Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 41 of 131
Found at i:8742643 original size:7 final size:7
Alignment explanation
Indices: 8742610--8742635 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8742600 CATAATGATA
8742610 TTATTAT
1 TTATTAT
8742617 TTATTAT
1 TTATTAT
8742624 TTATTAT
1 TTATTAT
8742631 TTATT
1 TTATT
8742636 TATTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:8742654 original size:18 final size:18
Alignment explanation
Indices: 8742615--8742661 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8742605 TGATATTATT
**
8742615 ATTTATTATTTATTATTT
1 ATTTATTATTTATTATGC
8742633 ATTTATTATTTGATT-TGC
1 ATTTATTATTT-ATTATGC
8742651 ATTTATT-TTTA
1 ATTTATTATTTA
8742662 ACATGTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 3 0.12
18 19 0.73
19 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (18 bp):
ATTTATTATTTATTATGC
Found at i:8745270 original size:26 final size:26
Alignment explanation
Indices: 8745234--8745305 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
8745224 TCTTATTTGA
* *
8745234 GTATTGGTCACTGATTTAGAGCTTGT
1 GTATTAGTCACTGATTTAGAGCTTAT
*
8745260 GTATTAGTCACTAATTTAGAGCTTAT
1 GTATTAGTCACTGATTTAGAGCTTAT
* *
8745286 GTATTACTCATTGATTTAGA
1 GTATTAGTCACTGATTTAGA
8745306 CTTTATGAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (26 bp):
GTATTAGTCACTGATTTAGAGCTTAT
Found at i:8747964 original size:21 final size:21
Alignment explanation
Indices: 8747938--8747985 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
8747928 AATTTAACAT
8747938 TATTAATGATTGGATTGAGAC
1 TATTAATGATTGGATTGAGAC
*
8747959 TATTAATGATTGGATTGAGAT
1 TATTAATGATTGGATTGAGAC
8747980 TATTAA
1 TATTAA
8747986 ATCAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TATTAATGATTGGATTGAGAC
Found at i:8757260 original size:16 final size:16
Alignment explanation
Indices: 8757241--8757272 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8757231 CTTCAGCCAA
8757241 AAGTGAAATCTAATTT
1 AAGTGAAATCTAATTT
8757257 AAGTGAAATCTAATTT
1 AAGTGAAATCTAATTT
8757273 TATATCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
AAGTGAAATCTAATTT
Found at i:8759463 original size:20 final size:21
Alignment explanation
Indices: 8759438--8759506 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 21
8759428 TTTTTTATTA
8759438 AATTTTTTAT-TTATAATAAT
1 AATTTTTTATATTATAATAAT
*
8759458 AA-TTTTTATGTTATCAACT--T
1 AATTTTTTATATTAT-AA-TAAT
* *
8759478 AATTATTTATATTAAAATAAT
1 AATTTTTTATATTATAATAAT
8759499 -ATTTTTTA
1 AATTTTTTA
8759507 AGCTTGTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
19 8 0.21
20 18 0.46
21 12 0.31
22 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (21 bp):
AATTTTTTATATTATAATAAT
Found at i:8759633 original size:67 final size:67
Alignment explanation
Indices: 8759562--8759698 Score: 152
Period size: 67 Copynumber: 2.0 Consensus size: 67
8759552 TTTTAAAGTG
* * *
8759562 TTACGATAATTCTAAC-CTATTTTATACTAAATGATTCTAATTTTATGAATT-TTCTTACATTTT
1 TTACGATAATTCTAACAC-ATTTTATACTAAATGATACCAATTTTATG-ATTATTCTCACATTTT
8759625 TACA
64 TACA
** * * * *
8759629 TTACGATTCTTTTAACACATTTTATATTAAATTATACCAATTTTATGATTATTCTCACTTTTTTA
1 TTACGATAATTCTAACACATTTTATACTAAATGATACCAATTTTATGATTATTCTCACATTTTTA
*
8759694 TA
66 CA
8759696 TTA
1 TTA
8759699 ACACTTATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
66 3 0.05
67 54 0.93
68 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (67 bp):
TTACGATAATTCTAACACATTTTATACTAAATGATACCAATTTTATGATTATTCTCACATTTTTA
CA
Found at i:8759942 original size:16 final size:17
Alignment explanation
Indices: 8759904--8759948 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
8759894 TATTTTTCAG
8759904 TTTTTTACTTTAACATTA
1 TTTTTTA-TTTAACATTA
8759922 TTTTTTATTTAGA-ATTA
1 TTTTTTATTTA-ACATTA
8759939 -TTTTTATTTA
1 TTTTTTATTTA
8759949 TAATACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
17 8 0.31
18 8 0.31
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTTATTTAACATTA
Found at i:8760369 original size:20 final size:21
Alignment explanation
Indices: 8760337--8760397 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
8760327 TTTTTTGGTT
*
8760337 TAAAATTATTATTTAT-TTG-
1 TAAAAATATTATTTATGTTGC
*
8760356 TAATAATAATTATTTTATGTTGC
1 TAAAAAT-ATTA-TTTATGTTGC
8760379 TAAAAATATTATTTATGTT
1 TAAAAATATTATTTATGTT
8760398 ACAATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 13 0.37
22 7 0.20
23 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (21 bp):
TAAAAATATTATTTATGTTGC
Found at i:8761071 original size:210 final size:215
Alignment explanation
Indices: 8760768--8761160 Score: 473
Period size: 210 Copynumber: 1.8 Consensus size: 215
8760758 ATTTTATGTC
* * *
8760768 AAATGATACTGATTTTACAATTATTCTCACATTTTTCTCATTAACACTTATTTTTTATTGAATTA
1 AAATAATACTAATTTTACAATTATTCTCACATTTTTCACATTAACACTTATTTTTTATTGAATTA
* * * *
8760833 TTTTTTTATATATAATATTAGTTTTTTTACATTGCCAA-T-TTA-TTATGTTTCAATAAT-TTTT
66 TTTTTTTATATATAATAGTAGTTTTTTTACATTACCAACTATTATTTATATTTCAATAATATCTT
** * *
8760894 TTTA-TGTTTATTGTTACTTTTCATTACATTTAGAATTATTATAA-TTTTTTGAAGGTGAACTGA
131 TTTACT-CCTATTGTTACTTTTCATTACATTTAGAAATATTACAACTTTTTTGAAGGTGAACTGA
8760957 TATTTCTAATTATTGTACATT
195 TATTTCTAATTATTGTACATT
** * *
8760978 AAATAATACTAATTTTATGATTATTCTCACCA-TTTT-ACATTAACTCTTAATTTTTTATTTTAC
1 AAATAATACTAATTTTACAATTATTCTCA-CATTTTTCACATTAACACTT-ATTTTTTA-TTGA-
* * * *
8761041 ATTA-TTTTTTATTTATAATAGTAG-TTTTTTATATTATCAACTTAATTATTTATATTTTAATAA
62 ATTATTTTTTTATATATAATAGTAGTTTTTTTACATTACCAAC-T-ATTATTTATATTTCAATAA
*
8761104 TATCTTTTTACTCCTGTTGTTACTTTTCATTACATTTAGAAATATTACAACTTTTTT
125 TATCTTTTTACTCCTATTGTTACTTTTCATTACATTTAGAAATATTACAACTTTTTT
8761161 CTTAAAGATG
Statistics
Matches: 151, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
209 10 0.07
210 50 0.33
211 23 0.15
212 5 0.03
214 3 0.02
215 13 0.09
216 40 0.26
217 7 0.05
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.54
Consensus pattern (215 bp):
AAATAATACTAATTTTACAATTATTCTCACATTTTTCACATTAACACTTATTTTTTATTGAATTA
TTTTTTTATATATAATAGTAGTTTTTTTACATTACCAACTATTATTTATATTTCAATAATATCTT
TTTACTCCTATTGTTACTTTTCATTACATTTAGAAATATTACAACTTTTTTGAAGGTGAACTGAT
ATTTCTAATTATTGTACATT
Found at i:8762184 original size:20 final size:20
Alignment explanation
Indices: 8762148--8762185 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8762138 ATGACATTAA
*
8762148 TTTTATGATTATTTTTATAT
1 TTTTATGATTATATTTATAT
8762168 TTTTATG-TTAATATTTAT
1 TTTTATGATT-ATATTTAT
8762186 TTATTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTATGATTATATTTATAT
Found at i:8763230 original size:22 final size:23
Alignment explanation
Indices: 8763202--8763251 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
8763192 AATTGAATCG
8763202 AATTATTTTAAATAAAA-ATTTA
1 AATTATTTTAAATAAAATATTTA
* * *
8763224 AATTATTTTTATTAAAATTTTTA
1 AATTATTTTAAATAAAATATTTA
8763247 AATTA
1 AATTA
8763252 ATAAGATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATTTTAAATAAAATATTTA
Found at i:8767166 original size:28 final size:28
Alignment explanation
Indices: 8767134--8767189 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8767124 TCCATGCCTT
8767134 AGATAATATTATTTTATTTGTTCTAAAA
1 AGATAATATTATTTTATTTGTTCTAAAA
8767162 AGATAATATTATTTTATTTGTTCTAAAA
1 AGATAATATTATTTTATTTGTTCTAAAA
8767190 CACTAAGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (28 bp):
AGATAATATTATTTTATTTGTTCTAAAA
Found at i:8768839 original size:22 final size:23
Alignment explanation
Indices: 8768808--8768855 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8768798 AATTTAAAAT
* *
8768808 TTTAATAAAAATTATA-TATAAA
1 TTTAACAAAAAATATATTATAAA
*
8768830 TTTAACAAAAAATATATTATATA
1 TTTAACAAAAAATATATTATAAA
8768853 TTT
1 TTT
8768856 TATATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAACAAAAAATATATTATAAA
Found at i:8770663 original size:11 final size:11
Alignment explanation
Indices: 8770644--8770685 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
8770634 AATTTTATAA
8770644 GAGATTTGTTT
1 GAGATTTGTTT
* *
8770655 GAAATTTGTTA
1 GAGATTTGTTT
8770666 GAGATTTGTTT
1 GAGATTTGTTT
8770677 GAGATTTGT
1 GAGATTTGT
8770686 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:8770670 original size:22 final size:22
Alignment explanation
Indices: 8770643--8770685 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8770633 AAATTTTATA
8770643 AGAGATTTGTTTGAAATTTGTT
1 AGAGATTTGTTTGAAATTTGTT
*
8770665 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAAATTTGT
8770686 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAAATTTGTT
Found at i:8770798 original size:52 final size:52
Alignment explanation
Indices: 8770742--8770866 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
8770732 AGAAAAAAAA
* *
8770742 GATTCTTAATAGATAAGTTTGATTTGCAAAAGAAGAATTCTAAAAGGA-AAGG
1 GATTCTTAATAGATAAGTTTGACTTACAAAAGAAGAATTCTAAAAGGAGAA-G
* ** *
8770794 GATTCTTAATA-AGTAAATTTGACTTACAGGAGAAGAATTCTAAGAGGAGAAG
1 GATTCTTAATAGA-TAAGTTTGACTTACAAAAGAAGAATTCTAAAAGGAGAAG
* * *
8770846 GATTTTTAATGGGTAAGTTTG
1 GATTCTTAATAGATAAGTTTG
8770867 TATGGTTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
51 1 0.02
52 57 0.95
53 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (52 bp):
GATTCTTAATAGATAAGTTTGACTTACAAAAGAAGAATTCTAAAAGGAGAAG
Found at i:8772462 original size:23 final size:23
Alignment explanation
Indices: 8772432--8772480 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
8772422 ATGATAAAAG
*
8772432 AAAATTTAGTTGACTAAGGTAAA
1 AAAATTTAATTGACTAAGGTAAA
8772455 AAAATTTAATTGACTAAGGTAAA
