Alignment explanation
Indices: 21834831--21834886 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
21834821 TTTTTACTTC
* *
21834831 TTTTAGCGACAGA-TTTTTTGTGGATAAT
1 TTTTAGCAACAGATTTTTTTGTCGATAAT
*
21834859 TTTTAGTAACAGATTTTTTTGTCGATAA
1 TTTTAGCAACAGATTTTTTTGTCGATAA
21834887 ATCCATTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (29 bp):
TTTTAGCAACAGATTTTTTTGTCGATAAT
Found at i:21835649 original size:17 final size:17
Alignment explanation
Indices: 21835629--21835677 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
21835619 AAGAAAGAGA
21835629 AGAGATAAGAGAGAAAT
1 AGAGATAAGAGAGAAAT
* *
21835646 AGAGA-AA-AAAGAAAA
1 AGAGATAAGAGAGAAAT
21835661 AGA-ATTAAGAGAGAAAT
1 AGAGA-TAAGAGAGAAAT
21835678 GTTGTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 1 0.04
15 9 0.36
16 4 0.16
17 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.10
Consensus pattern (17 bp):
AGAGATAAGAGAGAAAT
Found at i:21838145 original size:199 final size:200
Alignment explanation
Indices: 21837781--21838146 Score: 472
Period size: 200 Copynumber: 1.8 Consensus size: 200
21837771 ACTTGGTATG
* * * ** * * *
21837781 AATAACTTAAATAATTATCTAAGTTTGGTTCGACACGGAATTTTGGGTTTCAAATTTTTTTCAAG
1 AATAACTTAAATAATTATCTAAATTTGGTTCGACACGAAAATTTAAGTTTCAAAATTTTCTCAAA
* * *
21837846 TCTAATCCAATTAAAAAAATAAATCTCAAACCTATCTATTAAACTTAATTTATATAATAAAAATT
66 TCCAACCCAATTAAAAAAATAAATCTCAAACCTATCCATTAAACTTAATTTATATAATAAAAATT
*
21837911 TAAAAAAGTGATTAAATTAAATTTAATAAGATTATATAAGTTGAGTCGAGTCAGATTCATGCGTA
131 TAAAAAAGTAATTAAATTAAATTTAATAAGATTATATAAGTTGAGTCGAGTCAGATTCATGCGTA
21837976 ATATT
196 ATATT
* * * *
21837981 AATAGCTTAAATGATTATTTAAATTTGGTTCGACTC-AAAATTTAAGTTCTCAAAATTTTCTCAA
1 AATAACTTAAATAATTATCTAAATTTGGTTCGACACGAAAATTTAAGTT-TCAAAATTTTCTCAA
* *
21838045 ATCCAACCCAATTAAAAAAA-AAATCTCAAGTCC-A-CACATTAAATTTAATTTATATAATAAAA
65 ATCCAACCCAATTAAAAAAATAAATCTCAA-ACCTATC-CATTAAACTTAATTTATATAAT-AAA
* **
21838107 AATTTAAAAAA-TAATTAAATTTAATTTAATTGGATTATAT
127 AATTTAAAAAAGTAATTAAATTAAATTTAATAAGATTATAT
21838147 TTAATTCACA
Statistics
Matches: 141, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
198 1 0.01
199 63 0.45
200 77 0.55
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (200 bp):
AATAACTTAAATAATTATCTAAATTTGGTTCGACACGAAAATTTAAGTTTCAAAATTTTCTCAAA
TCCAACCCAATTAAAAAAATAAATCTCAAACCTATCCATTAAACTTAATTTATATAATAAAAATT
TAAAAAAGTAATTAAATTAAATTTAATAAGATTATATAAGTTGAGTCGAGTCAGATTCATGCGTA
ATATT
Found at i:21846118 original size:96 final size:96
Alignment explanation
Indices: 21845952--21846146 Score: 381
Period size: 96 Copynumber: 2.0 Consensus size: 96
21845942 AACTCTCAAG
21845952 TATAAGTAGAGTAAGTATGTAGCACCTTAGATCCATTCAATCTTATTTCAAGTTTCTCGTGATCT
1 TATAAGTAGAGTAAGTATGTAGCACCTTAGATCCATTCAATCTTATTTCAAGTTTCTCGTGATCT
21846017 CTCTTTTATCATATTACATGATATACTTGTA
66 CTCTTTTATCATATTACATGATATACTTGTA
21846048 TATAAGTAGAGTAAGTATGTAGCACCTTAGATCCATTCAATCTTATTTCAAGTTTCTCGTGATCT
1 TATAAGTAGAGTAAGTATGTAGCACCTTAGATCCATTCAATCTTATTTCAAGTTTCTCGTGATCT
*
21846113 TTCTTTTATCATATTACATGATATACTTGTA
66 CTCTTTTATCATATTACATGATATACTTGTA
21846144 TAT
1 TAT
21846147 TCATAATTAT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (96 bp):
TATAAGTAGAGTAAGTATGTAGCACCTTAGATCCATTCAATCTTATTTCAAGTTTCTCGTGATCT
CTCTTTTATCATATTACATGATATACTTGTA
Found at i:21853450 original size:17 final size:18
Alignment explanation
Indices: 21853419--21853452 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21853409 TTTAAATGTA
*
21853419 TTTATTTTTCATTATAAT
1 TTTAATTTTCATTATAAT
21853437 TTTAATTTTC-TTATAA
1 TTTAATTTTCATTATAA
21853453 ATAGTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAATTTTCATTATAAT
Found at i:21854996 original size:18 final size:18
Alignment explanation
Indices: 21854975--21855017 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
21854965 TATAGATATT
21854975 TTAAATAATATAAAAAAA
1 TTAAATAATATAAAAAAA
**
21854993 TTAAAT-ATATATTAAAA
1 TTAAATAATATAAAAAAA
21855010 TTAAATAA
1 TTAAATAA
21855018 ACTTATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAATATAAAAAAA
Found at i:21856432 original size:20 final size:20
Alignment explanation
