Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 61 of 190
Found at i:10110633 original size:29 final size:28
Alignment explanation
Indices: 10110575--10110636 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
10110565 GGGTGATTGC
* *
10110575 TATAATTTTTCATCATCAAGTTTATTGT
1 TATAATTTTTCATCATCAAGTTCATAGT
10110603 TATAATTTTTTCATCATCAAGTTGCA-AGT
1 TATAA-TTTTTCATCATCAAGTT-CATAGT
10110632 TATAA
1 TATAA
10110637 GATGAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 24 0.80
30 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (28 bp):
TATAATTTTTCATCATCAAGTTCATAGT
Found at i:10111399 original size:22 final size:22
Alignment explanation
Indices: 10111373--10111416 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10111363 TGTATATTTA
10111373 TATTTGTAT-CTCTAGAATTAAG
1 TATTTGTATCCT-TAGAATTAAG
10111395 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
10111417 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:10111590 original size:23 final size:25
Alignment explanation
Indices: 10111564--10111623 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
10111554 AAAATTTTCA
* *
10111564 GCCTTCATTGCTG-A-CTTTTTTAG
1 GCCTTCATTGCTGAATCCTGTTTAG
10111587 GCCTTCATTGCTGAATCCTGTTTAG
1 GCCTTCATTGCTGAATCCTGTTTAG
10111612 GCCTTCATTGCT
1 GCCTTCATTGCT
10111624 AAACCCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 13 0.39
24 1 0.03
25 19 0.58
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43
Consensus pattern (25 bp):
GCCTTCATTGCTGAATCCTGTTTAG
Found at i:10115295 original size:22 final size:22
Alignment explanation
Indices: 10115269--10115312 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10115259 TGTATATTTA
*
10115269 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10115291 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10115313 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:10122309 original size:39 final size:39
Alignment explanation
Indices: 10122261--10122342 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
10122251 AAACAATATG
* * *
10122261 GTAACATTTAGTTCATTGCATTATGCTTTTCATGTGTAT
1 GTAAAATTTAATTCACTGCATTATGCTTTTCATGTGTAT
* * *
10122300 GTAAAATTTAATTCACTGCTTTATGCTTTTGATTTGTAT
1 GTAAAATTTAATTCACTGCATTATGCTTTTCATGTGTAT
10122339 GTAA
1 GTAA
10122343 GGGTAAAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (39 bp):
GTAAAATTTAATTCACTGCATTATGCTTTTCATGTGTAT
Found at i:10123279 original size:21 final size:21
Alignment explanation
Indices: 10123254--10123299 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10123244 TATAATACTA
*
10123254 AAAAATATTCT-TAACATCCAT
1 AAAAATA-TCTATAACATCCAC
10123275 AAAAATATCTATAACATCCAC
1 AAAAATATCTATAACATCCAC
10123296 AAAA
1 AAAA
10123300 GTCCTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATATCTATAACATCCAC
Found at i:10124323 original size:259 final size:259
Alignment explanation
Indices: 10123836--10124425 Score: 723
Period size: 259 Copynumber: 2.3 Consensus size: 259
10123826 CACTACCTAC
* * * * * * *
10123836 TTCATCGACAATCATAATACACAACCAGAATCATAAAGCAAAATGTGCTATAATTTTCACCTTCA
1 TTCATCAATAATCATAATACACAACCAGAATCATAAAGCAAAATATGCAATAGTTTTTACCTTTA
** * *
10123901 CAAAGTCATTACATCTCAATAAGCACAAAATGCTATATAGTTCAATAACATTCATCCTGTAATGC
66 CAAAGTCATTACATCTCAATAAGCACAAAACACTATATAGCTCAATAACATTCATCCTATAATGC
* * * *
10123966 TTAGTCTTTCAATTACTACACTATGTACTTAATCAACAATCATAATACATAACTACAAGCCCAAA
131 TTAGTCTTTCAATTACTACACTATCTACTTAATCAACAATCACAATACACAACTACAAGCACAAA
* *
10124031 GCAAAATAAGCACTATATTCACATTTTACAAATGTGATCTCATTACAATATACTATAAAAATAA
196 GCAAAATAAGCAATATATTCACATTTTACAAATGTGATCTCATCACAATATACTATAAAAATAA
* * *
10124095 TTCATCAATAATCACAATACATAACCATAATCATAAAGCAAAATATGCAATAGTTTTTACCTTTA
1 TTCATCAATAATCATAATACACAACCAGAATCATAAAGCAAAATATGCAATAGTTTTTACCTTTA
* * * * * ** * *
10124160 CAAAGTCATTGCTTTTCAATCAGCACAAAACACTATATAGCTCAATACCATTTGTCTTATAATGT
66 CAAAGTCATTACATCTCAATAAGCACAAAACACTATATAGCTCAATAACATTCATCCTATAATGC
* * * * *
10124225 TTAGTCTTTCAATTACTACACTATCTACTTCATCAACAATCACAATACACAACTAGAATCACTAG
131 TTAGTCTTTCAATTACTACACTATCTACTTAATCAACAATCACAATACACAACTACAAGCACAAA
* * * ** * *
10124290 GCAAAATAAGCAATATTTTCAC-TTTTCACAAATGTGATTTTATCACGCTATACTATAAAAGTAG
196 GCAAAATAAGCAATATATTCACATTTT-ACAAATGTGATCTCATCACAATATACTATAAAAATAA
* * * * ** *
10124354 TTCATCAATAATCGTAGTATACAACCAGAATCATAAAGTAAGTTATGCAATAGTTTTTACTTTTC
1 TTCATCAATAATCATAATACACAACCAGAATCATAAAGCAAAATATGCAATAGTTTTTACCTTT-
10124419 ACAAAGT
65 ACAAAGT
10124426 TTTTGAATCT
Statistics
Matches: 278, Mismatches: 51, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
258 4 0.01
259 267 0.96
260 7 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (259 bp):
TTCATCAATAATCATAATACACAACCAGAATCATAAAGCAAAATATGCAATAGTTTTTACCTTTA
CAAAGTCATTACATCTCAATAAGCACAAAACACTATATAGCTCAATAACATTCATCCTATAATGC
TTAGTCTTTCAATTACTACACTATCTACTTAATCAACAATCACAATACACAACTACAAGCACAAA
GCAAAATAAGCAATATATTCACATTTTACAAATGTGATCTCATCACAATATACTATAAAAATAA
Found at i:10125998 original size:30 final size:28
Alignment explanation
Indices: 10125959--10126019 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 28
10125949 ATACTTAATA
10125959 CATCAATCACCCTGTGTTTCATCATCATCAT
1 CATCAATCA-CCT-T-TTTCATCATCATCAT
* *
10125990 CATC-ATCACCTTTTTCTTCATCATTAT
1 CATCAATCACCTTTTTCATCATCATCAT
10126017 CAT
1 CAT
10126020 TATTTTCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.57
28 1 0.04
29 3 0.11
30 4 0.14
31 4 0.14
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (28 bp):
CATCAATCACCTTTTTCATCATCATCAT
Found at i:10129185 original size:42 final size:42
Alignment explanation
Indices: 10129138--10129221 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
10129128 AGTAAACTTA
* *
10129138 TTGATGAATGATATATTTGCTCAATTCAAGTTCGTTTTCCTT
1 TTGATGAATGATATATTAGCTCAATTCAAGTTCATTTTCCTT
*
10129180 TTGATGAATGATATATTAGCTCAGTTCAAGTTCATTTTCCTT
1 TTGATGAATGATATATTAGCTCAATTCAAGTTCATTTTCCTT
10129222 ATAAATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (42 bp):
TTGATGAATGATATATTAGCTCAATTCAAGTTCATTTTCCTT
Found at i:10133311 original size:21 final size:22
Alignment explanation
Indices: 10133285--10133333 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
10133275 TTTTATTTTC
*
10133285 TATTTTGATTTTGA-TTTTAT-T
1 TATTTTG-TGTTGATTTTTATGT
10133306 TATTTTGTGTTGATTTTTATGT
1 TATTTTGTGTTGATTTTTATGT
10133328 TATTTT
1 TATTTT
10133334 TTTATGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
22 7 0.28
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.71
Consensus pattern (22 bp):
TATTTTGTGTTGATTTTTATGT
Found at i:10133369 original size:15 final size:17
Alignment explanation
Indices: 10133350--10133388 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
10133340 CTTTTTTATG
10133350 ATATTATTT-TTATTTT
1 ATATTATTTGTTATTTT
10133366 -TATT-TTTGTTATTTT
1 ATATTATTTGTTATTTT
10133381 ATATTATT
1 ATATTATT
10133389 ACTAGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 4 0.20