1 AAAATTTAATTGACTAAGGTAAA
8772478 AAA
1 AAA
8772481 GTAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (23 bp):
AAAATTTAATTGACTAAGGTAAA
Found at i:8773604 original size:22 final size:21
Alignment explanation
Indices: 8773568--8773623 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
8773558 ATAAATATTT
*
8773568 TATA-TAAAAATCTATTTAAA
1 TATATTAAAAATCTATTGAAA
8773588 TATATTAAAAATCCTATTGAAA
1 TATATTAAAAAT-CTATTGAAA
8773610 TAATATATAAAAAT
1 T-ATAT-TAAAAAT
8773624 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 9 0.29
23 4 0.13
24 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TATATTAAAAATCTATTGAAA
Found at i:8775544 original size:16 final size:19
Alignment explanation
Indices: 8775515--8775569 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 19
8775505 AAAGGTTTAT
8775515 ATATATTGTATTATTTATT-
1 ATATA-TGTATTATTTATTA
*
8775534 AT-TAT-TATTATGTATTA
1 ATATATGTATTATTTATTA
8775551 ATATATGTATATATTTATT
1 ATATATGTAT-TATTTATT
8775570 TATTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 10 0.33
17 3 0.10
18 5 0.17
19 5 0.17
20 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATATATGTATTATTTATTA
Found at i:8775587 original size:35 final size:37
Alignment explanation
Indices: 8775515--8775611 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 37
8775505 AAAGGTTTAT
8775515 ATATATTGTAT-TATTTATTA-TTATTATTATGTATTA
1 ATATA-TGTATATATTTATTATTTATTATTATGTATTA
*
8775551 ATATATGTATATATTTATTTATTTATT-TT-T-TGTTA
1 ATATATGTATATATTTA-TTATTTATTATTATGTATTA
*
8775586 ATATTTATGTGTAT-TTTATTATTTAT
1 ATA--TATGTATATATTTATTATTTAT
8775612 GTATATATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
35 20 0.37
36 16 0.30
37 13 0.24
38 5 0.09
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (37 bp):
ATATATGTATATATTTATTATTTATTATTATGTATTA
Found at i:8775591 original size:61 final size:59
Alignment explanation
Indices: 8775526--8775641 Score: 132
Period size: 63 Copynumber: 1.9 Consensus size: 59
8775516 TATATTGTAT
8775526 TATTTA-T-TATTATTATTATGTAT-TAATATATGTATATATTTATTTATTTAT-TTTTTGTTAA
1 TATTTAGTGTATT-TTATTATGTATGT-ATATA--TATATATTT-TTT-TTTATCTTTTTGTTAA
*
8775587 TATTTATGTGTATTTTATTATTTATGTATATATATATATTTTTTTTTATCTTTTT
1 TATTTA-GTGTATTTTATTATGTATGTATATATATATATTTTTTTTTATCTTTTT
8775642 TATTTTATTC
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
59 5 0.10
60 8 0.16
61 15 0.31
63 16 0.33
64 5 0.10
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (59 bp):
TATTTAGTGTATTTTATTATGTATGTATATATATATATTTTTTTTTATCTTTTTGTTAA
Found at i:8776236 original size:20 final size:20
Alignment explanation
Indices: 8776211--8776255 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8776201 TCCGACTAAC
*
8776211 TTCCGGTGAAATTTTTCAGA
1 TTCCGGTGAAATTTTCCAGA
*
8776231 TTCCGGTGACATTTTCCAGA
1 TTCCGGTGAAATTTTCCAGA
*
8776251 ATCCG
1 TTCCG
8776256 ACGAACATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (20 bp):
TTCCGGTGAAATTTTCCAGA
Found at i:8776381 original size:18 final size:17
Alignment explanation
Indices: 8776354--8776392 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
8776344 CATAAAAAAG
*
8776354 ATAGAGGAGGAATCTGA
1 ATAGAGGAGGAATCCGA
8776371 ATAGTAGGAGGAATCCGA
1 ATAG-AGGAGGAATCCGA
8776389 ATAG
1 ATAG
8776393 GAAAAGGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.41, C:0.08, G:0.33, T:0.18
Consensus pattern (17 bp):
ATAGAGGAGGAATCCGA
Found at i:8778138 original size:58 final size:56
Alignment explanation
Indices: 8778051--8778445 Score: 367
Period size: 58 Copynumber: 6.9 Consensus size: 56
8778041 ATAAAATGAT
*
8778051 AAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAAATTTC-CAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
*** * *
8778109 AAAAGCTTTCCAAACTTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
1 AAAA--TTTCCAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* ** * * *
8778167 TAAATTTTTAAAAAAAAGATTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAA
1 -AAAATTTCCAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAA
**
8778226 ATAAATTTAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG-------TTTCCTTAAAAA
1 A-AAATTTCCAAAAAAA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* * *
8778279 TAAATTT-CAGAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATC
1 AAAATTTCCA-AAAAAA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAA-A
8778340 AAAATTTCCAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAAATTTCCAAAAAA-ATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* * * *
8778397 TAAATTTTCAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATTTCCAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
8778446 CTACACAAGA
Statistics
Matches: 282, Mismatches: 33, Indels: 46
0.78 0.09 0.13
Matches are distributed among these distances:
51 1 0.00
52 36 0.13
53 5 0.02
54 7 0.02
56 32 0.11
57 19 0.07
58 79 0.28
59 62 0.22
60 8 0.03
61 30 0.11
62 3 0.01
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (56 bp):
AAAATTTCCAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
Found at i:8778285 original size:52 final size:53
Alignment explanation
Indices: 8778213--8778319 Score: 180
Period size: 52 Copynumber: 2.0 Consensus size: 53
8778203 AAATATCAAT
8778213 TTTCCTTAAAAAAATAAATTTAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG
1 TTTCCTT-AAAAAATAAATTTAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG
* *
8778267 TTTCCTT-AAAAATAAATTTCAGAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG
1 TTTCCTTAAAAAATAAATTTAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG
8778319 T
1 T
8778320 ATCAATTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 44 0.86
54 7 0.14
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.31
Consensus pattern (53 bp):
TTTCCTTAAAAAATAAATTTAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG
Found at i:8783234 original size:21 final size:21
Alignment explanation
Indices: 8783205--8783244 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8783195 TTTTTTTCTT
* *
8783205 TTTTTATTTTTTTATTTAAAA
1 TTTTAATTTTTTTAATTAAAA
8783226 TTTTAATTTTTTTAATTAA
1 TTTTAATTTTTTTAATTAA
8783245 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTAATTTTTTTAATTAAAA
Found at i:8783248 original size:17 final size:18
Alignment explanation
Indices: 8783228--8783261 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8783218 ATTTAAAATT
8783228 TTAATTTTTTTA-ATTAA
1 TTAATTTTTTTAGATTAA
8783245 TTAATTTTTTTAGATTA
1 TTAATTTTTTTAGATTA
8783262 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTAATTTTTTTAGATTAA
Found at i:8786124 original size:17 final size:17
Alignment explanation
Indices: 8786096--8786129 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8786086 CTACTATTAG
8786096 AAAAATAGATAAGAAAAT
1 AAAAATAGATAA-AAAAT
8786114 AAAAATA-ATAAAAAAT
1 AAAAATAGATAAAAAAT
8786130 TTTAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAGATAAAAAAT
Found at i:8787824 original size:110 final size:111
Alignment explanation
Indices: 8787660--8787882 Score: 340
Period size: 110 Copynumber: 2.0 Consensus size: 111
8787650 TGAAAGATAG
* * * *
8787660 CTAGTAAATATTCTATATCTTGATATTTCCTTTTCATAGAAGTTCCAAAACTTTTATTTCAACTT
1 CTAGTAAATATTCTATATCTTAACATTTCCTTTTCATAAAAGTTCCAAAACTTTTATTTCAACTC
* *
8787725 AATAGGAAAGTATGCATCAATAATTATAATGCCAAATATAATCACC
66 AATAGAAAAGTATGCATCAATAATTATAATACCAAATATAATCACC
* * *
8787771 CTAGTAAATATTCTATATTTTAACATTT-TTTTTCATAAAAGTTTCAAAACTTTTATTTCAACTC
1 CTAGTAAATATTCTATATCTTAACATTTCCTTTTCATAAAAGTTCCAAAACTTTTATTTCAACTC
* *
8787835 AATAGAAAAGTGTGCATCAATAATTATAATACTAAATATAATCACC
66 AATAGAAAAGTATGCATCAATAATTATAATACCAAATATAATCACC
8787881 CT
1 CT
8787883 TAAAACTAGT
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 76 0.75
111 25 0.25
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (111 bp):
CTAGTAAATATTCTATATCTTAACATTTCCTTTTCATAAAAGTTCCAAAACTTTTATTTCAACTC
AATAGAAAAGTATGCATCAATAATTATAATACCAAATATAATCACC
Found at i:8794653 original size:55 final size:55
Alignment explanation
Indices: 8794585--8794701 Score: 171
Period size: 55 Copynumber: 2.1 Consensus size: 55
8794575 AAAAAGTCTG
**
8794585 TTCAAATTCAAATTAAAATTTAAAAAATTATAATATTACACATTATCTAAATCAA
1 TTCAAATTCAAATTAAAATTTAAAAAATTATAATATTACACATTATCTAAAAAAA
* * * * *
8794640 TTCAAATTTAAATTAAATTTTAAAAATTTATAATGTTATACATTATCTAAAAAAA
1 TTCAAATTCAAATTAAAATTTAAAAAATTATAATATTACACATTATCTAAAAAAA
8794695 TTCAAAT
1 TTCAAAT
8794702 CGAATATAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (55 bp):
TTCAAATTCAAATTAAAATTTAAAAAATTATAATATTACACATTATCTAAAAAAA
Found at i:8796695 original size:22 final size:22
Alignment explanation
Indices: 8796638--8796697 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
8796628 TTTTGAGGTG
8796638 TTTTTAATATTAAAATTTATTT
1 TTTTTAATATTAAAATTTATTT
* * *
8796660 TTTATAAAATTAAAATTTTTTAT
1 TTTTTAATATTAAAATTTATT-T
*
8796683 TTTTTAATATAAAAA
1 TTTTTAATATTAAAA
8796698 ATAAAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTAATATTAAAATTTATTT
Found at i:8796745 original size:15 final size:15
Alignment explanation
Indices: 8796705--8796747 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8796695 AAAATAAAAT
*
8796705 AAATTTTAAATA-AA
1 AAATTCTAAATATAA
*
8796719 TAATTCTAAAATATAA
1 AAATTCT-AAATATAA
8796735 AAATTCTAAATAT
1 AAATTCTAAATAT
8796748 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.21
15 11 0.46
16 8 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATTCTAAATATAA
Found at i:8796769 original size:25 final size:24