Indices: 21856407--21856468 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
21856397 AAAAAAGGTG
21856407 TTAATTTTGATTTTAATTTT
1 TTAATTTTGATTTTAATTTT
* * *
21856427 TTAATTTGGATTTTGATCTT
1 TTAATTTTGATTTTAATTTT
*
21856447 TTGATTTT-AGTTTTAATTTT
1 TTAATTTTGA-TTTTAATTTT
21856467 TT
1 TT
21856469 TGGTTTAATC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.68
Consensus pattern (20 bp):
TTAATTTTGATTTTAATTTT
Found at i:21856525 original size:12 final size:12
Alignment explanation
Indices: 21856510--21856548 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
21856500 AAAAGTAAAA
21856510 AAAAAAAAAATC
1 AAAAAAAAAATC
*
21856522 AAAAAGAAAATC
1 AAAAAAAAAATC
21856534 AAAAGAAGAAAATC
1 AAAA-AA-AAAATC
21856548 A
1 A
21856549 TGAGGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 15 0.65
13 1 0.04
14 7 0.30
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAAAAATC
Found at i:21856525 original size:14 final size:14
Alignment explanation
Indices: 21856508--21856548 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
21856498 TCAAAAGTAA
*
21856508 AAAAAAAAAAAATC
1 AAAAAAAGAAAATC
21856522 --AAAAAGAAAATC
1 AAAAAAAGAAAATC
*
21856534 AAAAGAAGAAAATC
1 AAAAAAAGAAAATC
21856548 A
1 A
21856549 TGAGGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAAAGAAAATC
Found at i:21857575 original size:14 final size:13
Alignment explanation
Indices: 21857543--21857603 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 13
21857533 ATTTTCCTTT
21857543 TTTTTTTCTTTTTGA
1 TTTTTTT-TTTTT-A
**
21857558 -TTTTTGGTTTTA
1 TTTTTTTTTTTTA
21857570 TTTTTTTCCTTTTTA
1 TTTTTTT--TTTTTA
21857585 TTCTTTTTTTTTTA
1 TT-TTTTTTTTTTA
21857599 TTTTT
1 TTTTT
21857604 AATTATTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
12 1 0.03
13 12 0.32
14 13 0.34
15 7 0.18
16 5 0.13
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:21858225 original size:38 final size:35
Alignment explanation
Indices: 21858150--21858225 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 35
21858140 GAATTAAACC
* *
21858150 AAATCTAATGACTTAATTCAAATAATTTCAATGTT
1 AAATCTAATGACTAAATTCAAAAAATTTCAATGTT
* *
21858185 AAATCTAAATGACTCAAATTCAAAAAAATTTGAATTTT
1 AAATCT-AATGACT-AAATTC-AAAAAATTTCAATGTT
21858223 AAA
1 AAA
21858226 ATGATCCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.18
36 7 0.21
37 5 0.15
38 16 0.47
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.36
Consensus pattern (35 bp):
AAATCTAATGACTAAATTCAAAAAATTTCAATGTT
Found at i:21862401 original size:24 final size:23
Alignment explanation
Indices: 21862374--21862447 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
21862364 CCCAACACCC
21862374 TATCAATTCCCTCTTTTATCAGCA
1 TATCAATTCCCTCTTTTATCA-CA
* *
21862398 TATC--CTCTCTCTTATTAATC-CA
1 TATCAATTCCCTCTT-TT-ATCACA
21862420 TATCAATTCCCTCTTTTATCAACA
1 TATCAATTCCCTCTTTTATC-ACA
21862444 TATC
1 TATC
21862448 CTCCCTCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
22 16 0.40
23 4 0.10
24 20 0.50
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.43
Consensus pattern (23 bp):
TATCAATTCCCTCTTTTATCACA
Found at i:21862409 original size:22 final size:21
Alignment explanation
Indices: 21862381--21862456 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 21
21862371 CCCTATCAAT
21862381 TCCCTCTTTTATCAGCATATCC
1 TCCCTCTTTTATCA-CATATCC
* *
21862403 TCTCTCTTATTAATC-CATATCAAT
1 TCCCTCTT-TT-ATCACATATC--C
21862427 TCCCTCTTTTATCAACATATCC
1 TCCCTCTTTTATC-ACATATCC
21862449 TCCCTCTT
1 TCCCTCTT
21862457 ATTAATCCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 24 0.55
23 4 0.09
24 16 0.36
ACGTcount: A:0.21, C:0.34, G:0.01, T:0.43
Consensus pattern (21 bp):
TCCCTCTTTTATCACATATCC
Found at i:21862446 original size:46 final size:46
Alignment explanation
Indices: 21862374--21862466 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
21862364 CCCAACACCC
* *
21862374 TATCAATTCCCTCTTTTATCAGCATATCCTCTCTCTTATTAATCCA
1 TATCAATTCCCTCTTTTATCAACATATCCTCCCTCTTATTAATCCA
21862420 TATCAATTCCCTCTTTTATCAACATATCCTCCCTCTTATTAATCCA
1 TATCAATTCCCTCTTTTATCAACATATCCTCCCTCTTATTAATCCA
21862466 T
1 T