17 2 0.10
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATATTATTTGTTATTTT
Found at i:10133617 original size:9 final size:9
Alignment explanation
Indices: 10133586--10133645 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
10133576 TAATTTTTGC
10133586 TAAAAATAA
1 TAAAAATAA
*
10133595 TAATAATAA
1 TAAAAATAA
10133604 TAAAATTATAA
1 TAAAA--ATAA
*
10133615 AAAAAATAGA
1 TAAAAATA-A
*
10133625 TAAAATTAA
1 TAAAAATAA
*
10133634 -AAAAATGA
1 TAAAAATAA
10133642 TAAA
1 TAAA
10133646 TTGTTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
8 6 0.15
9 19 0.47
10 7 0.17
11 8 0.20
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (9 bp):
TAAAAATAA
Found at i:10133622 original size:20 final size:20
Alignment explanation
Indices: 10133599--10133638 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10133589 AAATAATAAT
10133599 AATA-ATAAAATTATAAAAAA
1 AATAGATAAAATTA-AAAAAA
10133619 AATAGATAAAATTAAAAAAA
1 AATAGATAAAATTAAAAAAA
10133639 TGATAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
AATAGATAAAATTAAAAAAA
Found at i:10133645 original size:30 final size:29
Alignment explanation
Indices: 10133587--10133645 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
10133577 AATTTTTGCT
* *
10133587 AAAAATAATAATAATAATAAAATTATAAA
1 AAAAATAATAATAATAAAAAAATGATAAA
10133616 AAAAATAGATAA-AATTAAAAAAATGATAAA
1 AAAAATA-ATAATAA-TAAAAAAATGATAAA
10133646 TTGTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (29 bp):
AAAAATAATAATAATAAAAAAATGATAAA
Found at i:10134912 original size:23 final size:24
Alignment explanation
Indices: 10134882--10134933 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
10134872 AGTTTTATTA
10134882 TGTTATTTTA-TTTGTATT-AT-AT
1 TGTTATTTTACTTTG-ATTAATAAT
10134904 TGTTGATTTTACTTTGATTAATAAT
1 TGTT-ATTTTACTTTGATTAATAAT
10134929 TGTTA
1 TGTTA
10134934 CATTCCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.15
23 9 0.35
24 7 0.27
25 6 0.23
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.62
Consensus pattern (24 bp):
TGTTATTTTACTTTGATTAATAAT
Found at i:10139956 original size:27 final size:27
Alignment explanation
Indices: 10139903--10139957 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10139893 AATTTTTGCT
* **
10139903 AAAAAATTAATAATAATAAAATTATAA
1 AAAAAATTAATAAAAATAAAAAAATAA
10139930 AAAAAGATTAA-AAAAATAAAAAAATAA
1 AAAAA-ATTAATAAAAATAAAAAAATAA
10139957 A
1 A
10139958 TTATTTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (27 bp):
AAAAAATTAATAAAAATAAAAAAATAA
Found at i:10140182 original size:16 final size:16
Alignment explanation
Indices: 10140161--10140195 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10140151 ATAATAATTG
* *
10140161 ATATTTTTTAATAAAT
1 ATATTTTTAAAAAAAT
10140177 ATATTTTTAAAAAAAT
1 ATATTTTTAAAAAAAT
10140193 ATA
1 ATA
10140196 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTTTAAAAAAAT
Found at i:10140321 original size:13 final size:13
Alignment explanation
Indices: 10140291--10140330 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
10140281 CTTTTTTAAA
10140291 AATAATATAATAAAC
1 AATAA-ATAAT-AAC
10140306 AATAAATAATAAC
1 AATAAATAATAAC
*
10140319 AATAAAAAATAA
1 AATAAATAATAA
10140331 AAAAATTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 14 0.58
14 5 0.21
15 5 0.21
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAATAATAAC
Found at i:10141217 original size:22 final size:22
Alignment explanation
Indices: 10141169--10141221 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10141159 GGTAGGCACG
10141169 GGCTCAAGGGCTAATGATCACA
1 GGCTCAAGGGCTAATGATCACA
* * *
10141191 AGCTCAAGGGCTCAATG-TTATA
1 GGCTCAAGGGCT-AATGATCACA
10141213 GGCTCAAGG
1 GGCTCAAGG
10141222 ATTGACAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (22 bp):
GGCTCAAGGGCTAATGATCACA
Found at i:10143480 original size:22 final size:22
Alignment explanation
Indices: 10143449--10143492 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10143439 AATAGATTGC
*
10143449 AAGAATTAAATTTAAA-TTAAA
1 AAGAATTAAACTTAAACTTAAA
10143470 AAGAACTTAAACTTAAACTTAAA
1 AAGAA-TTAAACTTAAACTTAAA
10143493 TTAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AAGAATTAAACTTAAACTTAAA
Found at i:10143485 original size:28 final size:28
Alignment explanation
Indices: 10143454--10143507 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
10143444 ATTGCAAGAA
*
10143454 TTAAATTTAAATT-AAAAAGAACTTAAAC
1 TTAAACTTAAATTAAAAAAGAA-TTAAAC
10143482 TTAAACTTAAATTAAAAAAGAATTAA
1 TTAAACTTAAATTAAAAAAGAATTAA
10143508 GGAAACTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (28 bp):
TTAAACTTAAATTAAAAAAGAATTAAAC
Found at i:10143744 original size:17 final size:18
Alignment explanation
Indices: 10143711--10143761 Score: 77
Period size: 17 Copynumber: 2.8 Consensus size: 18
10143701 ATATTCTTTC
10143711 AATTTTTAAGTTTTTTTTA
1 AATTTTTAAG-TTTTTTTA
10143730 AATTTTTAA-TTTTTTTA
1 AATTTTTAAGTTTTTTTA
*
10143747 AATTTCTAAGTTTTT
1 AATTTTTAAGTTTTT
10143762 AATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.53
18 5 0.17
19 9 0.30
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
AATTTTTAAGTTTTTTTA
Found at i:10143787 original size:17 final size:17
Alignment explanation
Indices: 10143712--10143790 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
10143702 TATTCTTTCA
10143712 ATTTTTAAGTTTTTTTT
1 ATTTTTAAGTTTTTTTT
*
10143729 AAATTTTTAA-TTTTTTTAA
1 --ATTTTTAAGTTTTTTT-T
*
10143748 ATTTCTAAGTTTTTAATTT
1 ATTTTTAAGTTTTT--TTT
10143767 -TTTTT-AGATTTTTTTT
1 ATTTTTAAG-TTTTTTTT
10143783 ATTTTTAA
1 ATTTTTAA
10143791 AGAATGTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
16 3 0.06
17 14 0.29
18 22 0.45
19 8 0.16
20 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.70
Consensus pattern (17 bp):
ATTTTTAAGTTTTTTTT
Found at i:10143922 original size:16 final size:17
Alignment explanation
Indices: 10143893--10143928 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10143883 TTCTTTTAAC
10143893 TTTAAGAAAATTTAATT
1 TTTAAGAAAATTTAATT
*
10143910 TTTAA-AAATTTTAATT
1 TTTAAGAAAATTTAATT
10143926 TTT
1 TTT
10143929 TTGAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAGAAAATTTAATT
Found at i:10144035 original size:9 final size:9
Alignment explanation
Indices: 10144018--10144312 Score: 69
Period size: 9 Copynumber: 30.8 Consensus size: 9
10144008 ATTTTTTAAA
*
10144018 AAAAATTTT
1 AAAATTTTT
10144027 AAAATTTTT
1 AAAATTTTT
*
10144036 AAAAACTTTTC
1 -AAAA-TTTTT
* *
10144047 GAATTTTTT
1 AAAATTTTT
*
10144056 ACAATTTTT
1 AAAATTTTT
***
10144065 TGTATTTTT
1 AAAATTTTT
*
10144074 CAAATTTTTT
1 -AAAATTTTT
*
10144084 AAATTTTTT
1 AAAATTTTT
*
10144093 AAGAAATTTTA
1 -A-AAATTTTT
10144104 AAAATATTTT
1 AAAAT-TTTT
** *
10144114 -GCA-TATT
1 AAAATTTTT
10144121 AAAATTTTTT
1 AAAA-TTTTT
10144131 AAAAATTATTT
1 -AAAATT-TTT
10144142 AAAAAACTTTTT
1 --AAAA-TTTTT
* *
10144154 AGTATTTTTT
1 A-AAATTTTT
*
10144164 ATAATTTTT