Alignment explanation
Indices: 8796712--8796771 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
8796702 AATAAATTTT
8796712 AAATAAATAATTCTAAAATATAAAA
1 AAATAAAT-ATTCTAAAATATAAAA
** *
8796737 ATTCTAAATATTTTAAAATATTAAAA
1 A-AATAAATATTCTAAAATA-TAAAA
8796763 AAATAAATA
1 AAATAAATA
8796772 AAAAAATAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAATATTCTAAAATATAAAA
Found at i:8812469 original size:20 final size:21
Alignment explanation
Indices: 8812444--8812482 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8812434 TGATAATTTT
*
8812444 TAAAAAAAT-TAAAATAAACC
1 TAAAAAAATAAAAAATAAACC
8812464 TAAAAAAATAAAAAATAAA
1 TAAAAAAATAAAAAATAAA
8812483 ATATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAAAAAATAAAAAATAAACC
Found at i:8812505 original size:3 final size:3
Alignment explanation
Indices: 8812497--8812539 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
8812487 AAATAACTAG
*
8812497 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8812540 CAATGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8812799 original size:3 final size:3
Alignment explanation
Indices: 8812793--8812858 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
8812783 ATGATGATGG
8812793 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8812841 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
8812859 ATTTTATGAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8813094 original size:22 final size:22
Alignment explanation
Indices: 8813069--8813225 Score: 79
Period size: 22 Copynumber: 7.0 Consensus size: 22
8813059 TTAAAATTCA
8813069 AAATCCTAAAACTCTAAACCCT
1 AAATCCTAAAACTCTAAACCCT
** * *
8813091 AAATTTTAAAACTCAAAACCTT
1 AAATCCTAAAACTCTAAACCCT
* * * * *
8813113 AAACCCTAAACCTTTACACCTT
1 AAATCCTAAAACTCTAAACCCT
8813135 AAA-CTCTAAAACT-TAAAACCCT
1 AAATC-CTAAAACTCT-AAACCCT
** *
8813157 AAA-CCTTAAATACTAAAAAACCT
1 AAATCC-TAAA-ACTCTAAACCCT
* *
8813180 AAACCCTCAAAA-TCTTAAACCTT
1 AAATCCT-AAAACTC-TAAACCCT
* *
8813203 AAATACTCAAACTCATAAACCCT
1 AAATCCTAAAACTC-TAAACCCT
8813226 TAAAACCCTA
Statistics
Matches: 101, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
21 3 0.03
22 60 0.59
23 33 0.33
24 5 0.05
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATCCTAAAACTCTAAACCCT
Found at i:8813116 original size:7 final size:7
Alignment explanation
Indices: 8813106--8813166 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
8813096 TTAAAACTCA
8813106 AAACCTT
1 AAACCTT
*
8813113 AAACCCT
1 AAACCTT
8813120 AAACCTTT
1 AAACC-TT
*
8813128 ACACCTT
1 AAACCTT
8813135 AAA-CTCT
1 AAACCT-T
*
8813142 AAAACTT
1 AAACCTT
*
8813149 AAAACCCT
1 -AAACCTT
8813157 AAACCTT
1 AAACCTT
8813164 AAA
1 AAA
8813167 TACTAAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
6 2 0.05
7 29 0.67
8 12 0.28
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (7 bp):
AAACCTT
Found at i:8813205 original size:23 final size:23
Alignment explanation
Indices: 8813174--8813234 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
8813164 AAATACTAAA
*
8813174 AAACC-TAAACCCTCAAAATCTT
1 AAACCTTAAACCCTCAAAATCAT
** *
8813196 AAACCTTAAATACTCAAACTCAT
1 AAACCTTAAACCCTCAAAATCAT
8813219 AAACCCTTAAAACCCT
1 AAA-CCTT-AAACCCT
8813235 AAACCATAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 5 0.17
23 16 0.53
24 4 0.13
25 5 0.17
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (23 bp):
AAACCTTAAACCCTCAAAATCAT
Found at i:8813222 original size:39 final size:39
Alignment explanation
Indices: 8813149--8813239 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
8813139 TCTAAAACTT
*
8813149 AAAACCCTAAACCTTAAATACTAAAAAACCTAAACCCTC
1 AAAACCCTAAACCTTAAATACTAAAAAACATAAACCCTC
* * * ** *
8813188 AAAATCTTAAACCTTAAATACTCAAACTCATAAACCCTT
1 AAAACCCTAAACCTTAAATACTAAAAAACATAAACCCTC
8813227 AAAACCCTAAACC
1 AAAACCCTAAACC
8813240 ATAAGCCCTC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (39 bp):
AAAACCCTAAACCTTAAATACTAAAAAACATAAACCCTC
Found at i:8813242 original size:23 final size:24
Alignment explanation
Indices: 8813195--8813260 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
8813185 CTCAAAATCT
8813195 TAAA-CCTTAAATACTC-AAACTCA
1 TAAACCCTTAAA-ACTCTAAACTCA
*
8813218 TAAACCCTTAAAACCCTAAAC-CA
1 TAAACCCTTAAAACTCTAAACTCA
* *
8813241 TAAGCCCTCAAAACTCTAAA
1 TAAACCCTTAAAACTCTAAA
8813261 ATTTCAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 26 0.70
24 11 0.30
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (24 bp):
TAAACCCTTAAAACTCTAAACTCA
Found at i:8813279 original size:15 final size:16
Alignment explanation
Indices: 8813248--8813285 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
8813238 CCATAAGCCC
8813248 TCAAAACTCTAAAATT
1 TCAAAACTCTAAAATT
*
8813264 TCAAAA-TCTTAAATT
1 TCAAAACTCTAAAATT
8813279 TCAAAAC
1 TCAAAAC
8813286 CCAAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (16 bp):
TCAAAACTCTAAAATT
Found at i:8813307 original size:8 final size:8
Alignment explanation
Indices: 8813296--8813394 Score: 53
Period size: 8 Copynumber: 12.6 Consensus size: 8
8813286 CCAAAAATCC
8813296 AAAACCTT
1 AAAACCTT
8813304 AAAA-CTT
1 AAAACCTT
* *
8813311 GAAACCCT
1 AAAACCTT
* *
8813319 AAAAACAT
1 AAAACCTT
*
8813327 -AAATCTT
1 AAAACCTT
8813334 CAAAACCTT
1 -AAAACCTT
*
8813343 AAAA-TTT
1 AAAACCTT
*
8813350 CAAAACCAT
1 -AAAACCTT
8813359 AAAA-CTT
1 AAAACCTT
8813366 AAAACCTT
1 AAAACCTT
* *
8813374 AAGATCTT
1 AAAACCTT
*
8813382 GAAACCTT
1 AAAACCTT
*
8813390 CAAAC
1 AAAAC
8813395 GAGACCCTAA
Statistics
Matches: 67, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
7 19 0.28
8 41 0.61
9 7 0.10
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (8 bp):
AAAACCTT
Found at i:8815120 original size:4 final size:4
Alignment explanation
Indices: 8815111--8815175 Score: 58
Period size: 4 Copynumber: 15.8 Consensus size: 4
8815101 CTATGCTTGA
* * * *
8815111 TTAT TTAT TTAT TTAT TTGT TTGT TTGT TTAT TTAT TTATT TTAT TAAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT
* *
8815160 ATTAC TGAT TTAT TTA
1 -TTAT TTAT TTAT TTA
8815176 ATTCTTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
4 45 0.88
5 6 0.12
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:8815908 original size:19 final size:20
Alignment explanation
Indices: 8815868--8815914 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8815858 CAGTTATATC
*
8815868 ATTTTAATAAATTTTTATTT
1 ATTTTAATAAATTTTTAGTT
*
8815888 ATTTTAATATATTTTT-GTT
1 ATTTTAATAAATTTTTAGTT
*
8815907 ATGTTAAT
1 ATTTTAAT
8815915 TTTATGTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTAATAAATTTTTAGTT
Found at i:8816565 original size:16 final size:16
Alignment explanation
Indices: 8816544--8816574 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8816534 TCGGAATGAT
8816544 TATGGAATTTGTTTTC
1 TATGGAATTTGTTTTC
*
8816560 TATGGATTTTGTTTT
1 TATGGAATTTGTTTT
8816575 GAGAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.19, T:0.61
Consensus pattern (16 bp):
TATGGAATTTGTTTTC
Found at i:8827074 original size:26 final size:27
Alignment explanation
Indices: 8827032--8827088 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
8827022 GTTTGCTTAA
*
8827032 AAAAAGTAAAAATAAAAAG-AGAAAAAG
1 AAAAAGT-AAAATAAAAAGAAGAAAAAC
8827059 AAAAAG-AAAGA-AAAAAGAAGAAAAAC
1 AAAAAGTAAA-ATAAAAAGAAGAAAAAC
8827085 AAAA
1 AAAA
8827089 TAAAACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 9 0.33
26 12 0.44
27 6 0.22
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.04
Consensus pattern (27 bp):
AAAAAGTAAAATAAAAAGAAGAAAAAC
Found at i:8827079 original size:14 final size:13
Alignment explanation
Indices: 8827030--8827088 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
8827020 TAGTTTGCTT
8827030 AAAAAAAGTAA-AA
1 AAAAAAAG-AAGAA
*
8827043 ATAAAAAG-AGAA
1 AAAAAAAGAAGAA
*
8827055 AAAGAAA-AAGAA
1 AAAAAAAGAAGAA
8827067 AGAAAAAAGAAGAA
1 A-AAAAAAGAAGAA
8827081 AAACAAAA
1 AAA-AAAA
8827089 TAAAACAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
11 1 0.03
12 12 0.32
13 14 0.38
14 10 0.27
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:8827098 original size:25 final size:23
Alignment explanation
Indices: 8827039--8827102 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 23
8827029 TAAAAAAAGT
* *
8827039 AAAAATAAAAAGAGAAAAAGAAA
1 AAAAAAAAAAAGAGAAAAACAAA
8827062 AAGAAAGAAAAAAGAAGAAAAACAAA
1 AA-AAA-AAAAAAG-AGAAAAACAAA
* *
8827088 ATAAAACAAAAGAGA
1 AAAAAAAAAAAGAGA
8827103 TGTTTCAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.15
24 9 0.26
25 9 0.26
26 11 0.32
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAAGAGAAAAACAAA
Found at i:8828435 original size:70 final size:70
Alignment explanation
Indices: 8828311--8828446 Score: 159
Period size: 70 Copynumber: 1.9 Consensus size: 70
8828301 TTAGTTTCTG
* * * **
8828311 TCATTTTCATTTCTTGAGTTGCAGCTTAATCCTAATAATTTTCATTTCCAGACTTGTGACTCAAT
1 TCATTTTCATTTCTCGACTTGCAGCTTAATCCCAATAATTTTCATTTCCAGACTTGCAACTCAAT
8828376 CTCGA
66 CTCGA
** * *
8828381 TCATTTTCATTTCTCGACTTGTGGTTTAATCCCAATAATCTTT-A-TTCTCTGACTTGCAACTCA
1 TCATTTTCATTTCTCGACTTGCAGCTTAATCCCAATAAT-TTTCATTTC-CAGACTTGCAACTCA
8828444 ATC
64 ATC
8828447 CCAGTCATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
69 3 0.05
70 49 0.89
71 3 0.05
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (70 bp):
TCATTTTCATTTCTCGACTTGCAGCTTAATCCCAATAATTTTCATTTCCAGACTTGCAACTCAAT
CTCGA
Found at i:8828455 original size:70 final size:69
Alignment explanation
Indices: 8828310--8828474 Score: 156
Period size: 70 Copynumber: 2.4 Consensus size: 69