21862467 GTAAATCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (46 bp):
TATCAATTCCCTCTTTTATCAACATATCCTCCCTCTTATTAATCCA
Found at i:21875667 original size:30 final size:30
Alignment explanation
Indices: 21875632--21875691 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21875622 TAAGTTATAA
*
21875632 AATTTATCAAATATGCATATTTTATAAGTT
1 AATTTATCAAATATGCATATCTTATAAGTT
* * *
21875662 AATTTATCAAATTTTCATATCTTATGAGTT
1 AATTTATCAAATATGCATATCTTATAAGTT
21875692 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (30 bp):
AATTTATCAAATATGCATATCTTATAAGTT
Found at i:21876084 original size:33 final size:33
Alignment explanation
Indices: 21876009--21876082 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
21875999 AAAATAGATT
* *
21876009 TTTTTTAATTTTTAAATATACAAATTTAGAAAC
1 TTTTTAAAATTTTAAATATACAAATTTAGAAAC
* *
21876042 TTTTTAAAATTTTGAATTTACAAATTTA-AATA-
1 TTTTTAAAATTTTAAATATACAAATTTAGAA-AC
21876074 TTTTTAAAA
1 TTTTTAAAA
21876083 ATCTACAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 11 0.31
33 25 0.69
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (33 bp):
TTTTTAAAATTTTAAATATACAAATTTAGAAAC
Found at i:21881590 original size:21 final size:22
Alignment explanation
Indices: 21881551--21881603 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
21881541 ACCGAAATTA
*
21881551 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATATTTTTAAAT
21881573 ATAAAATATTA-ATTTTTAAAT
1 ATAAAATATTATATTTTTAAAT
21881594 ATAAAATATT
1 ATAAAATATT
21881604 TAAAAATATC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATATTATATTTTTAAAT
Found at i:21884565 original size:13 final size:13
Alignment explanation
Indices: 21884537--21884573 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
21884527 TGCTCATAAG
*
21884537 ACCTCCTTC-GAA
1 ACCTCCTTCAAAA
21884549 ACCTCCTTCAAAA
1 ACCTCCTTCAAAA
21884562 ACCTCCTTCAAA
1 ACCTCCTTCAAA
21884574 CACTTTCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.32, C:0.41, G:0.03, T:0.24
Consensus pattern (13 bp):
ACCTCCTTCAAAA
Found at i:21885911 original size:22 final size:22
Alignment explanation
Indices: 21885885--21885960 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
21885875 CATAATGCTT
*
21885885 AGTCACTGTACCTTAAGTAATG
1 AGTCACTGTACCATAAGTAATG
*
21885907 AGTCACTATACCATAA-TAATG
1 AGTCACTGTACCATAAGTAATG
* * *
21885928 A-ACATTTGTACCAT-AGTTATG
1 AGTCA-CTGTACCATAAGTAATG
*
21885949 AGTCATTGTACC
1 AGTCACTGTACC
21885961 TTAGTTATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.07
21 25 0.57
22 16 0.36
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (22 bp):
AGTCACTGTACCATAAGTAATG
Found at i:21885928 original size:21 final size:22
Alignment explanation
Indices: 21885885--21885928 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21885875 CATAATGCTT
* *
21885885 AGTCACTGTACCTTAAGTAATG
1 AGTCACTATACCATAAGTAATG
21885907 AGTCACTATACCATAA-TAATG
1 AGTCACTATACCATAAGTAATG
21885928 A
1 A
21885929 ACATTTGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (22 bp):
AGTCACTATACCATAAGTAATG
Found at i:21885949 original size:21 final size:21
Alignment explanation
Indices: 21885915--21885970 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
21885905 TGAGTCACTA
* *
21885915 TACCATAATAATGA-ACATTTG
1 TACCATAGTTATGAGACA-TTG
*
21885936 TACCATAGTTATGAGTCATTG
1 TACCATAGTTATGAGACATTG
*
21885957 TACCTTAGTTATGA
1 TACCATAGTTATGA
21885971 CTCACCATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
TACCATAGTTATGAGACATTG
Found at i:21894934 original size:22 final size:22
Alignment explanation
Indices: 21894909--21894951 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21894899 TAAATGAATT
21894909 TTAAAA-AAAAATTAAAAATTAA
1 TTAAAATAAAAA-TAAAAATTAA
21894931 TTAAAATAAAAATAAAAATTA
1 TTAAAATAAAAATAAAAATTA
21894952 TTTACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TTAAAATAAAAATAAAAATTAA
Found at i:21896141 original size:17 final size:16
Alignment explanation
Indices: 21896118--21896163 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
21896108 TATGATAAAA
21896118 TAAAATAATATTATAT
1 TAAAATAATATTATAT
*