1 AAAATTTTT
* *
10144173 TAAA--TTG
1 AAAATTTTT
*
10144180 AAACTTTTTT
1 AAAAT-TTTT
10144190 ATAAA-TTTT
1 A-AAATTTTT
10144199 AAAATTTTT
1 AAAATTTTT
**
10144208 GGAATTATTT
1 AAAATT-TTT
**
10144218 TGAATTTTT
1 AAAATTTTT
*
10144227 ATAATTTTTTT
1 A-AA-ATTTTT
* *
10144238 GAAGTTTTT
1 AAAATTTTT
*
10144247 AAATTTTTTT
1 AAA-ATTTTT
*
10144257 AAAAGTGTTT
1 AAAA-TTTTT
10144267 AAAATTTTT
1 AAAATTTTT
*
10144276 AGAATTTTT
1 AAAATTTTT
10144285 ATAAACTTTTT
1 A-AAA-TTTTT
10144296 AAAATATTTT
1 AAAAT-TTTT
*
10144306 AGAATTT
1 AAAATTT
10144313 AAAAAAATAT
Statistics
Matches: 209, Mismatches: 50, Indels: 54
0.67 0.16 0.17
Matches are distributed among these distances:
7 7 0.03
8 4 0.02
9 86 0.41
10 71 0.34
11 31 0.15
12 8 0.04
13 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (9 bp):
AAAATTTTT
Found at i:10144134 original size:10 final size:10
Alignment explanation
Indices: 10144119--10144399 Score: 72
Period size: 10 Copynumber: 28.6 Consensus size: 10
10144109 ATTTTGCATA
10144119 TTAAAATTTT
1 TTAAAATTTT
10144129 TTAAAAATTATT
1 TT-AAAATT-TT
* *
10144141 TAAAAAACTTT
1 T-TAAAATTTT
**
10144152 TTAGTATTTT
1 TTAAAATTTT
*
10144162 TTATAATTTT
1 TTAAAATTTT
10144172 TT-AAA---T
1 TTAAAATTTT
* *
10144178 TGAAACTTTT
1 TTAAAATTTT
10144188 TTATAAA--TT
1 TTA-AAATTTT
10144197 TTAAAA-TTT
1 TTAAAATTTT
**
10144206 TTGGAATTATT
1 TTAAAATT-TT
*
10144217 TT-GAA-TTT
1 TTAAAATTTT
*
10144225 TTATAATTTT
1 TTAAAATTTT
** *
10144235 TTTGAAGTTT
1 TTAAAATTTT
*
10144245 TTAAATTTTT
1 TTAAAATTTT
* *
10144255 TTAAAAGTGT
1 TTAAAATTTT
10144265 TTAAAA-TTT
1 TTAAAATTTT
*
10144274 TTAGAA-TTT
1 TTAAAATTTT
*
10144283 TTATAAACTTT
1 TTA-AAATTTT
*
10144294 TTAAAATATT
1 TTAAAATTTT
* *
10144304 TTAGAATTTA
1 TTAAAATTTT
** *
10144314 AAAAAATATT
1 TTAAAATTTT
*
10144324 TT--AATATT
1 TTAAAATTTT
*
10144332 TTAATATTTGT
1 TTAAAATTT-T
* *
10144343 TGAGAATTTT
1 TTAAAATTTT
*
10144353 TT-ATATTTT
1 TTAAAATTTT
*
10144362 TTAGAATTTTTT
1 TTA-AA-ATTTT
10144374 TTAGAAA-TTT
1 TTA-AAATTTT
10144384 TT-AAATTTT
1 TTAAAATTTT
10144393 TCTAAAA
1 T-TAAAA
10144400 ACTTTTCTTT
Statistics
Matches: 195, Mismatches: 52, Indels: 47
0.66 0.18 0.16
Matches are distributed among these distances:
6 2 0.01
7 2 0.01
8 18 0.09
9 40 0.21
10 83 0.43
11 32 0.16
12 18 0.09
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (10 bp):
TTAAAATTTT
Found at i:10144223 original size:19 final size:19
Alignment explanation
Indices: 10144201--10144255 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
10144191 TAAATTTTAA
*
10144201 AATTTTTGGAATTATTTTG
1 AATTTTTAGAATTATTTTG
* *
10144220 AATTTTTATAATTTTTTTG
1 AATTTTTAGAATTATTTTG
10144239 AAGTTTTTA-AATT-TTTT
1 AA-TTTTTAGAATTATTTT
10144256 TAAAAGTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 22 0.69
20 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (19 bp):
AATTTTTAGAATTATTTTG
Found at i:10144256 original size:19 final size:18
Alignment explanation
Indices: 10144210--10144285 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 18
10144200 AAATTTTTGG
*
10144210 AATTATTTTGAATTTTTA
1 AATTTTTTTGAATTTTTA
10144228 TAATTTTTTTGAAGTTTTTA
1 -AATTTTTTTGAA-TTTTTA
* *
10144248 AATTTTTTTAAAAGTGTTTA
1 AATTTTTTT-GAA-TTTTTA
* *
10144268 AAATTTTTAGAATTTTTA
1 AATTTTTTTGAATTTTTA
10144286 TAAACTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.10
19 22 0.46
20 21 0.44
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
AATTTTTTTGAATTTTTA
Found at i:10144282 original size:30 final size:29
Alignment explanation
Indices: 10144252--10144312 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
10144242 TTTTTAAATT
*
10144252 TTTTTA-AAAGTGTTTAAAATTTTTAGAA
1 TTTTTATAAACTGTTTAAAATTTTTAGAA
*
10144280 TTTTTATAAACTTTTTAAAATATTTTAGAA
1 TTTTTATAAACTGTTTAAAAT-TTTTAGAA
10144310 TTT
1 TTT
10144313 AAAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.21
29 12 0.41
30 11 0.38
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTTTATAAACTGTTTAAAATTTTTAGAA
Found at i:10144289 original size:20 final size:18
Alignment explanation
Indices: 10144195--10144399 Score: 90
Period size: 20 Copynumber: 10.4 Consensus size: 18
10144185 TTTTTATAAA
*
10144195 TTTTAAAATTTTTGGAATT
1 TTTTAAAATTTTT-AAATT
*
10144214 ATTTT-GAATTTTTATAATTT
1 -TTTTAAAATTTTTA-AA-TT
* *
10144234 TTTTGAAGTTTTTAAATTT
1 TTTTAAAATTTTTAAA-TT
* *
10144253 TTTTAAAAGTGTTTAAAAT
1 TTTTAAAA-TTTTTAAATT
* *
10144272 TTTTAGAATTTTTATAAACT
1 TTTTA-AAATTTT-TAAATT
10144292 TTTTAAAATATTTTAGAATT
1 TTTTAAAAT-TTTTA-AATT
*** *
10144312 TAAAAAAATATTTT-AATA
1 TTTTAAAAT-TTTTAAATT
*
10144330 TTTTAATATTTGTTGAGAATT
1 TTTTAAAATTT-TT-A-AATT
* *
10144351 TTTTATATTTTTTAGAATTTT
1 TTTTAAAATTTTTA-AA--TT
10144372 TTTTAGAAATTTTTAAATT
1 TTTTA-AAATTTTTAAATT
10144391 TTTCTAAAA
1 TTT-TAAAA
10144400 ACTTTTCTTT
Statistics
Matches: 142, Mismatches: 27, Indels: 33
0.70 0.13 0.16
Matches are distributed among these distances:
17 2 0.01
18 10 0.07
19 50 0.35
20 53 0.37
21 20 0.14
22 7 0.05
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTTAAAATTTTTAAATT
Found at i:10144326 original size:30 final size:30
Alignment explanation
Indices: 10144264--10144334 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
10144254 TTTAAAAGTG
* * *
10144264 TTTAAAAT-TTTTAGAATTTTTATAAACTT
1 TTTAAAATATTTTAGAATTTTAAAAAAATT
10144293 TTTAAAATATTTTAGAA-TTTAAAAAAATAT
1 TTTAAAATATTTTAGAATTTTAAAAAAAT-T
10144323 TTT--AATATTTTA
1 TTTAAAATATTTTA
10144335 ATATTTGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.24
29 16 0.43
30 12 0.32
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTAAAATATTTTAGAATTTTAAAAAAATT
Found at i:10144367 original size:19 final size:20
Alignment explanation
Indices: 10144330--10144373 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10144320 TATTTTAATA
*
10144330 TTTTAATATTTGTTGAGAAT
1 TTTTTATATTTGTTGAGAAT
*
10144350 TTTTTATATTT-TTTAGAAT
1 TTTTTATATTTGTTGAGAAT
10144369 TTTTT
1 TTTTT
10144374 TTAGAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTTATATTTGTTGAGAAT
Found at i:10144405 original size:21 final size:22
Alignment explanation
Indices: 10144359--10144405 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
10144349 TTTTTTATAT
* *
10144359 TTTTTAGAATTTTTTTTAGAAA
1 TTTTTAGAATTTTTTCTAAAAA
10144381 TTTTTA-AA-TTTTTCTAAAAA
1 TTTTTAGAATTTTTTCTAAAAA
*
10144401 CTTTT
1 TTTTT
10144406 CTTTTACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTAGAATTTTTTCTAAAAA
Found at i:10146534 original size:13 final size:13
Alignment explanation
Indices: 10146516--10146540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10146506 TAAAAGCCCA
10146516 AATAATAAAAAAT
1 AATAATAAAAAAT
10146529 AATAATAAAAAA
1 AATAATAAAAAA
10146541 GCCTTAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAATAAAAAAT
Found at i:10146784 original size:10 final size:10
Alignment explanation
Indices: 10146717--10146778 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 10