8828300 CTTAGTTTCT
* * * **
8828310 GTCATTTTCATTTCTTGAGTTGCAGCTTAATCCTAATAATTTTCATTTCCAGACTTGTGACTCAA
1 GTCATTTTCATTTCTCGACTTGCAGCTTAATCCCAATAATTTTCATTTCCAGACTTGCAACTCAA
*
8828375 TCTC
66 TCCC
** * *
8828379 GATCATTTTCATTTCTCGACTTGTGGTTTAATCCCAATAATCTTT-A-TTCTCTGACTTGCAACT
1 G-TCATTTTCATTTCTCGACTTGCAGCTTAATCCCAATAAT-TTTCATTTC-CAGACTTGCAACT
8828442 CAATCCC
63 CAATCCC
* *
8828449 AGTCATTTTTA-TTCTTTGACTTGCAG
1 -GTCATTTTCATTTC-TCGACTTGCAG
8828475 TTCTATCCCG
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
69 7 0.09
70 66 0.86
71 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (69 bp):
GTCATTTTCATTTCTCGACTTGCAGCTTAATCCCAATAATTTTCATTTCCAGACTTGCAACTCAA
TCCC
Found at i:8828483 original size:35 final size:35
Alignment explanation
Indices: 8828421--8828496 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
8828411 CCCAATAATC
8828421 TTTATTCTCTGACTTGCAACTCAATCCC-AGTCATT
1 TTTATTCTCTGACTTGCAACTCAATCCCGA-TCATT
* ** *
8828456 TTTATTCTTTGACTTGCAGTTCTATCCCGATCATT
1 TTTATTCTCTGACTTGCAACTCAATCCCGATCATT
8828491 TTTATT
1 TTTATT
8828497 TTTCAACTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.47
Consensus pattern (35 bp):
TTTATTCTCTGACTTGCAACTCAATCCCGATCATT
Found at i:8828600 original size:34 final size:35
Alignment explanation
Indices: 8828557--8828633 Score: 111
Period size: 34 Copynumber: 2.2 Consensus size: 35
8828547 TACAATTATC
* *
8828557 TTTATTCTTCAACTTATGGTTCA-TCTCGATCATG
1 TTTATTCTTCAACTTATAGCTCAGTCTCGATCATG
* *
8828591 TTTATTCTTCAACTTGTAGCTCAGTCTCGATCATT
1 TTTATTCTTCAACTTATAGCTCAGTCTCGATCATG
8828626 TTTATTCT
1 TTTATTCT
8828634 AACTCACGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 20 0.53
35 18 0.47
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.49
Consensus pattern (35 bp):
TTTATTCTTCAACTTATAGCTCAGTCTCGATCATG
Found at i:8828893 original size:34 final size:35
Alignment explanation
Indices: 8828827--8828997 Score: 157
Period size: 35 Copynumber: 4.9 Consensus size: 35
8828817 CAATCTCAGG
* * * *
8828827 CATATTTATTCTTCAACTTGTAGTTCAATCCCAGT
1 CATATTTATTCTTCGACTTATGGTTCAGTCCCAGT
* *
8828862 CATATTTA-TCTTCCACTTATGGCTCAGTCCCAGT
1 CATATTTATTCTTCGACTTATGGTTCAGTCCCAGT
** * * * *
8828896 CACCTTTATTCTT-GACTTGTGGTTTAGTTCCAAT
1 CATATTTATTCTTCGACTTATGGTTCAGTCCCAGT
* *
8828930 CATATTTATTCTTCGATTTATGGTTTAGTCCCAGT
1 CATATTTATTCTTCGACTTATGGTTCAGTCCCAGT
* * * * *
8828965 TATATTTATTCTTCAACTCAAGGTTCAATCCCA
1 CATATTTATTCTTCGACTTATGGTTCAGTCCCA
8828998 ATCACGTTCA
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
34 53 0.49
35 55 0.51
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (35 bp):
CATATTTATTCTTCGACTTATGGTTCAGTCCCAGT
Found at i:8828973 original size:69 final size:69
Alignment explanation
Indices: 8828827--8829001 Score: 183
Period size: 69 Copynumber: 2.5 Consensus size: 69
8828817 CAATCTCAGG
*
8828827 CATATTTATTCTTCAACTTGTAGTTCAATCCCAGTCATATTTATCTTCCACTTATGGCTCAGTCC
1 CATATTTATTCTTCAACTTGTAGTTCAATCCCAATCATATTTATCTTCCACTTATGGCTCAGTCC
8828892 CAGT
66 CAGT
** * * * * * * * * *
8828896 CACCTTTATTCTT-GACTTGTGGTTTAGTTCCAATCATATTTATTCTTCGATTTATGGTTTAGTC
1 CATATTTATTCTTCAACTTGTAGTTCAATCCCAATCATATTTA-TCTTCCACTTATGGCTCAGTC
8828960 CCAGT
65 CCAGT
* **
8828965 TATATTTATTCTTCAAC-TCAAGGTTCAATCCCAATCA
1 CATATTTATTCTTCAACTTGTA-GTTCAATCCCAATCA
8829002 CGTTCATTTC
Statistics
Matches: 81, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
68 23 0.28
69 44 0.54
70 14 0.17
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (69 bp):
CATATTTATTCTTCAACTTGTAGTTCAATCCCAATCATATTTATCTTCCACTTATGGCTCAGTCC
CAGT
Found at i:8830758 original size:3 final size:3
Alignment explanation
Indices: 8830752--8830801 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
8830742 AAAATTATTA
* *
8830752 AAT AAT AAT -AT AAT AAA AATT ACT AA- AGAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT
8830797 AAT AA
1 AAT AA
8830802 ATTTTATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 3 0.08
3 34 0.87
4 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8831055 original size:7 final size:8
Alignment explanation
Indices: 8831037--8831093 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
8831027 GGAAGTCCTC
*
8831037 AAAACCCT
1 AAAACTCT
8831045 AAAA-TCT
1 AAAACTCT
*
8831052 AAAACCCT
1 AAAACTCT
8831060 AAAACTCT
1 AAAACTCT
8831068 -AAAC-CT
1 AAAACTCT
* *
8831074 TAAACTCC
1 AAAACTCT
8831082 AAAACTC-
1 AAAACTCT
8831089 AAAAC
1 AAAAC
8831094 CTTAAACGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
6 2 0.05
7 19 0.46
8 20 0.49
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAACTCT
Found at i:8831057 original size:15 final size:16
Alignment explanation
Indices: 8831037--8831070 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
8831027 GGAAGTCCTC
8831037 AAAACCCTAAAA-TCT
1 AAAACCCTAAAACTCT
8831052 AAAACCCTAAAACTCT
1 AAAACCCTAAAACTCT
8831068 AAA
1 AAA
8831071 CCTTAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAACCCTAAAACTCT
Found at i:8831077 original size:15 final size:15
Alignment explanation
Indices: 8831038--8831131 Score: 54
Period size: 15 Copynumber: 6.3 Consensus size: 15
8831028 GAAGTCCTCA
*
8831038 AAACCCTAAAA-TCT
1 AAACCTTAAAACTCT
*
8831052 AAAACCCTAAAACTCT
1 -AAACCTTAAAACTCT
*
8831068 AAACCTT-AAACTCC
1 AAACCTTAAAACTCT
* *
8831082 AAAACTCAAAAC-CTT
1 AAACCTTAAAACTC-T
*
8831097 AAACGTTAAATACT-T
1 AAACCTTAAA-ACTCT
*
8831112 AAAACCTTAAACCT-T
1 -AAACCTTAAAACTCT
8831127 AAACC
1 AAACC
8831132 CTCAAAACCA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
14 17 0.27
15 32 0.51
16 14 0.22
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (15 bp):
AAACCTTAAAACTCT
Found at i:8831146 original size:46 final size:46
Alignment explanation
Indices: 8831086--8831191 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
8831076 AACTCCAAAA
** * * *
8831086 CTCAAAACCTTAAACGTTAAATACTTAAAACCTTAAACCTTAAACC
1 CTCAAAACCTTAAACCATAAATACTCAAAACCGTAAACCATAAACC
* * *
8831132 CTCAAAACCATAAACCATAAATTCTCAAAACCGTAAACCATAAGCC
1 CTCAAAACCTTAAACCATAAATACTCAAAACCGTAAACCATAAACC
*
8831178 CTTAAAACCTTAAA
1 CTCAAAACCTTAAA
8831192 ATTTCAAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (46 bp):
CTCAAAACCTTAAACCATAAATACTCAAAACCGTAAACCATAAACC
Found at i:8831170 original size:23 final size:23
Alignment explanation
Indices: 8831053--8831174 Score: 106
Period size: 23 Copynumber: 5.4 Consensus size: 23
8831043 CTAAAATCTA
* *
8831053 AAACCCTAAA-ACTCTAAACCTT
1 AAACCATAAATACTCAAAACCTT
*
8831075 AAACTC-CAAA-ACTCAAAACCTT
1 AAAC-CATAAATACTCAAAACCTT
** *
8831097 AAACGTTAAATACTTAAAACCTT
1 AAACCATAAATACTCAAAACCTT
* ** *
8831120 AAACCTTAAACCCTCAAAACCAT
1 AAACCATAAATACTCAAAACCTT
* *
8831143 AAACCATAAATTCTCAAAACCGT
1 AAACCATAAATACTCAAAACCTT
8831166 AAACCATAA
1 AAACCATAA
8831175 GCCCTTAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
22 25 0.30
23 58 0.70
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (23 bp):
AAACCATAAATACTCAAAACCTT
Found at i:8831184 original size:23 final size:23
Alignment explanation
Indices: 8831086--8831191 Score: 104
Period size: 23 Copynumber: 4.6 Consensus size: 23
8831076 AACTCCAAAA
** **
8831086 CTCAAAACCTTAAACGTTAAATA
1 CTCAAAACCTTAAACCATAAACC
* *
8831109 CTTAAAACCTTAAACCTTAAACC
1 CTCAAAACCTTAAACCATAAACC
* **
8831132 CTCAAAACCATAAACCATAAATT
1 CTCAAAACCTTAAACCATAAACC
* *
8831155 CTCAAAACCGTAAACCATAAGCC
1 CTCAAAACCTTAAACCATAAACC
*
8831178 CTTAAAACCTTAAA
1 CTCAAAACCTTAAA
8831192 ATTTCAAAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (23 bp):
CTCAAAACCTTAAACCATAAACC
Found at i:8833684 original size:3 final size:3
Alignment explanation
Indices: 8833676--8833703 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8833666 AATGACAAAG
8833676 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
8833704 GCTGTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:8834415 original size:15 final size:15
Alignment explanation
Indices: 8834391--8834437 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
8834381 TTGAACTCTT
8834391 AATTTTAATTATTAA
1 AATTTTAATTATTAA
* * *
8834406 AATTTAAATTTTTAC
1 AATTTTAATTATTAA
*
8834421 AATTTTAAGTATTAA
1 AATTTTAATTATTAA
8834436 AA
1 AA
8834438 AAATGTTCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AATTTTAATTATTAA
Found at i:8835606 original size:11 final size:11
Alignment explanation
Indices: 8835590--8835631 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
8835580 ATATATGTAT
8835590 ATATTAAAATG
1 ATATTAAAATG
8835601 ATATTAGACAAT-
1 ATATTA-A-AATG
8835613 ATATTAAAATG
1 ATATTAAAATG
8835624 ATATTAAA
1 ATATTAAA
8835632 CAATTATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 15 0.54
12 7 0.25
13 3 0.11
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (11 bp):
ATATTAAAATG
Found at i:8835614 original size:23 final size:23
Alignment explanation
Indices: 8835588--8835635 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
8835578 ATATATATGT
*
8835588 ATATATTAAAATGATATTAGACA
1 ATATATTAAAATGATATTAAACA
8835611 ATATATTAAAATGATATTAAACA
1 ATATATTAAAATGATATTAAACA
8835634 AT
1 AT
8835636 TATCTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATATTAAAATGATATTAAACA
Found at i:8844651 original size:22 final size:22
Alignment explanation
Indices: 8844626--8844669 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8844616 ATTTTCTGTC
8844626 CTTAATTCTAGGA-ATACAAATA
1 CTTAATTCTA-GACATACAAATA
8844648 CTTAATTCTAGACATACAAATA
1 CTTAATTCTAGACATACAAATA
8844670 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGACATACAAATA
Found at i:8856028 original size:34 final size:33
Alignment explanation
Indices: 8855986--8856082 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 33
8855976 TTTTTCAAAA
*
8855986 ATTTATTTTTAAGAAACTTCAATAA-TTCTCAGAT
1 ATTTATTTTCAAGAAACTT-AA-AACTTCTCAGAT
* *
8856020 ATTTATTTTCAAGATATCTTAAAACTTCTTAGAT
1 ATTTATTTTCAAGA-AACTTAAAACTTCTCAGAT
* * *
8856054 ATTCATTTTGAAGAATCATTAAAACTTCT
1 ATTTATTTTCAAGAAAC-TTAAAACTTCT
8856083 TAGAAATGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
33 5 0.09
34 46 0.84
35 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (33 bp):
ATTTATTTTCAAGAAACTTAAAACTTCTCAGAT
Found at i:8856083 original size:34 final size:34
Alignment explanation
Indices: 8856011--8856086 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
8856001 ACTTCAATAA
* *
8856011 TTCTCAGATATTTATTTTCAAGATATCTTAAAAC
1 TTCTTAGATATTCATTTTCAAGATATCTTAAAAC
*
8856045 TTCTTAGATATTCATTTTGAAGA-ATCATTAAAAC
1 TTCTTAGATATTCATTTTCAAGATATC-TTAAAAC
8856079 TTCTTAGA
1 TTCTTAGA
8856087 AATGGTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 3 0.08
34 35 0.92
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (34 bp):
TTCTTAGATATTCATTTTCAAGATATCTTAAAAC
Found at i:8856097 original size:34 final size:34
Alignment explanation
Indices: 8856024--8856099 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
8856014 TCAGATATTT
* * *
8856024 ATTTTCAAGATATCTTAAAACTTCTTAGATATTC
1 ATTTTGAAGATATCTTAAAACTTCTTAGAAATGC
*
8856058 ATTTTGAAGA-ATCATTAAAACTTCTTAGAAATGG
1 ATTTTGAAGATATC-TTAAAACTTCTTAGAAATGC
*
8856092 TTTTTGAA
1 ATTTTGAA
8856100 AAACCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (34 bp):
ATTTTGAAGATATCTTAAAACTTCTTAGAAATGC
Found at i:8856774 original size:34 final size:34
Alignment explanation
Indices: 8856699--8856781 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
8856689 TTATGTATTT
* * *
8856699 TCAAAAATGAGA-TTTCGAGAATACAATGTAAATC
1 TCAAAAATG-GATTTTCAAAAATACAATATAAATC
* * *
8856733 TCGAAAATGGATTTTCAAAAATATAATATAATTC
1 TCAAAAATGGATTTTCAAAAATACAATATAAATC
*
8856767 TCAAAAATGAATTTT
1 TCAAAAATGGATTTT
8856782 TGAGAATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.33
Consensus pattern (34 bp):
TCAAAAATGGATTTTCAAAAATACAATATAAATC
Found at i:8857370 original size:19 final size:20
Alignment explanation
Indices: 8857336--8857380 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
8857326 ATCGAACTAT
8857336 ATTTAAAAAAATATATTTTA
1 ATTTAAAAAAATATATTTTA
*
8857356 ATTTAAAAATA-ATATTTTA
1 ATTTAAAAAAATATATTTTA
8857375 ATTTAA
1 ATTTAA
8857381 TGATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAAAAAAATATATTTTA
Found at i:8864616 original size:184 final size:185
Alignment explanation
Indices: 8864281--8864637 Score: 436
Period size: 184 Copynumber: 1.9 Consensus size: 185
8864271 TAATATTCTA
* * * * *
8864281 TGATTTGGGTTTTTAGTTTTAAGTTAAATATTAGATTTTTTATTGGTAGAGATTGAAATGTTTCT
1 TGATTTGGGTTTTTAATTTTAAGGTAAATATTAGATTTGTTATTGGTAGAGATTGAAAGGTTACT
* * * ** *
8864346 CAAGGTTTGCAAGGACAAAGAAAAATGATAAAAGAGTTCTTGATATGTGATAGGTAGGCCCTTTA
66 CAAGCTTT-CAAGGACAAAGAAAAAAGATAAAAGAGTTCTTAATATGCAATAGGTAAGCCCTTTA
*
8864411 TAGCATATATGCTTACCATTTAGTTTTGATTTTGTATAGTTTAAGGGATTATTTGT
130 TAGCATATATGCTTACCATTTAGTTTTGATTTTATATAGTTTAAGGGATTATTTGT
8864467 TGATTTGGG-TTTTAATTTTAAGGTAAATATTAGA-TTGTTATTGGTAGAGATT-AAGAGGTTAC
1 TGATTTGGGTTTTTAATTTTAAGGTAAATATTAGATTTGTTATTGGTAGAGATTGAA-AGGTTAC
*** * * *
8864529 TCTTTCTTT-ATAGAGACAAAGAAAAAAGATGAAAAG-TTTTTTAATATGCAATAGGTAAGCCTT
65 TCAAGCTTTCA-AG-GACAAAGAAAAAAGAT-AAAAGAGTTCTTAATATGCAATAGGTAAGCCCT
* * * *
8864592 TTATAGCATATATGTTTGCCATTTATTTTTGATTTTATATATTTTA
127 TTATAGCATATATGCTTACCATTTAGTTTTGATTTTATATAGTTTA
8864638 TGAAAATTTT
Statistics
Matches: 145, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
182 1 0.01
183 4 0.03
184 103 0.71
185 28 0.19
186 9 0.06
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (185 bp):
TGATTTGGGTTTTTAATTTTAAGGTAAATATTAGATTTGTTATTGGTAGAGATTGAAAGGTTACT
CAAGCTTTCAAGGACAAAGAAAAAAGATAAAAGAGTTCTTAATATGCAATAGGTAAGCCCTTTAT
AGCATATATGCTTACCATTTAGTTTTGATTTTATATAGTTTAAGGGATTATTTGT
Found at i:8865304 original size:143 final size:143
Alignment explanation
Indices: 8865015--8865291 Score: 394
Period size: 143 Copynumber: 1.9 Consensus size: 143
8865005 GCATAATGGC
** * * * * *
8865015 TTTAAGGTTTTTCATATCTGTTTTGTTGTATTGTTGGTTGTGTGAAGTAGGGGTATAATTGATCG
1 TTTAAGGTTTTTCATATCTACTTTGTTGTATTGTTGATTGTGTAAAGTAAGGATATAATCGATCG
* *
8865080 AGTTCAAGCCGATACAATATGAAGCTCGAGCTCGACTCCAAATTCGAGGGTCGAAACTCAGCTCG
66 AGTTCAAGCCGATACAATATGAAGCTCGAGCTCGACTCCAAATTCAAGGCTCGAAACTCAGCTCG
8865145 AACTCAATCAAGT
131 AACTCAATCAAGT
*
8865158 TTTAAGG-TTTTCTATATCTACTTTGTTGTATTGTTGATTGTGTAAAGTAAGGATGTAATCGATC
1 TTTAAGGTTTTTC-ATATCTACTTTGTTGTATTGTTGATTGTGTAAAGTAAGGATATAATCGATC
* ** * **
8865222 GAGTTCGAGGTGATACAATATTAAGCTCGAGCTCGACTCCAAATTCAAGGCTCGAAACTTGGCTC
65 GAGTTCAAGCCGATACAATATGAAGCTCGAGCTCGACTCCAAATTCAAGGCTCGAAACTCAGCTC
8865287 GAACT
130 GAACT
8865292 TAATTTAATT
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
142 5 0.04
143 112 0.96
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (143 bp):
TTTAAGGTTTTTCATATCTACTTTGTTGTATTGTTGATTGTGTAAAGTAAGGATATAATCGATCG
AGTTCAAGCCGATACAATATGAAGCTCGAGCTCGACTCCAAATTCAAGGCTCGAAACTCAGCTCG
AACTCAATCAAGT
Found at i:8867790 original size:171 final size:171
Alignment explanation
Indices: 8867576--8867920 Score: 575
Period size: 171 Copynumber: 2.0 Consensus size: 171
8867566 TTATATATTC
* *
8867576 TATTTGCCTTAATTATAAAGAAAAAATTCAAGTAAACCTCATTTAGAAATTATTATTAGCTTAGT
1 TATTTGCCCTAATTATAAAAAAAAAATTCAAGTAAACCTCATTTAGAAATTATTATTAGCTTAGT
8867641 ACACTATTT-TATGTTTCTATGTATTCTTTCATGGTTAGGCCACAAGATTTTAGCATTTTCTTTT
66 ACACTATTTGT-TGTTTCTATGTATTCTTTCATGGTTAGGCCACAAGATTTTAGCATTTTCTTTT
8867705 GAAAATTTTCATTTCTTATTCTCATTATACTTCAAAACCTTT
130 GAAAATTTTCATTTCTTATTCTCATTATACTTCAAAACCTTT
*
8867747 TATTTGCCCTCATTATAAAAAAAAAATTCAAGTAAACCTCATTTAGAAATTATTATTAGCTTAGT
1 TATTTGCCCTAATTATAAAAAAAAAATTCAAGTAAACCTCATTTAGAAATTATTATTAGCTTAGT
* **** * *
8867812 ACACTATTTGTTGTTTCTATGTATTCTTTCATTGTTAGGTTGTAGGATTTTAGCATTTTTTTTTG
66 ACACTATTTGTTGTTTCTATGTATTCTTTCATGGTTAGGCCACAAGATTTTAGCATTTTCTTTTG
*
8867877 AAAATTTTCATTTCTTATTCTCATTATACTTCAATACCTTT
131 AAAATTTTCATTTCTTATTCTCATTATACTTCAAAACCTTT
8867918 TAT
1 TAT
8867921 ATATGAACAA
Statistics
Matches: 162, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
171 161 0.99
172 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (171 bp):
TATTTGCCCTAATTATAAAAAAAAAATTCAAGTAAACCTCATTTAGAAATTATTATTAGCTTAGT
ACACTATTTGTTGTTTCTATGTATTCTTTCATGGTTAGGCCACAAGATTTTAGCATTTTCTTTTG
AAAATTTTCATTTCTTATTCTCATTATACTTCAAAACCTTT
Found at i:8886458 original size:31 final size:30
Alignment explanation
Indices: 8886415--8886508 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 30
8886405 TAATTTATGC
8886415 TAAA-GATTTATTTAGGTACAAATTAAAAGT
1 TAAAGGATTTATTT-GGTACAAATTAAAAGT
* *
8886445 TAAAGGTTTTATTTGAATACAAATTAAAAGT
1 TAAAGGATTTATTTG-GTACAAATTAAAAGT
* * *
8886476 T-ATGGATTTATTTGGTGCAAATTAAAAAT
1 TAAAGGATTTATTTGGTACAAATTAAAAGT
8886505 TAAA
1 TAAA
8886509 TTGAATGCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
29 13 0.25
30 17 0.32
31 23 0.43
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (30 bp):
TAAAGGATTTATTTGGTACAAATTAAAAGT
Found at i:8890138 original size:20 final size:20
Alignment explanation
Indices: 8890102--8890139 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8890092 AAATCACTAA
*
8890102 AAGAATTATGAATCAAAACT
1 AAGAACTATGAATCAAAACT
8890122 AAGAACTAT-AATGCAAAA
1 AAGAACTATGAAT-CAAAA
8890140 ACATGTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.21
Consensus pattern (20 bp):
AAGAACTATGAATCAAAACT
Found at i:8898296 original size:8 final size:8
Alignment explanation
Indices: 8898280--8898422 Score: 69
Period size: 8 Copynumber: 17.8 Consensus size: 8
8898270 TAGAGTCTCA
8898280 TTTTAGGG
1 TTTTAGGG
*
8898288 TTTTTGGG
1 TTTTAGGG
* *
8898296 TTTCAAGG
1 TTTTAGGG
*
8898304 TTTTAGAG
1 TTTTAGGG
*
8898312 TTTTAAGGTT
1 TTTT-AGG-G
*
8898322 TTTTAGGT
1 TTTTAGGG
8898330 TTTTA-GG
1 TTTTAGGG
*
8898337 TTTTAGTG
1 TTTTAGGG
***
8898345 TTTTAAAA
1 TTTTAGGG
8898353 TTTTAGGG
1 TTTTAGGG
*
8898361 -TTTCGAGG
1 TTTTAG-GG
*
8898369 TTTTAGTG
1 TTTTAGGG
8898377 TGTTTA-GG
1 T-TTTAGGG
*
8898385 TTTTA-AG
1 TTTTAGGG
*
8898392 TTTTAGGT
1 TTTTAGGG
*
8898400 TTTTGGGG
1 TTTTAGGG
*
8898408 TTTTTAAGG
1 -TTTTAGGG
8898417 TTTTAG
1 TTTTAG
8898423 TATTTTGGAT
Statistics
Matches: 98, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
7 20 0.20
8 55 0.56
9 19 0.19
10 4 0.04
ACGTcount: A:0.17, C:0.01, G:0.27, T:0.55
Consensus pattern (8 bp):
TTTTAGGG
Found at i:8898331 original size:17 final size:18
Alignment explanation
Indices: 8898304--8898340 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8898294 GGTTTCAAGG
8898304 TTTTAGAGTTTTAAGGTT
1 TTTTAGAGTTTTAAGGTT
*
8898322 TTTTAG-GTTTTTAGGTT
1 TTTTAGAGTTTTAAGGTT
8898339 TT
1 TT
8898341 AGTGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (18 bp):
TTTTAGAGTTTTAAGGTT
Found at i:8898340 original size:16 final size:15
Alignment explanation
Indices: 8898301--8898442 Score: 83
Period size: 16 Copynumber: 8.9 Consensus size: 15
8898291 TTGGGTTTCA
*
8898301 AGGTTTTAGAGTTTTA
1 AGGTTTTAG-GTTTTT
8898317 AGGTTTTTTAGGTTTTT
1 AGG--TTTTAGGTTTTT
*
8898334 AGGTTTTAGTGTTTTA
1 AGGTTTTAG-GTTTTT
** **
8898350 AAATTTTAGGGTTTCG
1 AGGTTTTA-GGTTTTT
*
8898366 AGGTTTTAGTGTGTTT
1 AGGTTTTAG-GTTTTT
*
8898382 AGGTTTTAAG-TTTT