21896134 TAAAAATAAAATTATAT
1 T-AAAATAATATTATAT
21896151 T-AAATAATATTAT
1 TAAAATAATATTAT
21896164 CTTATTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 11 0.41
16 1 0.04
17 15 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAATAATATTATAT
Found at i:21902290 original size:27 final size:28
Alignment explanation
Indices: 21902260--21902318 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
21902250 ATGATTAAAA
*
21902260 AATTTAATAAAAATT-TTATGTTAAA-TT
1 AATTTAATAAAAATTAATAT-TTAAATTT
* *
21902287 AATTTCATTAAAATTAATATTTAAATTT
1 AATTTAATAAAAATTAATATTTAAATTT
21902315 AATT
1 AATT
21902319 GACATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (28 bp):
AATTTAATAAAAATTAATATTTAAATTT
Found at i:21906361 original size:18 final size:18
Alignment explanation
Indices: 21906338--21906377 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
21906328 AAGTGATTTA
21906338 TTGTTATTATTATTATTG
1 TTGTTATTATTATTATTG
*
21906356 TTGTTATTATTATTGTTG
1 TTGTTATTATTATTATTG
21906374 TTGT
1 TTGT
21906378 CGTCATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (18 bp):
TTGTTATTATTATTATTG
Found at i:21906373 original size:15 final size:15
Alignment explanation
Indices: 21906335--21906375 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
21906325 TGCAAGTGAT
*
21906335 TTATTGTTATTATTA
1 TTATTGTTGTTATTA
21906350 TTATTGTTGTTATTA
1 TTATTGTTGTTATTA
21906365 TTATTGTTGTT
1 TTATTGTTGTT
21906376 GTCGTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (15 bp):
TTATTGTTGTTATTA
Found at i:21908788 original size:187 final size:186
Alignment explanation
Indices: 21908474--21908846 Score: 728
Period size: 187 Copynumber: 2.0 Consensus size: 186
21908464 TGGCTTGCAG
21908474 GGTAGGGTGGCCTAGCAAAGCTAAGGGGCTAGGCAATGCCGTGCACGACACTTGCCCCATTCTAT
1 GGTAGGGTGGCCTAGCAAAGCTAAGGGGCTAGGCAATGCCGTGCACGACACTTGCCCCATTCTAT
21908539 CTGTTTCTTTTATTTTTTATTTAATTTAATTATTTTTTAAATTAATCAATATTAAATTGACCTGA
66 CTGTTTCTTTTATTTTTTATTTAATTTAATTATTTTTTAAATTAATCAATATTAAATTGACCTGA
21908604 TAAAAATTTAAGAATAAACCTCAAAGCCGAATTAATTTCAAATATGAAATTATTAA
131 TAAAAATTTAAGAATAAACCTCAAAGCCGAATTAATTTCAAATATGAAATTATTAA
21908660 GGTAGGGTGGCCTAGCAAAGCTAAGGGGCTAGGCAATGCCGTGCACGACACTTGCCCCATTTCTA
1 GGTAGGGTGGCCTAGCAAAGCTAAGGGGCTAGGCAATGCCGTGCACGACACTTGCCCCA-TTCTA
21908725 TCTGTTTCTTTTATTTTTTATTTAATTTAATTATTTTTTAAATTAATCAATATTAAATTGACCTG
65 TCTGTTTCTTTTATTTTTTATTTAATTTAATTATTTTTTAAATTAATCAATATTAAATTGACCTG
*
21908790 ATAAAAATTTAAGAATAAACCTCAAAGCCGAATTAATTTTAAATATGAAATTATTAA
130 ATAAAAATTTAAGAATAAACCTCAAAGCCGAATTAATTTCAAATATGAAATTATTAA
21908847 TTCAAATAAA
Statistics
Matches: 185, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
186 59 0.32
187 126 0.68
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (186 bp):
GGTAGGGTGGCCTAGCAAAGCTAAGGGGCTAGGCAATGCCGTGCACGACACTTGCCCCATTCTAT
CTGTTTCTTTTATTTTTTATTTAATTTAATTATTTTTTAAATTAATCAATATTAAATTGACCTGA
TAAAAATTTAAGAATAAACCTCAAAGCCGAATTAATTTCAAATATGAAATTATTAA
Found at i:21915671 original size:29 final size:30
Alignment explanation
Indices: 21915574--21915646 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
21915564 AATGCATAAG
* * * * **
21915574 GACTAAATTCCTTAAAAAAAATACTATAGT
1 GACTAAATTTCTTAAAAATAATATTACAAA
21915604 GACTAAATTTCTTAAAAATAATATTACAAA
1 GACTAAATTTCTTAAAAATAATATTACAAA
21915634 GACTAAATTTCTT
1 GACTAAATTTCTT
21915647 TACATAATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.34
Consensus pattern (30 bp):
GACTAAATTTCTTAAAAATAATATTACAAA
Found at i:21915745 original size:16 final size:16
Alignment explanation
Indices: 21915726--21915761 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
21915716 AAAAACTCCC
*
21915726 AAAACTATAAATAAAT
1 AAAACTAAAAATAAAT
21915742 AAAACTAAAAATAAAT
1 AAAACTAAAAATAAAT
21915758 AAAA
1 AAAA
21915762 TACATGGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACTAAAAATAAAT
Found at i:21930203 original size:31 final size:29
Alignment explanation
Indices: 21930139--21930203 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
21930129 TAATTTATAC
* *
21930139 ATCATATTAAAAATTTTTAAAATTTAAGT
1 ATCATATTAAAAATTTCTAAAATTTAAGG
* *