10146707 GGGAATAAAG
10146717 AGAAAGAAGAA
1 AGAAA-AAGAA
10146728 AGAAAAAGAAA
1 AGAAAAAG-AA
*
10146739 AGAGAAAGAA
1 AGAAAAAGAA
*
10146749 CATAATGAAGAGAA
1 -AGAA--AA-AGAA
10146763 AGAAAAAGAA
1 AGAAAAAGAA
10146773 AGAAAA
1 AGAAAA
10146779 CAAAAGCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 15 0.36
11 18 0.43
13 5 0.12
14 4 0.10
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.03
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:10150965 original size:19 final size:19
Alignment explanation
Indices: 10150902--10150966 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
10150892 CTATATTTAA
* * *
10150902 CCCTAGACCTAAAACCTAG
1 CCCTAAACCTTAAACCAAG
*
10150921 CCCTAAACC-TAAACCAAA
1 CCCTAAACCTTAAACCAAG
*
10150939 CCCCAAACCTTAAACCAAG
1 CCCTAAACCTTAAACCAAG
*
10150958 CCTTAAACC
1 CCCTAAACC
10150967 ATGACCTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.38
19 23 0.62
ACGTcount: A:0.42, C:0.40, G:0.05, T:0.14
Consensus pattern (19 bp):
CCCTAAACCTTAAACCAAG
Found at i:10154504 original size:21 final size:22
Alignment explanation
Indices: 10154480--10154529 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
10154470 AAATTTACTT
*
10154480 AATTTGTATGGAA-TGA-GTTG
1 AATTTGTATGAAATTGATGTTG
*
10154500 AAATTTGTGTGAAATTGATGTTG
1 -AATTTGTATGAAATTGATGTTG
10154523 AATTTGT
1 AATTTGT
10154530 GTAATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (22 bp):
AATTTGTATGAAATTGATGTTG
Found at i:10154528 original size:22 final size:21
Alignment explanation
Indices: 10154480--10154531 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
10154470 AAATTTACTT
* *
10154480 AATTTGTATGGAATGAGTTGA
1 AATTTGTGTGAAATGAGTTGA
10154501 AATTTGTGTGAAATTGATGTTG-
1 AATTTGTGTGAAA-TGA-GTTGA
10154523 AATTTGTGT
1 AATTTGTGT
10154532 AATTTGTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 11 0.41
22 12 0.44
23 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
AATTTGTGTGAAATGAGTTGA
Found at i:10155235 original size:20 final size:21
Alignment explanation
Indices: 10155200--10155239 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10155190 TTTAAAGAAT
10155200 GATCAATCCTCTATGAATAGG
1 GATCAATCCTCTATGAATAGG
*
10155221 GATCAATTC-CTATGAATAG
1 GATCAATCCTCTATGAATAG
10155240 ATATCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
GATCAATCCTCTATGAATAGG
Found at i:10159943 original size:129 final size:127
Alignment explanation
Indices: 10159612--10160061 Score: 413
Period size: 128 Copynumber: 3.5 Consensus size: 127
10159602 AATATGTAAT
*
10159612 TTTTGTTTCAAAATTACTATAATACT--T-TAAATTATATATTAAAATTTTAACATAATATAAAA
1 TTTTGTTTAAAAATTACTATAATACTCCTATAAATTATATATT-AAATTTTAACATAATATAAAA
* * * * *
10159674 TTAATCACATATTCAATTGTTAAAATA-CTCTTGCCATTGCTTTATAAAAATTTGATATGTGATA
65 TTAAT-ACATATTAAATTATTAAAATATCT-TTACCATTGATTTATAAAAATTTGATATGTGACA
* * * * * *
10159738 TTTTATTTAAAAATTATTGTAAT--TCCTTATTAAATTATATGTGAAATTTTAATATAATATAAA
1 TTTTGTTTAAAAATTACTATAATACTCC-TA-TAAATTATATATTAAATTTTAACATAATATAAA
* * * *
10159801 ATTAATTACATATTAAATTACTAAAATATCTTTATCATT-ATTTCATAAGAATTTGATATGTGGC
64 ATTAA-TACATATTAAATTATTAAAATATCTTTACCATTGATTT-ATAAAAATTTGATATGTGAC
10159865 A
127 A
* * * *
10159866 TTTTGTTTGAAATTTACTATAATACTCCTATCATATTATATATTAAATTTTAAGATAATATAAAA
1 TTTTGTTTAAAAATTACTATAATACTCCTAT-AAATTATATATTAAATTTTAACATAATATAAAA
* * * * *
10159931 TTAACTATATATTAAATTATTAAAATATCTTTA-CAATCATTTATGAAAATTT-AGCATGTGACA
65 TTAA-TACATATTAAATTATTAAAATATCTTTACCATTGATTTATAAAAATTTGA-TATGTGACA
* * * * *
10159994 -TTT-TATAAGAATTACTATAATGC-CCATATGAAATTACATATTAAATTATTATA-ATAAAATA
1 TTTTGTTTAAAAATTACTATAATACTCC-TAT-AAATTATATATTAAATT-TTA-ACATAATATA
10160055 AAATTAA
62 AAATTAA
10160062 AAAAATATAA
Statistics
Matches: 266, Mismatches: 42, Indels: 31
0.78 0.12 0.09
Matches are distributed among these distances:
124 1 0.00
125 2 0.01
126 52 0.20
127 25 0.09
128 104 0.39
129 79 0.30
130 3 0.01
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.44
Consensus pattern (127 bp):
TTTTGTTTAAAAATTACTATAATACTCCTATAAATTATATATTAAATTTTAACATAATATAAAAT
TAATACATATTAAATTATTAAAATATCTTTACCATTGATTTATAAAAATTTGATATGTGACA
Found at i:10160243 original size:13 final size:13
Alignment explanation
Indices: 10160209--10160243 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
10160199 TATAACATGT
*
10160209 AAAATATAATATA
1 AAAATATAATAAA
10160222 AAAAT-TAATAAA
1 AAAATATAATAAA
10160234 AAAATATAAT
1 AAAATATAAT
10160244 CACAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATATAATAAA
Found at i:10160346 original size:11 final size:10
Alignment explanation
Indices: 10160322--10160352 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
10160312 TATTTTATTA
10160322 TTAAAATAAT
1 TTAAAATAAT
10160332 TTAAAATATAT
1 TTAAAATA-AT
10160343 TTAAAATAAT
1 TTAAAATAAT
10160353 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTAAAATAAT
Found at i:10160359 original size:11 final size:11
Alignment explanation
Indices: 10160345--10160374 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10160335 AAATATATTT
10160345 AAAATAATAAA
1 AAAATAATAAA
*
10160356 AAAATTATAAA
1 AAAATAATAAA
10160367 AAAATAAT
1 AAAATAAT
10160375 TCACCCAGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:10168324 original size:11 final size:11
Alignment explanation
Indices: 10168305--10168341 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
10168295 GCCATTTCAT
*
10168305 TTTTTTTGGTA
1 TTTTGTTGGTA
10168316 TTTTGTTGGTA
1 TTTTGTTGGTA
10168327 TTTTGTTGGTA
1 TTTTGTTGGTA
10168338 TTTT
1 TTTT
10168342 TTTATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.08, C:0.00, G:0.22, T:0.70
Consensus pattern (11 bp):
TTTTGTTGGTA
Found at i:10168861 original size:53 final size:52
Alignment explanation
Indices: 10168802--10168989 Score: 218
Period size: 53 Copynumber: 3.5 Consensus size: 52
10168792 AATAAAAAGA
10168802 ATTTCTAAATAGGCCCAAATGGTAGAAAATTTAGAAATTCTGAAAAGA-AAAAT
1 ATTTCTAAATAGGCCCAAATGGTAGAAAATTTAGAAATTC--AAAAGAGAAAAT
* * ** * * *
10168855 ATTTCTAAATTGACCCAAATGGTAGAAAATTTAGAAATAAAAAAATAATAAACAA
1 ATTTCTAAATAGGCCCAAATGGTAGAAAATTTAGAAAT-TCAAAA-GAGAAA-AT
*
10168910 ATTTCTAAATAGGCGCCAAATGGTAGAGAATTTAGAAATTCAAAAGAGAAAAT
1 ATTTCTAAATAGGC-CCAAATGGTAGAAAATTTAGAAATTCAAAAGAGAAAAT
*
10168963 ATTTCTAATTTA-GCCCAAATGGTAGAA
1 ATTTCTAA-ATAGGCCCAAATGGTAGAA
10168990 TAGTTAGATA
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
52 16 0.14
53 48 0.42
54 9 0.08
55 17 0.15
56 23 0.20
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (52 bp):
ATTTCTAAATAGGCCCAAATGGTAGAAAATTTAGAAATTCAAAAGAGAAAAT
Found at i:10168921 original size:108 final size:110
Alignment explanation
Indices: 10168783--10168989 Score: 325
Period size: 108 Copynumber: 1.9 Consensus size: 110
10168773 TTTCCAAAAA
10168783 AAAAATAATAATAAAAAGAATTTCTAAATAGGC-CCAAATGGTAGAAAATTTAGAAATTCTGAAA
1 AAAAATAATAATAAAAAGAATTTCTAAATAGGCGCCAAATGGTAGAAAATTTAGAAATTC--AAA