1 AGGTTTTAGGTTTTT
*
8898396 AGGTTTTTGGGGTTTTT
1 AGG-TTTT-AGGTTTTT
8898413 AAGGTTTTA-GTATTTT
1 -AGGTTTTAGGT-TTTT
8898429 -GGATTTTAGGTTTT
1 AGG-TTTTAGGTTTT
8898443 CAAGTTTTAT
Statistics
Matches: 98, Mismatches: 16, Indels: 25
0.71 0.12 0.18
Matches are distributed among these distances:
14 8 0.08
15 22 0.22
16 42 0.43
17 17 0.17
18 9 0.09
ACGTcount: A:0.18, C:0.01, G:0.26, T:0.56
Consensus pattern (15 bp):
AGGTTTTAGGTTTTT
Found at i:8898389 original size:32 final size:32
Alignment explanation
Indices: 8898280--8898389 Score: 107
Period size: 32 Copynumber: 3.4 Consensus size: 32
8898270 TAGAGTCTCA
* * *
8898280 TTTTAGGGTTTTTGGGTTTCAAGGTTTTAGAG
1 TTTTAAGGTTTTAGGGTTTCAAGGTTTTAGTG
**
8898312 TTTTAAGGTTTTTTA-GGTTTTTAGGTTTTAGTG
1 TTTTAAGG--TTTTAGGGTTTCAAGGTTTTAGTG
** *
8898345 TTTTAAAATTTTAGGGTTTCGAGGTTTTAGTG
1 TTTTAAGGTTTTAGGGTTTCAAGGTTTTAGTG
8898377 TGTTT-AGGTTTTA
1 T-TTTAAGGTTTTA
8898390 AGTTTTAGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 24 0.38
34 4 0.06
ACGTcount: A:0.17, C:0.02, G:0.26, T:0.55
Consensus pattern (32 bp):
TTTTAAGGTTTTAGGGTTTCAAGGTTTTAGTG
Found at i:8898418 original size:9 final size:8
Alignment explanation
Indices: 8898280--8898442 Score: 65
Period size: 8 Copynumber: 20.4 Consensus size: 8
8898270 TAGAGTCTCA
8898280 TTTTAGGGT
1 TTTTA-GGT
*
8898289 TTTTGGGT
1 TTTTAGGT
**
8898297 TTCAAGG-
1 TTTTAGGT
8898304 TTTTAGAGT
1 TTTTAG-GT
*
8898313 TTTAAGGTT
1 TTTTAGG-T
8898322 TTTTAGGT
1 TTTTAGGT
8898330 TTTTAGG-
1 TTTTAGGT
8898337 TTTTA-GT
1 TTTTAGGT
***
8898344 GTTTTAAAA
1 -TTTTAGGT
8898353 TTTTAGGGT
1 TTTTA-GGT
**
8898362 TTCGAGG-
1 TTTTAGGT
8898369 TTTTAGTGT
1 TTTTAG-GT
*
8898378 GTTTAGG-
1 TTTTAGGT
*
8898385 TTTTAAG-
1 TTTTAGGT
8898392 TTTTAGGT
1 TTTTAGGT
*
8898400 TTTTGGGGT
1 TTTT-AGGT
8898409 TTTTAAGG-
1 TTTT-AGGT
8898417 TTTTA-GT
1 TTTTAGGT
*
8898424 ATTTT-GGA
1 -TTTTAGGT
8898432 TTTTAGGT
1 TTTTAGGT
8898440 TTT
1 TTT
8898443 CAAGTTTTAT
Statistics
Matches: 113, Mismatches: 26, Indels: 31
0.66 0.15 0.18
Matches are distributed among these distances:
6 2 0.02
7 29 0.26
8 49 0.43
9 33 0.29
ACGTcount: A:0.17, C:0.01, G:0.26, T:0.56
Consensus pattern (8 bp):
TTTTAGGT
Found at i:8899211 original size:25 final size:25
Alignment explanation
Indices: 8899170--8899237 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
8899160 CAAAGCATAC
**
8899170 TTTTTTTTACTAGTCAAA-CCTATT
1 TTTTTTTTACTTTTCAAAGCCTATT
* *
8899194 TTTTCTTTTACTTTTCAAAGCTTTTTT
1 TTTT-TTTTACTTTTCAAAGC-CTATT
8899221 TTTTTTTTACTTTTCAA
1 TTTTTTTTACTTTTCAA
8899238 GTTTTTTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.11
25 12 0.32
26 14 0.38
27 7 0.19
ACGTcount: A:0.19, C:0.15, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTTTTTTACTTTTCAAAGCCTATT
Found at i:8899221 original size:26 final size:25
Alignment explanation
Indices: 8899170--8899270 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 25
8899160 CAAAGCATAC
** * *
8899170 TTTTTTTTACTAGTCAAACCTATTT
1 TTTTTTTTACTTTTCAAAGCTTTTT
*
8899195 TTTCTTTTACTTTTCAAAGCTTTTTT
1 TTTTTTTTACTTTTCAAAGC-TTTTT
8899221 TTTTTTTTACTTTTC-AAG---TTT
1 TTTTTTTTACTTTTCAAAGCTTTTT
* * *
8899242 TTTTTGTGACTTTTCAAAACTTTTT
1 TTTTTTTTACTTTTCAAAGCTTTTT
8899267 TTTT
1 TTTT
8899271 GACTTGTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
21 16 0.26
22 2 0.03
25 26 0.42
26 18 0.29
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTTTTTTACTTTTCAAAGCTTTTT
Found at i:8899223 original size:21 final size:22
Alignment explanation
Indices: 8899192--8899292 Score: 82
Period size: 22 Copynumber: 4.4 Consensus size: 22
8899182 GTCAAACCTA
*
8899192 TTTTTTCTTTTACTTTTCAAAGC
1 TTTTTT-TTTGACTTTTCAAAGC
*
8899215 TTTTTTTTTTTTTTACTTTTC-AAG-
1 ----TTTTTTTTTGACTTTTCAAAGC
*
8899239 TTTTTTTTGTGACTTTTCAAAAC
1 TTTTTTTT-TGACTTTTCAAAGC
*
8899262 TTTTTTTTTGACTTGTT-AAAGG
1 TTTTTTTTTGACTT-TTCAAAGC
8899284 TTTTTTTTT
1 TTTTTTTTT
8899293 TTTTTTTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
20 8 0.12
21 8 0.12
22 20 0.30
23 10 0.15
25 3 0.05
26 11 0.17
27 6 0.09
ACGTcount: A:0.16, C:0.10, G:0.08, T:0.66
Consensus pattern (22 bp):
TTTTTTTTTGACTTTTCAAAGC
Found at i:8899243 original size:25 final size:26
Alignment explanation
Indices: 8899192--8899270 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
8899182 GTCAAACCTA
8899192 TTTTTTCTTTTACTTTTCAAAGCTTT
1 TTTTTTCTTTTACTTTTCAAAGCTTT
*
8899218 TTTTTTTTTTTACTTTTC-AAG---T
1 TTTTTTCTTTTACTTTTCAAAGCTTT
* * *
8899240 TTTTTT-TGTGACTTTTCAAAACTTT
1 TTTTTTCTTTTACTTTTCAAAGCTTT
8899265 TTTTTT
1 TTTTTT
8899271 GACTTGTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
21 9 0.20
22 9 0.20
25 10 0.22
26 17 0.38
ACGTcount: A:0.15, C:0.11, G:0.05, T:0.68
Consensus pattern (26 bp):
TTTTTTCTTTTACTTTTCAAAGCTTT
Found at i:8901138 original size:21 final size:21
Alignment explanation
Indices: 8901097--8901136 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8901087 TTGTGAGCTT
* *
8901097 TTTATTATTATTTATCATTTA
1 TTTATTACTATATATCATTTA
8901118 TTTATTACTATATAT-ATTT
1 TTTATTACTATATATCATTT
8901137 TAAAGCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTACTATATATCATTTA
Found at i:8901597 original size:70 final size:69
Alignment explanation
Indices: 8901523--8901720 Score: 200
Period size: 70 Copynumber: 2.8 Consensus size: 69
8901513 ACTGAATTAC
** * * *
8901523 AAGTTAGGAAATAAGAACAATCGGGACTGAACTATAAGTTGAAGAACAAAGATGACTAAAATTGA
1 AAGTTAGGAAATAA-AATGATCGAGATTGAACTATAAGTTGAAGAATAAAGATGACTAAAATTGA
8901588 G-TCGT
65 GCT-GT
* * * * * ** *
8901593 AAGTTGGGAATTAAAAATGACCAAGATTGAACTACAAGTTGAAGGGTAAAGATAACTAAAATTGA
1 AAGTTAGGAAAT-AAAATGATCGAGATTGAACTATAAGTTGAAGAATAAAGATGACTAAAATTGA
8901658 GCTGT
65 GCTGT
* * **
8901663 ACGTTAGGAAATAAAGATGATCGAGATTGAACTATAAATCAAAGAATAAAGATGACTA
1 AAGTTAGGAAATAAA-ATGATCGAGATTGAACTATAAGTTGAAGAATAAAGATGACTA
8901721 GGACTAAACT
Statistics
Matches: 100, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
69 3 0.03
70 94 0.94
71 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (69 bp):
AAGTTAGGAAATAAAATGATCGAGATTGAACTATAAGTTGAAGAATAAAGATGACTAAAATTGAG
CTGT
Found at i:8901711 original size:35 final size:34
Alignment explanation
Indices: 8901671--8901764 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
8901661 GTACGTTAGG
8901671 AAATAAAGATGATCGAGATTGAACTATAAATCAAA
1 AAATAAAGATGA-CGAGATTGAACTATAAATCAAA
* * * * * *
8901706 GAATAAAGATGACTAGGACTAAACTATGAGTCAAA
1 AAATAAAGATGACGA-GATTGAACTATAAATCAAA
8901741 AAATAAAGATGACTGAGATTGAAC
1 AAATAAAGATGAC-GAGATTGAAC
8901765 CGTACGTTAG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
34 2 0.04
35 44 0.94
36 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (34 bp):
AAATAAAGATGACGAGATTGAACTATAAATCAAA
Found at i:8901815 original size:70 final size:70
Alignment explanation
Indices: 8901665--8901825 Score: 164
Period size: 70 Copynumber: 2.3 Consensus size: 70
8901655 TGAGCTGTAC
* * *
8901665 GTTAGGAAATAAAGATGA-TCGAGATTGAACTATAAATCAAAGAATAAAGATGACTAGGACTAAA
1 GTTAAGAAATAAAGATGACT-GAGATTGAACCATAAATCAAAGAATAAAGATGAATAGGACTAAA
*
8901729 CTATGA
65 CTACGA
* * * ** * * * *
8901735 GTCAAAAAATAAAGATGACTGAGATTGAACCGTACGTTAGAGAATAAAGATGAATGGGATTAAA-
1 GTTAAGAAATAAAGATGACTGAGATTGAACCATAAATCAAAGAATAAAGATGAATAGGACTAAAC
8901799 TCACGA
66 T-ACGA
*
8901805 GTTAAGAAATAAAAATGACTG
1 GTTAAGAAATAAAGATGACTG
8901826 GAACTGAACC
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
69 1 0.01
70 71 0.97
71 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (70 bp):
GTTAAGAAATAAAGATGACTGAGATTGAACCATAAATCAAAGAATAAAGATGAATAGGACTAAAC
TACGA
Found at i:8913580 original size:9 final size:8
Alignment explanation
Indices: 8913491--8913667 Score: 105
Period size: 8 Copynumber: 22.1 Consensus size: 8
8913481 TTAGGGTGTC
8913491 GTTTTAAGG
1 GTTTT-AGG
8913500 GTTTT-GG
1 GTTTTAGG
*
8913507 GTTTCAAGG
1 GTTT-TAGG
*
8913516 TTTTTAGG
1 GTTTTAGG
**
8913524 GTTTTAAA
1 GTTTTAGG
**
8913532 GTTTTAAT
1 GTTTTAGG
*
8913540 GTTTTAGT
1 GTTTTAGG
*
8913548 ATTTTAGG
1 GTTTTAGG
8913556 GTTTT-GAG
1 GTTTTAG-G
8913564 GTTTTAGG
1 GTTTTAGG
8913572 GTGTTTA-G
1 GT-TTTAGG
8913580 GTTTTAGG
1 GTTTTAGG
8913588 GTTTTTAGG
1 G-TTTTAGG
*
8913597 G-TTTACG
1 GTTTTAGG
* *
8913604 ATTTTAGT
1 GTTTTAGG
*
8913612 ATTTT-GG
1 GTTTTAGG
8913619 GTTTTAGG
1 GTTTTAGG
* *
8913627 ATTTTTGGG
1 -GTTTTAGG
**
8913636 GTTTTAAA
1 GTTTTAGG
*
8913644 GTTTTAAG
1 GTTTTAGG
8913652 GTTTTAGG
1 GTTTTAGG
8913660 G-TTTAGG
1 GTTTTAGG
8913667 G
1 G
8913668 GAAAAATGGG
Statistics
Matches: 133, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
7 28 0.21
8 76 0.57
9 29 0.22
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.51
Consensus pattern (8 bp):
GTTTTAGG
Found at i:8914392 original size:15 final size:15
Alignment explanation
Indices: 8914363--8914391 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8914353 AGTAGGGCTG
8914363 CTTTGTTTTTTTTTT
1 CTTTGTTTTTTTTTT
8914378 CTTT-TTTTTTTTTT
1 CTTTGTTTTTTTTTT
8914392 TGTGGTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
CTTTGTTTTTTTTTT
Found at i:8914470 original size:30 final size:27
Alignment explanation
Indices: 8914409--8914505 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 27
8914399 CAAAGCACAC
* **
8914409 TTTTTTTTGACTAGTCAAA-CCTTTAT
1 TTTTTTTTTACTTTTCAAAGCCTTTAT
* *
8914435 TTTTTTTTAACTTTTCAAAGCTTCTTTTTT
1 TTTTTTTTTACTTTTCAAAGC--C-TTTAT
8914465 TTTTTTTTTACTTTTCAAAGCCTTTAT
1 TTTTTTTTTACTTTTCAAAGCCTTTAT
8914492 TTTTTTTTTACTTT
1 TTTTTTTTTACTTT
8914506 GCCAAGGTAC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