21930168 ATCATATTAAATATTTCACTAAAATTTAGGG
1 ATCATATTAAAAATTT--CTAAAATTTAAGG
21930199 ATCAT
1 ATCAT
21930204 TTGTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.50
31 15 0.50
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (29 bp):
ATCATATTAAAAATTTCTAAAATTTAAGG
Found at i:21932078 original size:11 final size:10
Alignment explanation
Indices: 21931966--21932119 Score: 55
Period size: 11 Copynumber: 14.9 Consensus size: 10
21931956 CCGTTTGTTA
21931966 TTAATAATA-
1 TTAATAATAT
21931975 -TAATAATAT
1 TTAATAATAT
*
21931984 TTATTAATAAAT
1 TTAATAAT--AT
* *
21931996 ATAATATTAT
1 TTAATAATAT
*
21932006 TTATTAATTAT
1 TTAATAA-TAT
* * *
21932017 ATATTAATTT
1 TTAATAATAT
21932027 TTAAT-ATAT
1 TTAATAATAT
* *
21932036 TATAATATTGTT
1 T-TAATAAT-AT
*
21932048 TTAATATTAT
1 TTAATAATAT
*
21932058 TTATTAATAT
1 TTAATAATAT
21932068 GTTAATAATAT
1 -TTAATAATAT
* *
21932079 AATATTAATTAT
1 -TTAATAA-TAT
*
21932091 ATAATAA-AT
1 TTAATAATAT
**
21932100 ACAATAATAT
1 TTAATAATAT
21932110 TTATATAATA
1 TTA-ATAATA
21932120 AAATATTATT
Statistics
Matches: 108, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
8 8 0.07
9 12 0.11
10 33 0.31
11 43 0.40
12 12 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (10 bp):
TTAATAATAT
Found at i:21932084 original size:26 final size:27
Alignment explanation
Indices: 21932050--21932124 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 27
21932040 ATATTGTTTT
* * *
21932050 AATATTATTTATTAATAT-GTTAATA-
1 AATAATATTTATTAATATAATAAATAC
*
21932075 ATATAATATTAATT-ATATAATAAATAC
1 A-ATAATATTTATTAATATAATAAATAC
*
21932102 AATAATATTTATATAATAAAATA
1 AATAATATTTAT-TAATATAATA
21932125 TTATTATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 5 0.13
26 25 0.64
27 2 0.05
28 7 0.18
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
AATAATATTTATTAATATAATAAATAC
Found at i:21932092 original size:14 final size:14
Alignment explanation
Indices: 21932049--21932096 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
21932039 AATATTGTTT
*
21932049 TAATATTATTTAT-
1 TAATATTAATTATA
*
21932062 TAATATGTTAATAATA
1 TAATA--TTAATTATA
21932078 TAATATTAATTATA
1 TAATATTAATTATA
21932092 TAATA
1 TAATA
21932097 AATACAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 6 0.21
16 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TAATATTAATTATA
Found at i:21932105 original size:23 final size:23
Alignment explanation
Indices: 21932070--21932121 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
21932060 ATTAATATGT
* *
21932070 TAAT-AATATAATATTAATTATA
1 TAATAAATACAATAATAATTATA
*
21932092 TAATAAATACAATAATATTTATA
1 TAATAAATACAATAATAATTATA
21932115 TAATAAA
1 TAATAAA
21932122 ATATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAAATACAATAATAATTATA
Found at i:21932129 original size:3 final size:3
Alignment explanation
Indices: 21932123--21932147 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21932113 TATAATAAAA
21932123 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21932148 GTAGTATCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21934310 original size:10 final size:10
Alignment explanation
Indices: 21934295--21934324 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
21934285 TGTATTGGTC
21934295 AACAATTTGG
1 AACAATTTGG
21934305 AACAATTTGG
1 AACAATTTGG
21934315 AACAAGTTTG
1 AACAA-TTTG
21934325 AGAAAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (10 bp):
AACAATTTGG
Found at i:21938794 original size:29 final size:29
Alignment explanation
Indices: 21938731--21938813 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
21938721 ATATTAAAAA
* * *
21938731 TAAATATCACATTAATTATCATATTTATAATT
1 TAAATATCACATTAA--A-AATTTTTAAAATT
*
21938763 TAAGTATCACATTAAAAATTTTTAAAATT
1 TAAATATCACATTAAAAATTTTTAAAATT
* * *
21938792 TAAATATGATATTAAATATTTT
1 TAAATATCACATTAAAAATTTT
21938814 ATTATAATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
29 28 0.65
30 1 0.02
32 14 0.33
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAATATCACATTAAAAATTTTTAAAATT
Found at i:21943420 original size:22 final size:22
Alignment explanation