10168847 AGA-AAAATATTTCTAAATTGA-CCCAAATGGTAGAAAATTTAGAAAT
64 AGAGAAAATATTTCT-AATTGAGCCCAAATGGTAGAAAATTTAGAAAT
* *
10168893 AAAAA-AATAATAAACA-AATTTCTAAATAGGCGCCAAATGGTAGAGAATTTAGAAATTCAAAAG
1 AAAAATAATAATAAAAAGAATTTCTAAATAGGCGCCAAATGGTAGAAAATTTAGAAATTCAAAAG
*
10168956 AGAAAATATTTCTAATTTAGCCCAAATGGTAGAA
66 AGAAAATATTTCTAATTGAGCCCAAATGGTAGAA
10168990 TAGTTAGATA
Statistics
Matches: 91, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
107 11 0.12
108 40 0.44
109 35 0.38
110 5 0.05
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (110 bp):
AAAAATAATAATAAAAAGAATTTCTAAATAGGCGCCAAATGGTAGAAAATTTAGAAATTCAAAAG
AGAAAATATTTCTAATTGAGCCCAAATGGTAGAAAATTTAGAAAT
Found at i:10172636 original size:21 final size:20
Alignment explanation
Indices: 10172612--10172650 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10172602 GAAAAGAAAA
10172612 AAGCA-AAAAGAAAGAAAAGCC
1 AAGCAGAAAA-AAA-AAAAGCC
10172633 AAGCAGAAAAAAAAAAAG
1 AAGCAGAAAAAAAAAAAG
10172651 AAAAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.72, C:0.10, G:0.18, T:0.00
Consensus pattern (20 bp):
AAGCAGAAAAAAAAAAAGCC
Found at i:10173028 original size:20 final size:19
Alignment explanation
Indices: 10173003--10173102 Score: 98
Period size: 20 Copynumber: 5.2 Consensus size: 19
10172993 CTAATGGATG
10173003 AAAAAATGAAAAACAAAGAA
1 AAAAAATGAAAAA-AAAGAA
*
10173023 AAAAAAT-AAAAATGAGAGAA
1 AAAAAATGAAAAA--AAAGAA
* *
10173043 AAAAAAT-AAAAAAAGGGA
1 AAAAAATGAAAAAAAAGAA
*
10173061 AAAAAA-GAAAAAAAAGAG
1 AAAAAATGAAAAAAAAGAA
10173079 AAAAAATGGGAAAAAAAAGAA
1 AAAAAAT--GAAAAAAAAGAA
10173100 AAA
1 AAA
10173103 GAGAAAAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
18 23 0.35
19 5 0.08
20 24 0.36
21 14 0.21
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAAAATGAAAAAAAAGAA
Found at i:10173044 original size:38 final size:36
Alignment explanation
Indices: 10173002--10173122 Score: 113
Period size: 39 Copynumber: 3.2 Consensus size: 36
10172992 ACTAATGGAT
10173002 GAAAAAATGAAAAACAAAGAAAAAAAATAAAAATGAGA
1 GAAAAAATGAAAAA-AAAGAAAAAAAA-AAAAATGAGA
* *
10173040 GAAAAAAAAT-AAAAAAAGGGAAAAAAAGAAAAAA-AAGA
1 G--AAAAAATGAAAAAAA-AGAAAAAAA-AAAAAATGAGA
*
10173078 GAAAAAATGGGAAAAAAAAGAAAAAGAGAAAAAATGAG-
1 GAAAAAAT--GAAAAAAAAGAAAAA-AAAAAAAATGAGA
10173116 GAAAAAA
1 GAAAAAA
10173123 AAAAATGAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
36 7 0.10
38 26 0.38
39 28 0.41
40 8 0.12
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (36 bp):
GAAAAAATGAAAAAAAAGAAAAAAAAAAAAATGAGA
Found at i:10173119 original size:19 final size:19
Alignment explanation
Indices: 10173002--10173127 Score: 84
Period size: 19 Copynumber: 6.7 Consensus size: 19
10172992 ACTAATGGAT
*
10173002 GAAAAAATGAAAAACAA-AG
1 GAAAAAAAGAAAAA-AAGAG
* * *
10173021 AAAAAAAATAAAAATGAGAG
1 GAAAAAAAGAAAAA-AAGAG
* *
10173041 AAAAAAAATAAAAAAAG-G
1 GAAAAAAAGAAAAAAAGAG
10173059 GAAAAAAAGAAAAAAA-AG
1 GAAAAAAAGAAAAAAAGAG
*
10173077 AGAAAAAATGGGAAAAAAA-A-
1 -GAAAAAA--AGAAAAAAAGAG
* *
10173097 GAAAAAGAGAAAAAATGAG
1 GAAAAAAAGAAAAAAAGAG
10173116 GAAAAAAA-AAAA
1 GAAAAAAAGAAAA
10173128 TGAAGACTCA
Statistics
Matches: 87, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
17 7 0.08
18 21 0.24
19 34 0.39
20 16 0.18
21 9 0.10
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.05
Consensus pattern (19 bp):
GAAAAAAAGAAAAAAAGAG
Found at i:10173133 original size:29 final size:26
Alignment explanation
Indices: 10173062--10173127 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 26
10173052 AAAAAGGGAA
10173062 AAAAAGAAAAAAAAGAGAAAAAATGGG
1 AAAAA-AAAAAAAAGAGAAAAAATGGG
10173089 AAAAAAAAGAAAAAGAGAAAAAATGAGG
1 AAAAAAAA-AAAAAGAGAAAAAATG-GG
10173117 AAAAAAAAAAA
1 AAAAAAAAAAA
10173128 TGAAGACTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 3 0.08
27 24 0.65
28 10 0.27
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (26 bp):
AAAAAAAAAAAAAGAGAAAAAATGGG
Found at i:10174514 original size:25 final size:24
Alignment explanation
Indices: 10174481--10174637 Score: 110
Period size: 25 Copynumber: 6.6 Consensus size: 24
10174471 CACCTTTGAG
* *
10174481 TTTTAAATGAGAATTTTTAAGACA
1 TTTTTAATGAGAATCTTTAAGACA
*
10174505 TTTTCTAATGAGAACCTTT--GA-A
1 TTTT-TAATGAGAATCTTTAAGACA
* * *
10174527 TATTAAATGAGAATGTTTAAGACA
1 TTTTTAATGAGAATCTTTAAGACA
*
10174551 TTTTTAAATGAGAATCTTT--GA-G
1 TTTTT-AATGAGAATCTTTAAGACA
* * **
10174573 TCTTAAATGAGAATCTTTAAGATG
1 TTTTTAATGAGAATCTTTAAGACA
* *
10174597 TTTTTAAATGATAATCTTTAAGACG
1 TTTTT-AATGAGAATCTTTAAGACA
*
10174622 TTTTCAAATGAGAATC
1 TTTT-TAATGAGAATC
10174638 ATTGAGTCTT
Statistics
Matches: 104, Mismatches: 19, Indels: 19
0.73 0.13 0.13
Matches are distributed among these distances:
21 24 0.23
22 7 0.07
23 8 0.08
24 12 0.12
25 53 0.51
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (24 bp):
TTTTTAATGAGAATCTTTAAGACA
Found at i:10174537 original size:21 final size:21
Alignment explanation
Indices: 10174511--10174752 Score: 108
Period size: 21 Copynumber: 10.7 Consensus size: 21
10174501 GACATTTTCT
*
10174511 AATGAGAACCTTTGAATATTA
1 AATGAGAATCTTTGAATATTA
* *
10174532 AATGAGAATGTTTAAGACATTTTTA
1 AATGAGAATCTTT--GA-A-TATTA
* *
10174557 AATGAGAATCTTTGAGTCTTA
1 AATGAGAATCTTTGAATATTA
* *
10174578 AATGAGAATCTTTAAGATGTTTTTA
1 AATGAGAATCTTT--GA--ATATTA
* * *
10174603 AATGATAATCTTTAAGACGTTTTCA
1 AATGAGAATCTTT--GA-ATATT-A
* * *
10174628 AATGAGAATCATTGAGTCTTA
1 AATGAGAATCTTTGAATATTA
* *
10174649 AATGAGAATCTTTAAGATGTTTTCA
1 AATGAGAATCTTT--GA-ATATT-A
* * *
10174674 AATGAGAATCCTTGAGTCTTA
1 AATGAGAATCTTTGAATATTA
* *
10174695 AATGAGAATCTTTGAGTCTTCA
1 AATGAGAATCTTTGAATATT-A
* *
10174717 AAAGAGAATCTTTGAGT-TTCA
1 AATGAGAATCTTTGAATATT-A
*
10174738 AATAAGAATCTTTGA
1 AATGAGAATCTTTGA
10174753 GATGTGAAAC
Statistics
Matches: 185, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
21 78 0.42
22 25 0.14
23 12 0.06
24 9 0.05
25 61 0.33
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (21 bp):
AATGAGAATCTTTGAATATTA
Found at i:10174604 original size:71 final size:71
Alignment explanation
Indices: 10174529--10174729 Score: 275
Period size: 71 Copynumber: 2.9 Consensus size: 71
10174519 CCTTTGAATA
*
10174529 TTAAATGAGAATGTTTAAGACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
1 TTAAATGAGAATCTTTAAGACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
10174594 ATGTTT
66 ATGTTT
* * * *
10174600 TTAAATGATAATCTTTAAGACGTTTTCAAATGAGAATCATTGAGTCTTAAATGAGAATCTTTAAG
1 TTAAATGAGAATCTTTAAGACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
10174665 ATGTTT
66 ATGTTT
* * * * *
10174671 TCAAATGAGAATCCTT--G--AGTCTTAAATGAGAATCTTTGAGTCTTCAAAAGAGAATCTTT
1 TTAAATGAGAATCTTTAAGACATTTTTAAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTT
10174730 GAGTTTCAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
67 22 0.19
68 13 0.11
69 1 0.01
71 79 0.69
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (71 bp):
TTAAATGAGAATCTTTAAGACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
ATGTTT
Found at i:10174613 original size:46 final size:46
Alignment explanation
Indices: 10174474--10174753 Score: 226
Period size: 46 Copynumber: 6.2 Consensus size: 46
10174464 AAATAAGCAC
* * *
10174474 CTTTGAGTTTT-AAATGAGAATTTTTAAGACATTTTCT-AATGAGAAC
1 CTTTGAGTTTTCAAATGAGAATCTTTAAGA-GTTTT-TAAATGAGAAT
* * * *
10174520 CTTTGAATATT-AAATGAGAATGTTTAAGACATTTTTAAATGAGAAT
1 CTTTGAGTTTTCAAATGAGAATCTTTAAGA-GTTTTTAAATGAGAAT
* *
10174566 CTTTGAGTCTT-AAATGAGAATCTTTAAGATGTTTTTAAATGATAAT
1 CTTTGAGTTTTCAAATGAGAATCTTTAAGA-GTTTTTAAATGAGAAT
* *
10174612 CTTTAAGACGTTTTCAAATGAGAATCATT--GAG-TCTTAAATGAGAAT
1 CTTT--GA-GTTTTCAAATGAGAATCTTTAAGAGTTTTTAAATGAGAAT
* *
10174658 CTTTAAGATGTTTTCAAATGAGAATCCTT--GAG-TCTTAAATGAGAAT
1 CTTT--GA-GTTTTCAAATGAGAATCTTTAAGAGTTTTTAAATGAGAAT
* * * *
10174704 CTTTGAGTCTTCAAAAGAGAATCTTT--GAG-TTTCAAATAAGAAT
1 CTTTGAGTTTTCAAATGAGAATCTTTAAGAGTTTTTAAATGAGAAT
10174747 CTTTGAG
1 CTTTGAG
10174754 ATGTGAAACC
Statistics
Matches: 207, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
43 38 0.18
44 2 0.01
45 1 0.00
46 144 0.70
47 1 0.00
48 4 0.02
49 4 0.02
50 13 0.06
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (46 bp):
CTTTGAGTTTTCAAATGAGAATCTTTAAGAGTTTTTAAATGAGAAT
Found at i:10174689 original size:117 final size:117
Alignment explanation
Indices: 10174481--10174707 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 117
10174471 CACCTTTGAG
* * * *
10174481 TTTTAAATGAGAATTTTTAAGACATTTTCTAATGAGAACCTTTGAATATTAAATGAGAATGTTTA
1 TTTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCATTGAATATTAAATGAGAATCTTTA
* *
10174546 AGACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGT
66 AGACATTTTCAAATGAGAATCCTTGAGTCTTAAATGAGAATCTTTAAGATGT
* * * * *
10174598 TTTTAAATGATAATCTTTAAGACGTTTTCAAATGAGAATCATTGAGTCTTAAATGAGAATCTTTA
1 TTTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCATTGAATATTAAATGAGAATCTTTA
**
10174663 AGATGTTTTCAAATGAGAATCCTTGAGTCTTAAATGAGAATCTTT
66 AGACATTTTCAAATGAGAATCCTTGAGTCTTAAATGAGAATCTTT
10174708 GAGTCTTCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 97 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (117 bp):
TTTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCATTGAATATTAAATGAGAATCTTTA
AGACATTTTCAAATGAGAATCCTTGAGTCTTAAATGAGAATCTTTAAGATGT
Found at i:10174753 original size:21 final size:22
Alignment explanation
Indices: 10174556--10174753 Score: 206
Period size: 21 Copynumber: 8.8 Consensus size: 22
10174546 AGACATTTTT
10174556 AAATGAGAATCTTTGAGTCTT-
1 AAATGAGAATCTTTGAGTCTTC
* *
10174577 AAATGAGAATCTTTAAGATGTTTTT
1 AAATGAGAATCTTT--GA-GTCTTC
* *
10174602 AAATGATAATCTTTAAGACGTTTTC
1 AAATGAGAATCTTT--GA-GTCTTC
*
10174627 AAATGAGAATCATTGAGTCTT-
1 AAATGAGAATCTTTGAGTCTTC
*
10174648 AAATGAGAATCTTTAAGATGTTTTC
1 AAATGAGAATCTTT--GA-GTCTTC
*
10174673 AAATGAGAATCCTTGAGTCTT-
1 AAATGAGAATCTTTGAGTCTTC
10174694 AAATGAGAATCTTTGAGTCTTC
1 AAATGAGAATCTTTGAGTCTTC
*
10174716 AAAAGAGAATCTTTGAGT-TTC
1 AAATGAGAATCTTTGAGTCTTC
*
10174737 AAATAAGAATCTTTGAG
1 AAATGAGAATCTTTGAG
10174754 ATGTGAAACC
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
21 65 0.42
22 25 0.16
23 8 0.05
24 8 0.05
25 47 0.31
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
AAATGAGAATCTTTGAGTCTTC
Found at i:10175278 original size:41 final size:40
Alignment explanation
Indices: 10175227--10175411 Score: 147
Period size: 41 Copynumber: 4.6 Consensus size: 40
10175217 TCTTTTTCTT
* *
10175227 AAGTTATTGAGCCTCTGTTTTGAGGAACCTTTTATTTTTCA
1 AAGTTGTTGAGCCTCTGTTTAGAGGAACC-TTTATTTTTCA
* * * * **
10175268 AAGTTGTTGAGCCACTATTTCGCGGAGTCTTTATTTTTCA
1 AAGTTGTTGAGCCTCTGTTTAGAGGAACCTTTATTTTTCA
* * * * * * *
10175308 AAATTGTTGAGCTTTTGTTTAGAAG-AGCATTATTTTCCA
1 AAGTTGTTGAGCCTCTGTTTAGAGGAACCTTTATTTTTCA
* * * * *
10175347 AAGTTGTTGAGCCTTTGGTTAGAGGAGCGTTATTTTTTTCA
1 AAGTTGTTGAGCCTCTGTTTAGAGGAACCTT-TATTTTTCA
* *
10175388 AAGTCGTTGAGCCTCTATTTAGAG
1 AAGTTGTTGAGCCTCTGTTTAGAG
10175412 AAGCTTTGTT
Statistics
Matches: 109, Mismatches: 33, Indels: 4
0.75 0.23 0.03
Matches are distributed among these distances:
39 31 0.28
40 29 0.27
41 49 0.45
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.43
Consensus pattern (40 bp):
AAGTTGTTGAGCCTCTGTTTAGAGGAACCTTTATTTTTCA
Found at i:10175354 original size:39 final size:39
Alignment explanation
Indices: 10175298--10175382 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
10175288 CGCGGAGTCT
* * *
10175298 TTATTTTTCAAAATTGTTGAGCTTTTGTTTAGAAGAGCA
1 TTATTTTCCAAAATTGTTGAGCCTTTGGTTAGAAGAGCA
* * *
10175337 TTATTTTCCAAAGTTGTTGAGCCTTTGGTTAGAGGAGCG
1 TTATTTTCCAAAATTGTTGAGCCTTTGGTTAGAAGAGCA
10175376 TTATTTT
1 TTATTTT
10175383 TTTCAAAGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (39 bp):
TTATTTTCCAAAATTGTTGAGCCTTTGGTTAGAAGAGCA
Found at i:10175656 original size:3 final size:3
Alignment explanation
Indices: 10175648--10175692 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
10175638 ATTTATTTAT
10175648 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10175693 GAGATAATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10176549 original size:20 final size:20
Alignment explanation
Indices: 10176526--10176579 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 20
10176516 TTGTATAATT
10176526 AAATTTAGGAAAAAATAAAA
1 AAATTTAGGAAAAAATAAAA
*
10176546 AAA-TTA--AAAAAATAATA
1 AAATTTAGGAAAAAATAAAA
* * *
10176563 AATTTTGGGAATAAATA
1 AAATTTAGGAAAAAATA
10176580 TTAATTATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 12 0.44
18 2 0.07
19 3 0.11
20 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (20 bp):
AAATTTAGGAAAAAATAAAA
Found at i:10177034 original size:51 final size:51
Alignment explanation
Indices: 10176938--10177034 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
10176928 AATAAAAAGA
* * ***
10176938 ATTTCTAAATAGGCCCAAATGATGGAAAATTAGAAATTCCGAAAAAGAAAT
1 ATTTCTAAATAGACCCAAATGATGAAAAATTAGAAATTAAAAAAAAGAAAT
* *
10176989 ATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAA-TAAAAAAAA
1 ATTTCTAAATAGACCCAAATGATGAAAAA-TTAGAAATTAAAAAAAA
10177035 TAATAAAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 31 0.82
52 7 0.18
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (51 bp):
ATTTCTAAATAGACCCAAATGATGAAAAATTAGAAATTAAAAAAAAGAAAT
Found at i:10178213 original size:20 final size:20
Alignment explanation
Indices: 10178175--10178213 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10178165 GGGTAAATTG
* * *
10178175 CAATTTTATTTCTTTTTGTT
1 CAATTTAATTTCATATTGTT
10178195 CAATTTAATTTCATATTGT
1 CAATTTAATTTCATATTGT
10178214 GCATGATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (20 bp):
CAATTTAATTTCATATTGTT
Found at i:10179143 original size:124 final size:124
Alignment explanation
Indices: 10179003--10179243 Score: 313
Period size: 124 Copynumber: 1.9 Consensus size: 124