26 16 0.26
27 19 0.31
28 1 0.02
29 1 0.02
30 24 0.39
ACGTcount: A:0.18, C:0.13, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTTTTTTACTTTTCAAAGCCTTTAT
Found at i:8914519 original size:30 final size:29
Alignment explanation
Indices: 8914427--8914519 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 29
8914417 GACTAGTCAA
* * *
8914427 ACCTTTATTTTTTTTTAACTTTTCAAAGCT
1 ACCTTTATTTTTTTTTTAC-TTTCCAAGGT
* * * * *
8914457 TCTTTTTTTTTTTTTTTACTTTTCAAAG-
1 ACCTTTATTTTTTTTTTACTTTCCAAGGT
8914485 -CCTTTATTTTTTTTTTACTTTGCCAAGGT
1 ACCTTTATTTTTTTTTTACTTT-CCAAGGT
8914514 ACCTTT
1 ACCTTT
8914520 CCTTCATTCT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
27 19 0.40
28 4 0.08
29 5 0.10
30 20 0.42
ACGTcount: A:0.17, C:0.16, G:0.05, T:0.61
Consensus pattern (29 bp):
ACCTTTATTTTTTTTTTACTTTCCAAGGT
Found at i:8914694 original size:22 final size:22
Alignment explanation
Indices: 8914530--8914694 Score: 122
Period size: 22 Copynumber: 7.5 Consensus size: 22
8914520 CCTTCATTCT
8914530 TTTTTTTTTCTTA-TGTTTCAAAG
1 TTTTTTTTT-TTACT-TTTCAAAG
*
8914553 CCTTTATTTTTTTACTTTTCAAAG
1 --TTTTTTTTTTTACTTTTCAAAG
* * **
8914577 TTTTTCTTTTGACTTTTCAATT
1 TTTTTTTTTTTACTTTTCAAAG
8914599 TTTTTTTTTTTACTTTTCAAAG
1 TTTTTTTTTTTACTTTTCAAAG
** *
8914621 CATTTTTTTTTATTTTTCAAA-
1 TTTTTTTTTTTACTTTTCAAAG
* * * *
8914642 --ATTCTTTTGAATTTTCAAAG
1 TTTTTTTTTTTACTTTTCAAAG
* ** *
8914662 CTTTTCATTTTACTTTTCAAGG
1 TTTTTTTTTTTACTTTTCAAAG
8914684 TTTTTTTTTTT
1 TTTTTTTTTTT
8914695 CGTCCTAAGT
Statistics
Matches: 111, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.14
22 76 0.68
24 11 0.10
25 9 0.08
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTTTTTTTACTTTTCAAAG
Found at i:8914793 original size:20 final size:19
Alignment explanation
Indices: 8914769--8914835 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 19
8914759 ACTTTTCAAA
*
8914769 CTTTTTTTCTTTCTTTCTT
1 CTTTTTTTTTTTCTTTCTT
8914788 CTTTTTCTTCTTTTTCTTCTCTCT
1 C-TTTT-TT-TTTTTCTT-TCT-T
8914812 CTTCTCTTTTTTTTCTTT-TT
1 CTT-T-TTTTTTTTCTTTCTT
8914832 CTTT
1 CTTT
8914836 ACTTTTCTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
19 2 0.05
20 8 0.20
21 3 0.08
22 8 0.20
23 13 0.32
24 5 0.12
25 1 0.03
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
CTTTTTTTTTTTCTTTCTT
Found at i:8914796 original size:9 final size:9
Alignment explanation
Indices: 8914772--8914834 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
8914762 TTTCAAACTT
8914772 TTTTTCTT-
1 TTTTTCTTC
*
8914780 TCTTTCTTC
1 TTTTTCTTC
8914789 TTTTTCTTC
1 TTTTTCTTC
8914798 TTTTTCTTC
1 TTTTTCTTC
8914807 TCTCTCTTC-TC
1 T-T-T-TTCTTC
*
8914818 TTTTTTTTC
1 TTTTTCTTC
8914827 TTTTTCTT
1 TTTTTCTT
8914835 TACTTTTCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 9 0.20
9 28 0.61
10 2 0.04
11 4 0.09
12 3 0.07
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:8914807 original size:29 final size:29
Alignment explanation
Indices: 8914769--8914834 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
8914759 ACTTTTCAAA
*
8914769 CTTTTT-TTCTTTCT-TTCTTCTTTTTCTT
1 CTTTTTCTTCTCTCTCTTC-TCTTTTTCTT
*
8914797 CTTTTTCTTCTCTCTCTTCTCTTTTTTTT
1 CTTTTTCTTCTCTCTCTTCTCTTTTTCTT
8914826 CTTTTTCTT
1 CTTTTTCTT
8914835 TACTTTTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 6 0.18
29 25 0.74
30 3 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (29 bp):
CTTTTTCTTCTCTCTCTTCTCTTTTTCTT
Found at i:8914841 original size:11 final size:9
Alignment explanation
Indices: 8914770--8914841 Score: 54
Period size: 9 Copynumber: 7.3 Consensus size: 9
8914760 CTTTTCAAAC
8914770 TTTTTTTCT
1 TTTTTTTCT
8914779 TTCTTTCTTCT
1 TT-TTT-TTCT
*
8914790 TTTTCTTCT
1 TTTTTTTCT
8914799 TTTTCTTCTCT
1 TTTT-TT-TCT
* * *
8914810 CTCTTCTCT
1 TTTTTTTCT
8914819 TTTTTTTCT
1 TTTTTTTCT
8914828 TTTTCTTTACT
1 TTTT-TTT-CT
8914839 TTT
1 TTT
8914842 CTCCTTCCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.47
10 10 0.20
11 16 0.33
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:8914988 original size:15 final size:14
Alignment explanation
Indices: 8914959--8914999 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
8914949 ATCAAACTTC
*
8914959 TCTTTCTTTTCTTT
1 TCTTTTTTTTCTTT
8914973 TCTTTTTTTCTCTTT
1 TCTTTTTTT-TCTTT
8914988 TCTTCTTTTTTC
1 TCTT-TTTTTTC
8915000 ACCTTTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 11 0.46
16 5 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:8915763 original size:286 final size:286
Alignment explanation
Indices: 8915446--8916005 Score: 852
Period size: 286 Copynumber: 2.0 Consensus size: 286
8915436 CACTGAGGAT
* * * *
8915446 GGGTAATGTATTCAGGTGGGATGGTTTTTTTAATTGTGTTAGTGGGTTAGGATTTTTTTATAGAT
1 GGGTAATGTATTCAGGTGGGATAGTTTTTTTAATTGTGATAGTAGGTTAGGATTGTTTTATAGAT
** * *
8915511 GCTAGTTGAAAATGTGAAGGTGAAGGGATGGTGAGTAATGAATAGTTTGCAAAAATTACAATGGT
66 GCTAGTAAAAAATGTGAAGGTAAAGGGATGCTGAGTAATGAATAGTTTGCAAAAATTACAATGGT
* * * *
8915576 TTTTTTTTTTTGTATGGTGTAAAAAGTTTCTAGGTTCTTACA-AAACCTTTCTCAAGATACTGAC
131 TCTCTTTTTTTGTATGGTGTAAAAAGTTTATAGGTTCTTACAGAAACCTTT-TCAAGAGACTGAC
* * * * * *
8915640 ATAGCAATTTAAATTTTTTTGGAGTCTTAAAATTGGGGCTGCTACATCTAGGATGATGAAGTATT
195 ATAGCAATTTAAATATTTTAGGAGTCTTAAAACTAGGGCTACTACATCTACGATGATGAAGTATT
8915705 TGATGAATTTGTGCTTAGAGTCAGTAA
260 TGATGAATTTGTGCTTAGAGTCAGTAA
* * * *
8915732 GGGTAGTGTTTTCAGGTGGGATAGTTTTTTTAATTGTGATGGTAGGTTAGGATTGTTTTGTAGAT
1 GGGTAATGTATTCAGGTGGGATAGTTTTTTTAATTGTGATAGTAGGTTAGGATTGTTTTATAGAT
* *
8915797 GCTAGTAAAAAATGTGAAGGTAAAGGGGTGCTGAGTAATGAATAGTTTGTAAAAATTACAATGGT
66 GCTAGTAAAAAATGTGAAGGTAAAGGGATGCTGAGTAATGAATAGTTTGCAAAAATTACAATGGT
* *
8915862 TCTCTTTTTTTGTATGGTGTAAAAAGTTTATGGGTTCTTACAGAACCCTTTTCAAGAGACTGACA
131 TCTCTTTTTTTGTATGGTGTAAAAAGTTTATAGGTTCTTACAGAAACCTTTTCAAGAGACTGACA
* *
8915927 TAGTAATTTAAATATTTTAGGAGTCTTGAAACTAGGGCTACTACATCTACGATGATGAAGTATTT
196 TAGCAATTTAAATATTTTAGGAGTCTTAAAACTAGGGCTACTACATCTACGATGATGAAGTATTT
8915992 GATGAATTTGTGCT
261 GATGAATTTGTGCT
8916006 ATGAGTTAAT
Statistics
Matches: 245, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
286 238 0.97
287 7 0.03
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.39
Consensus pattern (286 bp):
GGGTAATGTATTCAGGTGGGATAGTTTTTTTAATTGTGATAGTAGGTTAGGATTGTTTTATAGAT
GCTAGTAAAAAATGTGAAGGTAAAGGGATGCTGAGTAATGAATAGTTTGCAAAAATTACAATGGT
TCTCTTTTTTTGTATGGTGTAAAAAGTTTATAGGTTCTTACAGAAACCTTTTCAAGAGACTGACA
TAGCAATTTAAATATTTTAGGAGTCTTAAAACTAGGGCTACTACATCTACGATGATGAAGTATTT
GATGAATTTGTGCTTAGAGTCAGTAA
Found at i:8919520 original size:27 final size:26
Alignment explanation
Indices: 8919455--8919537 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
8919445 AATACTTTGG
*
8919455 AAAATGAAAAAGAAAACAAAAATTACAA
1 AAAATG-AAAAGAAGACAAAAATT-CAA
*
8919483 AACAAT-TAAAGAAGACAAAAATTCATA
1 AA-AATGAAAAGAAGACAAAAATTCA-A
* *
8919510 AAAATGAAAAGAAGAGATAAATTCAA
1 AAAATGAAAAGAAGACAAAAATTCAA
8919536 AA
1 AA
8919538 TTAGAATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
26 8 0.17
27 34 0.72
28 2 0.04
29 3 0.06
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAATGAAAAGAAGACAAAAATTCAA
Found at i:8920595 original size:26 final size:26
Alignment explanation
Indices: 8920566--8920615 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
8920556 ATTAATAGAT
* *
8920566 GAATAAATCAATTAAAATTAATTTTG
1 GAATAAATCAAATAAAATGAATTTTG
*
8920592 GAATATATCAAATAAAATGAATTT
1 GAATAAATCAAATAAAATGAATTT
8920616 CATTACCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (26 bp):
GAATAAATCAAATAAAATGAATTTTG
Found at i:8921111 original size:15 final size:16
Alignment explanation
Indices: 8921091--8921120 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8921081 ATAATTTGTT
8921091 TTTTGAAAA-AAATTA
1 TTTTGAAAAGAAATTA
8921106 TTTTGAAAAGAAATT
1 TTTTGAAAAGAAATT
8921121 TTAAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (16 bp):
TTTTGAAAAGAAATTA
Found at i:8929119 original size:2 final size:2
Alignment explanation
Indices: 8929114--8929153 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
8929104 TCTCTCTCTT
*
8929114 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TCA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
8929154 GTTAATTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8929701 original size:17 final size:18
Alignment explanation
Indices: 8929665--8929707 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
8929655 TATCTTTTAT
*
8929665 ATAATATAAATTATATAA
1 ATAATATAAATTATAAAA
8929683 AT-ATATAAA-TATACAAA
1 ATAATATAAATTATA-AAA
8929700 ATAATATA
1 ATAATATA
8929708 TATTTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATATAAATTATAAAA
Found at i:8930723 original size:1 final size:1
Alignment explanation
Indices: 8930717--8930747 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
8930707 ATCCTATGTT
8930717 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8930748 TCCTATGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8933601 original size:19 final size:17
Alignment explanation
Indices: 8933577--8933619 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
8933567 ATATGAACTA
*
8933577 AAAAAAAAGTAGCAAAGAG
1 AAAAAAAA-TAG-AAAAAG
8933596 AAAAAAAATAGAAAAAG
1 AAAAAAAATAGAAAAAG
8933613 AAAAAAA
1 AAAAAAA
8933620 TAATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAAAAATAGAAAAAG
Found at i:8933624 original size:3 final size:3
Alignment explanation
Indices: 8933618--8933687 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
8933608 AAAAGAAAAA
* * **