Indices: 21943395--21943439 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
21943385 GTTTCATTCG
*
21943395 AATTTAAAATTATAC-AAATTTA
1 AATTAAAAATTAT-CTAAATTTA
21943417 AATTAAAAATTATCTAAATTTA
1 AATTAAAAATTATCTAAATTTA
21943439 A
1 A
21943440 TCAATCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAAAAATTATCTAAATTTA
Found at i:21944109 original size:105 final size:105
Alignment explanation
Indices: 21943919--21944130 Score: 334
Period size: 105 Copynumber: 2.0 Consensus size: 105
21943909 AGAGCTAGCT
* *
21943919 CTGAGGGTACTAATGATATATCACTGAAGATGGTAGACCTTCCTTTGAGTAGAGAAAGATGTCAC
1 CTGAAGGTACTAACGATATATCACTGAAGATGGTAGACCTTCCTTTGAGTAGAGAAAGATGTCAC
* *
21943984 GGTCCTAAGGAAGAGTCATAAATCTCATATCTATTGAGTA
66 GGTCCTAAAGAAGAGCCATAAATCTCATATCTATTGAGTA
* * * *
21944024 CTGAAGGTACTAACGATATATCACTGAGGATGGTAGGCCTTCCTTTGAGTAGAGGAGGATGTCAC
1 CTGAAGGTACTAACGATATATCACTGAAGATGGTAGACCTTCCTTTGAGTAGAGAAAGATGTCAC
* *
21944089 GGTCTTAAAGAGGAGCCATAAATCTCATATCTATTGAGTA
66 GGTCCTAAAGAAGAGCCATAAATCTCATATCTATTGAGTA
21944129 CT
1 CT
21944131 AAAGTTGGTC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (105 bp):
CTGAAGGTACTAACGATATATCACTGAAGATGGTAGACCTTCCTTTGAGTAGAGAAAGATGTCAC
GGTCCTAAAGAAGAGCCATAAATCTCATATCTATTGAGTA
Found at i:21944790 original size:37 final size:39
Alignment explanation
Indices: 21944748--21944842 Score: 117
Period size: 37 Copynumber: 2.5 Consensus size: 39
21944738 CTCTTAACCA
* *
21944748 ATTTTATATGTAATACTATTAAATAAATA-TATTTTA-G
1 ATTTTATATGTAATAATATTAAATAAAAAGTATTTTATG
*
21944785 ATTTTATATGTAATAATATTAAGTAAAAAGTATTTTATG
1 ATTTTATATGTAATAATATTAAATAAAAAGTATTTTATG
* *
21944824 -TTTTAT-TTTAATTATATTA
1 ATTTTATATGTAATAATATTA
21944843 TGAGTATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
37 37 0.73
38 13 0.25
39 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (39 bp):
ATTTTATATGTAATAATATTAAATAAAAAGTATTTTATG
Found at i:21945261 original size:25 final size:25
Alignment explanation
Indices: 21945190--21945263 Score: 130
Period size: 25 Copynumber: 3.0 Consensus size: 25
21945180 ATGATTTCTA
* *
21945190 TTTAAATATATTAGGAAAACAATTG
1 TTTAAATATATTAAGAAAACATTTG
21945215 TTTAAATATATTAAGAAAACATTTG
1 TTTAAATATATTAAGAAAACATTTG
21945240 TTTAAATATATTAAGAAAACATTT
1 TTTAAATATATTAAGAAAACATTT
21945264 ATTTTCATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (25 bp):
TTTAAATATATTAAGAAAACATTTG
Found at i:21953378 original size:26 final size:26
Alignment explanation
Indices: 21953349--21953401 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
21953339 TAAAAAAAAA
21953349 TTTTCAATCGT-AATTATAATAATTTT
1 TTTTCAAT-GTCAATTATAATAATTTT
* *
21953375 TTTTTAATTTCAATTATAATAATTTT
1 TTTTCAATGTCAATTATAATAATTTT
21953401 T
1 T
21953402 ATTATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTCAATGTCAATTATAATAATTTT
Found at i:21956271 original size:21 final size:21
Alignment explanation
Indices: 21956219--21956271 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21956209 ATCACTAATT
* * *
21956219 TTAATTTCACCGTTACAGTAT
1 TTAATATCACTGTTACAGTAA
*
21956240 TTAATCTCACTGTTACAGTAA
1 TTAATATCACTGTTACAGTAA
21956261 TTAATATCACT
1 TTAATATCACT
21956272 TTCATCACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (21 bp):
TTAATATCACTGTTACAGTAA
Found at i:21956961 original size:2 final size:2
Alignment explanation
Indices: 21956954--21956980 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21956944 TATTTGTCTG
21956954 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21956981 GTGTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21957065 original size:11 final size:12
Alignment explanation
Indices: 21957049--21957077 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21957039 TTTGTTATCC
21957049 TTATCTTTTAA-
1 TTATCTTTTAAT
21957060 TTATCTTTTAAT
1 TTATCTTTTAAT
21957072 TTATCT
1 TTATCT
21957078 GATATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATCTTTTAAT
Found at i:21957901 original size:16 final size:16
Alignment explanation
Indices: 21957880--21957920 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21957870 TTATTTTTTT
*
21957880 TTTATTTGTTCATAT-A
1 TTTATTTATTCAT-TCA