10178993 AAATGCCTTA
* * * * * *
10179003 AATAATCCCTTAATAAAAATTTTTGAGGATTTTTTAATGCATCTTTT-ATAAGAAATGCCTTCAA
1 AATAATCCCCTAATAAAAATTTTTGAAGATTATTTAAGGCAT-TTTTGACAAAAAATGCCTTCAA
* *
10179067 TAACCCCATTAAATTTTTTGTAAAAGATTATTCAATACGTTTCTGGCCAAAAACACATTC
65 TAACCCCATTAAATTTTTTGTAAAAGATTATTCAAGACGTTTCTAGCCAAAAACACATTC
* * * ** * *
10179127 AATAATCCCCTCATAAAATTTTTTTAAGATTATTTAAGGTGTTTTTGGCAAAAAATGCCTTGAAT
1 AATAATCCCCTAATAAAAATTTTTGAAGATTATTTAAGGCATTTTTGACAAAAAATGCCTTCAAT
* *
10179192 AACCCCATTCAATTTTTTGTAAAAGATTATTCAAGGCGTTTCTAGCCAAAAA
66 AACCCCATTAAATTTTTTGTAAAAGATTATTCAAGACGTTTCTAGCCAAAAA
10179244 TGCATTGAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 4 0.04
124 95 0.96
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (124 bp):
AATAATCCCCTAATAAAAATTTTTGAAGATTATTTAAGGCATTTTTGACAAAAAATGCCTTCAAT
AACCCCATTAAATTTTTTGTAAAAGATTATTCAAGACGTTTCTAGCCAAAAACACATTC
Found at i:10179244 original size:62 final size:62
Alignment explanation
Indices: 10179055--10179255 Score: 219
Period size: 62 Copynumber: 3.2 Consensus size: 62
10179045 CTTTTATAAG
* **
10179055 AAATGCCTTCAATAACCCCATTAAATTTTTTGTAAAAGATTATTCAATACGTTTCTGGCCAA
1 AAATGCATTCAATAACCCCATTAAATTTTTTGTAAAAGATTATTCAAGGCGTTTCTGGCCAA
** * * * * *
10179117 AAACACATTCAATAATCCCCTCATAAAATTTTTT-T--AAGATTATTTAAGGTGTTTTTGGCAAA
1 AAATGCATTCAATAA--CCC-CATTAAATTTTTTGTAAAAGATTATTCAAGGCGTTTCTGGCCAA
* * * *
10179179 AAATGCCTTGAATAACCCCATTCAATTTTTTGTAAAAGATTATTCAAGGCGTTTCTAGCCAA
1 AAATGCATTCAATAACCCCATTAAATTTTTTGTAAAAGATTATTCAAGGCGTTTCTGGCCAA
*
10179241 AAATGCATTGAATAA
1 AAATGCATTCAATAA
10179256 TAAAAAAAAT
Statistics
Matches: 111, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
59 11 0.10
60 4 0.04
62 80 0.72
64 4 0.04
65 12 0.11
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (62 bp):
AAATGCATTCAATAACCCCATTAAATTTTTTGTAAAAGATTATTCAAGGCGTTTCTGGCCAA
Found at i:10179913 original size:14 final size:14
Alignment explanation
Indices: 10179894--10179923 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10179884 TGTTCATGTC
10179894 AATTTAATTTAATT
1 AATTTAATTTAATT
*
10179908 AATTTAGTTTAATT
1 AATTTAATTTAATT
10179922 AA
1 AA
10179924 ACAAAATTTT
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):
AATTTAATTTAATT
Found at i:10183418 original size:14 final size:14
Alignment explanation
Indices: 10183399--10183425 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10183389 TATTTTTTCC
10183399 TTTCTTTTCTTTTG
1 TTTCTTTTCTTTTG
10183413 TTTCTTTTCTTTT
1 TTTCTTTTCTTTT
10183426 ATTCTTTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTCTTTTCTTTTG
Found at i:10184689 original size:23 final size:22
Alignment explanation
Indices: 10184654--10184714 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
10184644 TAAAACTTTC
*
10184654 TTTTTTCC-ATTTTTTTTAATCT
1 TTTTTTCCTTTTTTTTTTAA-CT
* *
10184676 TTTTTCTTCTTTTTTTTTTCACT
1 TTTTT-TCCTTTTTTTTTTAACT
10184699 TTTTTTCCTTTTTTTT
1 TTTTTTCCTTTTTTTT
10184715 CTTTAAGGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 15 0.45
23 9 0.27
24 9 0.27
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTCCTTTTTTTTTTAACT
Found at i:10189943 original size:41 final size:42
Alignment explanation
Indices: 10189857--10189934 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
10189847 TAAAATGATT
* *
10189857 TTTTATTATTGTTTACTATTTATTTATTTTTTATATTAAAGA
1 TTTTATCATTGTTTACTATTTATTTATTTATTATATTAAAGA
*
10189899 TTTTATCATT-TTTATTATTTATTTATTTATT-TATTA
1 TTTTATCATTGTTTACTATTTATTTATTTATTATATTA
10189935 TATTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 5 0.15
41 19 0.58
42 9 0.27
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (42 bp):
TTTTATCATTGTTTACTATTTATTTATTTATTATATTAAAGA
Found at i:10189948 original size:12 final size:12
Alignment explanation
Indices: 10189907--10189950 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
10189897 GATTTTATCA
10189907 TTTT-TATTATT
1 TTTTATATTATT
10189918 TATTTAT-TTATT
1 T-TTTATATTATT
*
10189930 TATTATATTATT
1 TTTTATATTATT
10189942 TTTTATATT
1 TTTTATATT
10189951 TAATAATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 5 0.18
12 22 0.79
13 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:10192112 original size:12 final size:11
Alignment explanation
Indices: 10192074--10192146 Score: 64
Period size: 12 Copynumber: 6.5 Consensus size: 11
10192064 TTCTCTTTTT
10192074 TATTTA-ATTA
1 TATTTATATTA
10192084 T-TGTTATTATTA
1 TAT-TTA-TATTA
10192096 T-TTTATTATTA
1 TATTTA-TATTA
10192107 TATTTACTA-TA
1 TATTTA-TATTA
10192118 TATTTATATTTA
1 TATTTATA-TTA
10192130 TATTTATATTTA
1 TATTTATA-TTA
10192142 TATTT
1 TATTT
10192147 TTTTATTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
9 1 0.02
10 6 0.11
11 18 0.32
12 31 0.55
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (11 bp):
TATTTATATTA
Found at i:10192125 original size:6 final size:6
Alignment explanation
Indices: 10192104--10192146 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
10192094 TATTTTATTA
10192104 TTATAT TTACTA- -TATAT TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTA-TAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
10192147 TTTTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
6 28 0.82
7 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (6 bp):
TTATAT
Found at i:10196145 original size:145 final size:141
Alignment explanation
Indices: 10195891--10196256 Score: 358
Period size: 145 Copynumber: 2.5 Consensus size: 141
10195881 TATACGTCGG
* * *
10195891 AAAGAGTAAAATTACCAAAATACCCTTCAAGGGTATTTTCATAATTTTGACCTCCTCAAGATCAA
1 AAAGTGTAAAATTACCAAAATACCCTTTAAGGGTATTTTCATAA-TTTGACCTCCT-AAGGTCAA
** * *
10195956 AATTTCGTGAAAAACTCCAAATCACATTTTAATATCATTCCATGATTTTGTATGCATTAAAAACC
64 TTTTTCATGAAAAACTCCAAATAACATTTTAATATCATTCCATGATTTTG-ATGCATTAAAAACC
* *
10196021 TTGATCGCACCAAA
128 ATGATCACACCAAA
* *
10196035 AAAGGTGTAAAATTACCAAAATACCCTTTAATGATATTTTCATAATTTGACCTTCCTAAGGTCAA
1 AAA-GTGTAAAATTACCAAAATACCCTTTAAGGGTATTTTCATAATTTGACC-TCCTAAGGTCAA
* * ** * * * * *
10196100 TTTTTCATGAAAGACTCTAGGAA-AATGTTTTCATATTATTTCATGATTTTGGTGCATTGAAAAC
64 TTTTTCATGAAAAACTCCA--AATAACATTTTAATATCATTCCATGATTTTGATGCATTAAAAAC
* **
10196164 CATGGTCACACCTTA
127 CATGATCACACCAAA
* * * * * *
10196179 AAAGTGTGAAATTACTAAAATACCCATCTAGGGGGTATTTTCATAATTTGACAATCCCAAGGTCA
1 AAAGTGTAAAATTACCAAAATACCC-TTTA-AGGGTATTTTCATAATTTGAC-CTCCTAAGGTCA
*
10196244 A-TTTTCACGAAAA
63 ATTTTTCATGAAAA
10196257 CTTTTAAATC
Statistics
Matches: 182, Mismatches: 33, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
143 20 0.11
144 68 0.37
145 92 0.51
146 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (141 bp):
AAAGTGTAAAATTACCAAAATACCCTTTAAGGGTATTTTCATAATTTGACCTCCTAAGGTCAATT
TTTCATGAAAAACTCCAAATAACATTTTAATATCATTCCATGATTTTGATGCATTAAAAACCATG
ATCACACCAAA
Found at i:10197767 original size:19 final size:19
Alignment explanation
Indices: 10197745--10197835 Score: 89