8933618 AAT AAT AAT AAA AAT AA- AAT AA- AAT AAT AGT AAT AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
8933664 AAT AAT AAC AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
8933688 TTATATAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 4 0.08
3 49 0.92
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:8933624 original size:19 final size:19
Alignment explanation
Indices: 8933590--8933647 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
8933580 AAAAAGTAGC
8933590 AAAGAGAAAAAA-AATAGAA
1 AAAGA-AAAAAATAATAGAA
*
8933609 AAAGAAAAAAATAATAATAA
1 AAAGAAAAAAATAAT-AGAA
*
8933629 AAATAAAATAAAATAATAG
1 AAA-GAAA-AAAATAATAG
8933648 TAATAATGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 6 0.19
21 4 0.12
22 8 0.25
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAGAAAAAAATAATAGAA
Found at i:8934456 original size:117 final size:116
Alignment explanation
Indices: 8934280--8934867 Score: 542
Period size: 117 Copynumber: 5.0 Consensus size: 116
8934270 ATCGTGAGTC
* * * * * *
8934280 TGAAGATGATCTGACCTAAGTCAAGATCAAATGATTGTGATGATGTCACAAGTCAAAATGAAGCG
1 TGAAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATGTCGCAAGTCAAAATGAAGCG
* * *
8934345 ATCAGGACTGAGTCGAGCTTAAAAATAAATGATCGAAC-GAATGTCATGGGTT
66 A-CAGGACTGAGTCGAGGTCAAAAATAAATGATCGAACTG-ATGTCACGGGTT
* * * * *
8934397 TGAAGATGATCTAACATGAGTTGAGATCAAATGACTGGGATGATGTCGTAAGTCAAAATGAAACA
1 TGAAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATGTCGCAAGTCAAAATGAAGCG
* * * * * ** *
8934462 ATCAAGACCGAGTCGAGGTCAAACATAAATCA-CTGGACTGATGTCACAAGTC
66 A-CAGGACTGAGTCGAGGTCAAAAATAAATGATC-GAACTGATGTCACGGGTT
* * *
8934514 TGAAAATGATCTGACATGAGTCGAGATCAAATGA-TCGGGACGATGTTGCAAGTCAAAATGAA-C
1 TGAAGATGATCTGACATGAGTCGAGATCAAATGACT-GGGATGATGTCGCAAGTCAAAATGAAGC
* * * ** * * *
8934577 TGACTAGGACTAAGTCGAGGTCAAAAATAAATGATAGGACTGATGTTGCAGATC
65 -GAC-AGGACTGAGTCGAGGTCAAAAATAAATGATCGAACTGATGTCACGGGTT
* ** * *
8934631 TGGAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATGTCATAAGTTAAAATGAAGTG
1 TGAAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATGTCGCAAGTCAAAATGAAGCG
* * * * *
8934696 ACGAGGA-TCGAGTCAAGATTAAAAATAAATGACCGAACTGATGTCACGAGTT
66 AC-AGGACT-GAGTCGAGGTCAAAAATAAATGATCGAACTGATGTCACGGGTT
* * ** * **
8934748 TGAAGATGATCTAATATGAGTTAAGATCAAATGATTGGGATGATGTCGCAAGTCAAAATGAAGTA
1 TGAAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATGTCGCAAGTCAAAATGAAGCG
* *
8934813 ACCAAGACCAT-A-TCGAGGTCGAAAAATAAATGATCGAACTAATGTCACGGGTT
66 A-CAGGA-C-TGAGTCGAGGTC-AAAAATAAATGATCGAACTGATGTCACGGGTT
8934866 TG
1 TG
8934868 GATAGTGCAA
Statistics
Matches: 379, Mismatches: 78, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
116 5 0.01
117 338 0.89
118 35 0.09
120 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (116 bp):
TGAAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATGTCGCAAGTCAAAATGAAGCG
ACAGGACTGAGTCGAGGTCAAAAATAAATGATCGAACTGATGTCACGGGTT
Found at i:8934595 original size:234 final size:234
Alignment explanation
Indices: 8934250--8934867 Score: 683
Period size: 234 Copynumber: 2.6 Consensus size: 234
8934240 TTAAGGTCGT
* ** * *
8934250 AAATAAATGACTGGACTGATATCGTGAGTCTGAAGATGATCTGACCTAAGTCAAGATCAAATGAT
1 AAATAAATGACTGGACTGATGTCACGAGTCTGAAGATGATCTGACATGAGTCAAGATCAAATGAT
* * * * *
8934315 TGTGATGATGTCACAAGTCAAAATGAAGC-GA-TCAGGACTGAGTCGAGCTTAAAAATAAATGAT
66 TGGGATGATGTCGCAAGTCAAAATGAA-CTGACT-AGGACTAAGTCGAGGTCAAAAATAAATGAT
*
8934378 CGAACGAATGTCATGGGTTTGAAGATGATCTAACATGAGTTGAGATCAAATGACTGGGATGATGT
129 CGAACGAATGTCATGGGTTTGAAGATGATCTAACATGAGTCGAGATCAAATGACTGGGATGATGT
* * *
8934443 CGTAAGTCAAAATGAAACAATC-AAGACCGAGTCGAGGTCAA
194 CATAAGTCAAAATGAAACAA-CGAAGACCGAGTCAAGATCAA
* * * * *
8934484 ACATAAATCACTGGACTGATGTCACAAGTCTGAAAATGATCTGACATGAGTCGAGATCAAATGAT
1 AAATAAATGACTGGACTGATGTCACGAGTCTGAAGATGATCTGACATGAGTCAAGATCAAATGAT
* * * *
8934549 CGGGACGATGTTGCAAGTCAAAATGAACTGACTAGGACTAAGTCGAGGTCAAAAATAAATGATAG
66 TGGGATGATGTCGCAAGTCAAAATGAACTGACTAGGACTAAGTCGAGGTCAAAAATAAATGATCG
* * * * *
8934614 GACTG-ATGT--TGCAGATCTGGAGATGATCTGACATGAGTCGAGATCAAATGACTGGGATGATG
131 AAC-GAATGTCATG--GGTTTGAAGATGATCTAACATGAGTCGAGATCAAATGACTGGGATGATG
* *** * * *
8934676 TCATAAGTTAAAATGAAGTGACGAGGATCGAGTCAAGATTAA
193 TCATAAGTCAAAATGAAACAACGAAGACCGAGTCAAGATCAA
* * * * * *
8934718 AAATAAATGACCGAACTGATGTCACGAGTTTGAAGATGATCTAATATGAGTTAAGATCAAATGAT
1 AAATAAATGACTGGACTGATGTCACGAGTCTGAAGATGATCTGACATGAGTCAAGATCAAATGAT
* * * * *
8934783 TGGGATGATGTCGCAAGTCAAAATGAAGTAACCAAGACCATA-TCGAGGTCGAAAAATAAATGAT
66 TGGGATGATGTCGCAAGTCAAAATGAACTGACTAGGACTA-AGTCGAGGTC-AAAAATAAATGAT
* *
8934847 CGAACTAATGTCACGGGTTTG
129 CGAACGAATGTCATGGGTTTG
8934868 GATAGTGCAA
Statistics
Matches: 313, Mismatches: 60, Indels: 21
0.79 0.15 0.05
Matches are distributed among these distances:
232 2 0.01
233 2 0.01
234 281 0.90
235 27 0.09
237 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (234 bp):
AAATAAATGACTGGACTGATGTCACGAGTCTGAAGATGATCTGACATGAGTCAAGATCAAATGAT
TGGGATGATGTCGCAAGTCAAAATGAACTGACTAGGACTAAGTCGAGGTCAAAAATAAATGATCG
AACGAATGTCATGGGTTTGAAGATGATCTAACATGAGTCGAGATCAAATGACTGGGATGATGTCA
TAAGTCAAAATGAAACAACGAAGACCGAGTCAAGATCAA
Found at i:8935092 original size:41 final size:41
Alignment explanation
Indices: 8934998--8935155 Score: 135
Period size: 41 Copynumber: 3.9 Consensus size: 41
8934988 TTCACTATAC
* * *
8934998 ATTTTAGCAAAAAAA-TCATCTTTCATTAACTTGGA--TACA
1 ATTTTAGCAAAAAAACT-ATTTTTCATCAACTTGGAGGAACA
* * **
8935037 TATATTTGGTAAAAAAACTATTTTTCATCAACTTGGAGGTGC-
1 -AT-TTTAGCAAAAAAACTATTTTTCATCAACTTGGAGGAACA
* * * *
8935079 ATCTTTAGCAAAAAAACCATCTTTCATCAACCTGAAGGAACA
1 AT-TTTAGCAAAAAAACTATTTTTCATCAACTTGGAGGAACA
* *
8935121 ATTTTGGCAAAAAAACTATTTTTCATCCACTTGGA
1 ATTTTAGCAAAAAAACTATTTTTCATCAACTTGGA
8935156 AGCATATCCT
Statistics
Matches: 93, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
40 2 0.02
41 86 0.92
42 3 0.03
43 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (41 bp):
ATTTTAGCAAAAAAACTATTTTTCATCAACTTGGAGGAACA
Found at i:8935137 original size:82 final size:82
Alignment explanation
Indices: 8935000--8935155 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 82
8934990 CACTATACAT
* * * *
8935000 TTTAGCAAAAAAATCATCTTTCATTAACTTGGATACATATATTTGGTAAAAAAACTATTTTTCAT
1 TTTAGCAAAAAAACCATCTTTCATCAACTAGGATACATATATTTGGCAAAAAAACTATTTTTCAT
8935065 CAACTTGGAGGTGCATC
66 CAACTTGGAGGTGCATC
8935082 TTTAGCAAAAAAACCATCTTTCATCAACCTGAAGGA-ACA-AT-TTTGGCAAAAAAACTATTTTT
1 TTTAGCAAAAAAACCATCTTTCATCAA-CT--AGGATACATATATTTGGCAAAAAAACTATTTTT
*
8935144 CATCCACTTGGA
63 CATCAACTTGGA
8935156 AGCATATCCT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
82 56 0.85
83 4 0.06
84 3 0.05
85 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (82 bp):
TTTAGCAAAAAAACCATCTTTCATCAACTAGGATACATATATTTGGCAAAAAAACTATTTTTCAT
CAACTTGGAGGTGCATC
Found at i:8946144 original size:14 final size:14
Alignment explanation
Indices: 8946125--8946165 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
8946115 CTTTTTTGTT
*
8946125 TTTTTTTTACTTTA
1 TTTTTTATACTTTA
8946139 TTTTTTATACTTTA
1 TTTTTTATACTTTA
8946153 TTTTTTATACTTT
1 TTTTTTATACTTT
8946166 TTCCTTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTATACTTTA
Found at i:8946260 original size:6 final size:6
Alignment explanation
Indices: 8946249--8946316 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
8946239 ATAAAATAGG
* * * *
8946249 TTAAAA TTAAAA -TAAAA -TCAAA TCAAAA TCAAAA TTAAAA ATAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
* *
8946295 -TAAAA -TAAAA ATAAAA TGAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA
8946317 AAGAAAAACC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 19 0.36
6 34 0.64
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (6 bp):
TTAAAA
Found at i:8946264 original size:5 final size:5
Alignment explanation
Indices: 8946208--8946316 Score: 64
Period size: 5 Copynumber: 20.8 Consensus size: 5
8946198 TTTTTTAGAG
* ***
8946208 AAAAT -AAAT -AAAT -AAAT AAAACC AAAA- AATAAT AAAAT AGGTT AAAATT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AA-AAT AAAAT AAAAT AAAA-T
*
8946257 AAAAT AAAAT CAAAT CAAAAT CAAAATT AAAAAT AAAAT AAAAT AAAAAT
1 AAAAT AAAAT AAAAT -AAAAT -AAAA-T -AAAAT AAAAT AAAAT -AAAAT
8946307 AAAAT GAAAA
1 AAAAT -AAAA
8946317 AAGAAAAACC
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
4 14 0.16
5 36 0.42
6 30 0.35
7 5 0.06
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:8946266 original size:11 final size:11
Alignment explanation
Indices: 8946250--8946316 Score: 64
Period size: 11 Copynumber: 6.0 Consensus size: 11
8946240 TAAAATAGGT
8946250 TAAAATTAAAA
1 TAAAATTAAAA
*
8946261 TAAAA-TCAAA
1 TAAAATTAAAA
*
8946271 TCAAAATCAAAA
1 T-AAAATTAAAA
*
8946283 TTAAAAATAAAA
1 -TAAAATTAAAA
*
8946295 TAAAATAAAAA
1 TAAAATTAAAA
*
8946306 TAAAATGAAAA
1 TAAAATTAAAA
8946317 AAGAAAAACC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 5 0.11
11 28 0.62
12 11 0.24
13 1 0.02
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.21
Consensus pattern (11 bp):
TAAAATTAAAA
Found at i:8946318 original size:29 final size:29
Alignment explanation
Indices: 8946257--8946323 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
8946247 GGTTAAAATT
* * *
8946257 AAAATAAAATCAAATCAAAATCAAAATTA
1 AAAATAAAATAAAATAAAAATCAAAATAA
8946286 AAAATAAAATAAAATAAAAAT-AAAATGAA
1 AAAATAAAATAAAATAAAAATCAAAAT-AA
*
8946315 AAAAGAAAA
1 AAAATAAAA
8946324 ACCTACAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (29 bp):
AAAATAAAATAAAATAAAAATCAAAATAA
Done.