21957896 TTTATTTATTCATTCA
1 TTTATTTATTCATTCA
21957912 TTTATTTAT
1 TTTATTTAT
21957921 ATTTTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTTATTCATTCA
Found at i:21959993 original size:65 final size:65
Alignment explanation
Indices: 21959919--21960049 Score: 192
Period size: 65 Copynumber: 2.0 Consensus size: 65
21959909 AACTTTTTGG
* *
21959919 ATATTCATTTATGAGAAGTTTTAAAA-TTTTTGAATATTCATTTATGAAAAAACTCGATTTCAAG
1 ATATTCATTTATAAGAAGTTTTAAAATTTTTTGAAAATTCATTTATG-AAAAACTCGATTTCAAG
21959983 A
65 A
* * * *
21959984 ATATTCATTTGTAATAAGTTTTAAAATTTTTTGAAAATTTATTTTTGAAAAACTCGATTTCAAGA
1 ATATTCATTTATAAGAAGTTTTAAAATTTTTTGAAAATTCATTTATGAAAAACTCGATTTCAAGA
21960049 A
1 A
21960050 ATAAAAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 42 0.71
66 17 0.29
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.44
Consensus pattern (65 bp):
ATATTCATTTATAAGAAGTTTTAAAATTTTTTGAAAATTCATTTATGAAAAACTCGATTTCAAGA
Found at i:21962759 original size:14 final size:14
Alignment explanation
Indices: 21962742--21962771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21962732 CAAAATTTAA
*
21962742 TTTTTAGAAAATAT
1 TTTTTAAAAAATAT
21962756 TTTTTAAAAAATAT
1 TTTTTAAAAAATAT
21962770 TT
1 TT
21962772 ACATTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTTAAAAAATAT
Found at i:21962786 original size:22 final size:20
Alignment explanation
Indices: 21962754--21962793 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
21962744 TTTAGAAAAT
*
21962754 ATTTTTTAAAAAATATTTAC
1 ATTTTTTAAAAAAGATTTAC
21962774 ATTTTTTGAAAAAAAGATTT
1 ATTTTTT--AAAAAAGATTT
21962794 TTTGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTTTTTAAAAAAGATTTAC
Found at i:21963013 original size:16 final size:15
Alignment explanation
Indices: 21962979--21963018 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
21962969 TTTTAATGAT
*
21962979 AATATTTAATATTAA
1 AATATTTAATATAAA
*
21962994 AATATTATATTATAAA
1 AATATT-TAATATAAA
21963010 AATATTTAA
1 AATATTTAA
21963019 AGTAAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTAATATAAA
Found at i:21963035 original size:30 final size:31
Alignment explanation
Indices: 21962979--21963036 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
21962969 TTTTAATGAT
* *
21962979 AATATTTAATATTAAAATATTATATTATAAA
1 AATATTTAATAGTAAAAAATTATATTATAAA
21963010 AATATTTAA-AGTAAAACAATT-TATTAT
1 AATATTTAATAGTAAAA-AATTATATTAT
21963037 TCTTTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (31 bp):
AATATTTAATAGTAAAAAATTATATTATAAA
Found at i:21963132 original size:15 final size:16
Alignment explanation
Indices: 21963114--21963154 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
21963104 ATTAAATAGT
21963114 TATTTAT-TATTAAAA
1 TATTTATATATTAAAA
21963129 TATTTATACTATTAAAA
1 TATTTATA-TATTAAAA
21963146 TATTTATAT
1 TATTTATAT
21963155 TTTATATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.29
16 1 0.04
17 16 0.67
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTATATATTAAAA
Found at i:21963482 original size:18 final size:19
Alignment explanation
Indices: 21963442--21963493 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
21963432 TATCTTTTTT
*
21963442 TTTTTTATTAATA-AAT-TA
1 TTTTTTATTAA-ACAATCAA
21963460 TTTTTTATTAAACAATCAA
1 TTTTTTATTAAACAATCAA
*
21963479 TTTTTTACTAAACAA
1 TTTTTTATTAAACAA
21963494 ATATCTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 14 0.47
19 15 0.50
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTTATTAAACAATCAA
Found at i:21964537 original size:19 final size:18
Alignment explanation
Indices: 21964509--21964545 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21964499 ATTTTAAACG
*
21964509 ATATTTTTAATATTTTCAT
1 ATATTATTAAT-TTTTCAT
21964528 ATATTATTAATTTTTCAT
1 ATATTATTAATTTTTCAT
21964546 TAAATCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTATTAATTTTTCAT
Found at i:21964584 original size:18 final size:20
Alignment explanation
Indices: 21964550--21964594 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
21964540 TTTCATTAAA
21964550 TCTATT-AGTTTGAAATTTT
1 TCTATTAAGTTTGAAATTTT
21964569 T-TATTAAGTTTG-AATTTT
1 TCTATTAAGTTTGAAATTTT
21964587 TCTATTAA
1 TCTATTAA
21964595 AATTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (20 bp):
TCTATTAAGTTTGAAATTTT
Found at i:21964903 original size:25 final size:24
Alignment explanation
Indices: 21964863--21964922 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
21964853 TTAAATCTTG
*
21964863 AATAT-TTAAATAATTTTTTATAAA
1 AATATATT-AATAATTTTTAATAAA
*
21964887 TATATATTAATATATTTTTAATAAA
1 AATATATTAATA-ATTTTTAATAAA
21964912 AATATATTAAT
1 AATATATTAAT
21964923 TTAATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATATTAATAATTTTTAATAAA
Found at i:21964942 original size:27 final size:27
Alignment explanation
Indices: 21964879--21964975 Score: 69
Period size: 27 Copynumber: 3.7 Consensus size: 27
21964869 TAAATAATTT
*
21964879 TTTATAAAT-ATATATTAATAT-ATT--
1 TTTA-AAATAATATATTAATTTAATTAA
*
21964903 TTTAATAAAAATATATTAATTTAATTAA
1 TTTAA-AATAATATATTAATTTAATTAA
* *
21964931 TTTAAAATAATA-ATTTATATTATTTAA
1 TTTAAAATAATATATTAAT-TTAATTAA
** *
21964958 TAAAAAATTATATATTAA
1 TTTAAAATAATATATTAA
21964976 ATATATATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.02
24 6 0.11
25 11 0.19
26 8 0.14
27 22 0.39
28 9 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTAAAATAATATATTAATTTAATTAA
Found at i:21964955 original size:22 final size:22
Alignment explanation
Indices: 21964910--21964974 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
21964900 ATTTTTAATA
21964910 AAAATATATTAATTTA-ATTAATTT
1 AAAATA-A-TAATTTATATT-ATTT
21964934 AAAATAATAATTTATATTATTT
1 AAAATAATAATTTATATTATTT
21964956 AATAA-AA-AATTATATATTA
1 AA-AATAATAATT-TATATTA
21964975 AATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 22 0.58
23 6 0.16
24 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAATAATAATTTATATTATTT
Found at i:21973092 original size:20 final size:20
Alignment explanation
Indices: 21973067--21973127 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
21973057 GAGATCAAGG
*
21973067 ATCACACTTTCTACCTGCAT
1 ATCACACTTTCTACGTGCAT
21973087 ATCACACTTTCTACGTGCAT
1 ATCACACTTTCTACGTGCAT
21973107 ATCACACTTTCTACGTGCAT
1 ATCACACTTTCTACGTGCAT
21973127 A
1 A
21973128 AACCATTCGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (20 bp):
ATCACACTTTCTACGTGCAT
Found at i:21977726 original size:8 final size:8
Alignment explanation
Indices: 21977713--21977737 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21977703 TAATTATTTT
21977713 TAATAAAA
1 TAATAAAA
21977721 TAATAAAA
1 TAATAAAA
21977729 TAATAAAA
1 TAATAAAA
21977737 T
1 T
21977738 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TAATAAAA
Found at i:21978639 original size:26 final size:26
Alignment explanation
Indices: 21978606--21978660 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
21978596 ATTTAATTAC
21978606 GTGTCAATGCATAATTGGTTGATGGT
1 GTGTCAATGCATAATTGGTTGATGGT
21978632 GTGTCAATGCATAATTGGTTGATGGT
1 GTGTCAATGCATAATTGGTTGATGGT
21978658 GTG
1 GTG
21978661 CTAGAAGCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.38
Consensus pattern (26 bp):
GTGTCAATGCATAATTGGTTGATGGT
Found at i:21978863 original size:51 final size:51
Alignment explanation
Indices: 21978787--21978889 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
21978777 ACGAAAGTGA
21978787 ACTTGCCTAACAAGTTACGTCCGTTTTCGCAAGAATTTATTTCTTTTTACT
1 ACTTGCCTAACAAGTTACGTCCGTTTTCGCAAGAATTTATTTCTTTTTACT
* *
21978838 ACTTGCCTAACAAGTTGCGTCCGTTTTTGCAAGAATTTATTTCTTTTTACT
1 ACTTGCCTAACAAGTTACGTCCGTTTTCGCAAGAATTTATTTCTTTTTACT
21978889 A
1 A
21978890 ATACGTTAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (51 bp):
ACTTGCCTAACAAGTTACGTCCGTTTTCGCAAGAATTTATTTCTTTTTACT
Found at i:21983943 original size:12 final size:12
Alignment explanation
Indices: 21983926--21983981 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
21983916 AATATAATTT
* *
21983926 AAAATTTTAATA
1 AAAATTATAAAA
*
21983938 AAAATTAT-ATA
1 AAAATTATAAAA
* *
21983949 TAAATTAAAAAA
1 AAAATTATAAAA
*
21983961 AAAATTTTAAAA
1 AAAATTATAAAA
21983973 AAAATTATA
1 AAAATTATA
21983982 CTTGAAGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTATAAAA
Done.