Period size: 19 Copynumber: 4.8 Consensus size: 19
10197735 CCCAAAACTA
10197745 AAACACTCACCTAAACCCT
1 AAACACTCACCTAAACCCT
* *
10197764 AAACACTCTCCCAAACCCT
1 AAACACTCACCTAAACCCT
*
10197783 AAAC-CTTTATCC-AAACCCT
1 AAACAC-TCA-CCTAAACCCT
*
10197802 AAA-ATCTCACCTAAATCCT
1 AAACA-CTCACCTAAACCCT
*
10197821 AAACATTCACCTAAA
1 AAACACTCACCTAAA
10197836 TTCTAAAACC
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.05
19 52 0.88
20 4 0.07
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACACTCACCTAAACCCT
Found at i:10197965 original size:62 final size:61
Alignment explanation
Indices: 10197841--10197969 Score: 170
Period size: 62 Copynumber: 2.1 Consensus size: 61
10197831 CTAAATTCTA
* * ** *
10197841 AAACCTATCAAAACCTTAAACCCCCATCCAAACCTTAAATCCTTATGCAAGTTGACACCCT
1 AAACCTATCAAAACATTAAAACCCCATCCAAACCTTAAATCCTTATGCAAACTGAAACCCT
* *
10197902 AAACCTCTCATAAACATTAAAACCCCATCCAAATCC-TAAATCCTTATGCAAACTGAAATCCT
1 AAACCTATCA-AAACATTAAAACCCCATCCAAA-CCTTAAATCCTTATGCAAACTGAAACCCT
10197964 AAACCT
1 AAACCT
10197970 TCCCTCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
61 9 0.15
62 48 0.81
63 2 0.03
ACGTcount: A:0.40, C:0.33, G:0.04, T:0.23
Consensus pattern (61 bp):
AAACCTATCAAAACATTAAAACCCCATCCAAACCTTAAATCCTTATGCAAACTGAAACCCT
Found at i:10198085 original size:19 final size:19
Alignment explanation
Indices: 10198019--10198077 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
10198009 AAGCAAGCCA
*
10198019 AAAACCTAAA-GCTCTCCC
1 AAAACCTAAACGCTCACCC
10198037 AAAACCTAAACGCTCACCC
1 AAAACCTAAACGCTCACCC
10198056 AAAACCTAAACGCTCACCC
1 AAAACCTAAACGCTCACCC
10198075 AAA
1 AAA
10198078 CCCAAAACCA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 10 0.26
19 29 0.74
ACGTcount: A:0.44, C:0.39, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAACCTAAACGCTCACCC
Found at i:10198104 original size:98 final size:99
Alignment explanation
Indices: 10197975--10198182 Score: 296
Period size: 98 Copynumber: 2.1 Consensus size: 99
10197965 AACCTTCCCT
* * *
10197975 CAAACCCTAAAACCATATGCAAACCCTAATCCCCAAGCAAGCCAAAAACCTAAAGCTCTCCCAAA
1 CAAACCCTAAAACCATATGCAAACCCCAATCCCCAAGCAAGCCAAAAACCTAAACCTCTCACAAA
* *
10198040 ACCTAAACGCTCACCCAAAACC-TAAACGCTCACC
66 ACCTAAACACTCA-CCAAAACCTTAAACACTCACC
*
10198074 CAAACCC-AAAACCATAT-CTAAACCCCAATCCCTAAGCAAGCCAAAAACCTAAACCTCTCACAA
1 CAAACCCTAAAACCATATGC-AAACCCCAATCCCCAAGCAAGCCAAAAACCTAAACCTCTCACAA
* *
10198137 AACCTAAACACTCACCTAAACCTTAAATACTCACC
65 AACCTAAACACTCACCAAAACCTTAAACACTCACC
*
10198172 CAAGCCCTAAA
1 CAAACCCTAAA
10198183 TTTGAACCTA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
97 8 0.08
98 79 0.81
99 10 0.10
ACGTcount: A:0.44, C:0.38, G:0.04, T:0.13
Consensus pattern (99 bp):
CAAACCCTAAAACCATATGCAAACCCCAATCCCCAAGCAAGCCAAAAACCTAAACCTCTCACAAA
ACCTAAACACTCACCAAAACCTTAAACACTCACC
Found at i:10198157 original size:18 final size:18
Alignment explanation
Indices: 10198117--10198171 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
10198107 AAGCAAGCCA
*
10198117 AAAACCTAAAC-CTCTCAC
1 AAAACCTAAACACTCAC-C
10198135 AAAACCTAAACACTCACC
1 AAAACCTAAACACTCACC
* *
10198153 TAAACCTTAAATACTCACC
1 AAAACC-TAAACACTCACC
10198172 CAAGCCCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAACCTAAACACTCACC
Found at i:10198182 original size:19 final size:19
Alignment explanation
Indices: 10198134--10198183 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
10198124 AAACCTCTCA
* *
10198134 CAAAACCTAAACACTCACC
1 CAAACCCTAAATACTCACC
* *
10198153 TAAACCTTAAATACTCACC
1 CAAACCCTAAATACTCACC
*
10198172 CAAGCCCTAAAT
1 CAAACCCTAAAT
10198184 TTGAACCTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (19 bp):
CAAACCCTAAATACTCACC
Found at i:10198258 original size:19 final size:19
Alignment explanation
Indices: 10198210--10198264 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
10198200 AATTCCAAAC
10198210 CTTAAACCAAACCCTAAAA
1 CTTAAACCAAACCCTAAAA
** *
10198229 CTT-TCCCAAACCCTAAAT
1 CTTAAACCAAACCCTAAAA
10198247 CTTAAACCAAACCCTAAA
1 CTTAAACCAAACCCTAAA
10198265 CTTGAATCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (19 bp):
CTTAAACCAAACCCTAAAA
Found at i:10198303 original size:19 final size:18
Alignment explanation
Indices: 10198210--10198303 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
10198200 AATTCCAAAC
10198210 CTTAAACCAAACCCTAAAA
1 CTTAAACCAAACCCT-AAA
**
10198229 CTT-TCCCAAACCCTAAA
1 CTTAAACCAAACCCTAAA
10198246 TCTTAAACCAAACCCTAAA
1 -CTTAAACCAAACCCTAAA
* * **
10198265 CTTGAATCTAATTTCC-AAA
1 CTT-AAACCAA-ACCCTAAA
10198284 CATTAAACCAAACCCTAAA
1 C-TTAAACCAAACCCTAAA
10198303 C
1 C
10198304 CTGAATCTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
17 3 0.05
18 17 0.30
19 33 0.58
20 4 0.07
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (18 bp):
CTTAAACCAAACCCTAAA
Found at i:10198465 original size:27 final size:26
Alignment explanation
Indices: 10198416--10198471 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
10198406 AAAACAACCC
** *
10198416 AAACCCTAAACCAAGTCCTAAACCCTT
1 AAACCCTAAACCAAACCCCAAA-CCTT
*
10198443 AAACCCTAAACTAAACCCCAAACCTT
1 AAACCCTAAACCAAACCCCAAACCTT
10198469 AAA
1 AAA
10198472 TCAAACCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.46, C:0.36, G:0.02, T:0.16
Consensus pattern (26 bp):
AAACCCTAAACCAAACCCCAAACCTT
Found at i:10198471 original size:19 final size:19
Alignment explanation
Indices: 10198433--10198527 Score: 70
Period size: 19 Copynumber: 4.9 Consensus size: 19
10198423 AAACCAAGTC
*
10198433 CTAAACCCTTAAACCCTAAA
1 CTAAACCC-TAAACCTTAAA
*
10198453 CTAAACCCCAAACCTTAAA
1 CTAAACCCTAAACCTTAAA
*
10198472 -TCAAACCCTAAACCTTAGA
1 CT-AAACCCTAAACCTTAAA
* * *
10198491 GTAAGTCCCTAAACCCTAAA
1 CTAA-ACCCTAAACCTTAAA
10198511 TCCTAAA-CC-AAACCTTA
1 --CTAAACCCTAAACCTTA
10198528 GACCCCATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.02
19 33 0.55
20 23 0.38
22 3 0.05
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (19 bp):
CTAAACCCTAAACCTTAAA
Found at i:10198584 original size:26 final size:26
Alignment explanation
Indices: 10198551--10198608 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
10198541 AACCCTAACC
* * *
10198551 AAACCAAGTCCCCTAACCTAAACCTT
1 AAACCAAGACCCCTAACCCAAACCCT
10198577 AAACCAAGACCCCTAACCCAAACCCT
1 AAACCAAGACCCCTAACCCAAACCCT
10198603 -AACCAA
1 AAACCAA
10198609 ACTGAGACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.43, C:0.41, G:0.03, T:0.12
Consensus pattern (26 bp):
AAACCAAGACCCCTAACCCAAACCCT
Found at i:10198627 original size:56 final size:57
Alignment explanation
Indices: 10198540--10198656 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 57
10198530 CCCCATATCT
* * **
10198540 AAACCCTAACCAAACCAAGTCCCCTAACCTAAAC-CTTAAACCAAGACCCCTAACCC
1 AAACCCTAACCAAACCAAGACCCATAACCTAAACTCCCAAACCAAGACCCCTAACCC
** * * * *
10198596 AAACCCTAACCAAACTGAGACTCATAGCCTAAACTCCCAAAGCAAGACCCCTAACCT
1 AAACCCTAACCAAACCAAGACCCATAACCTAAACTCCCAAACCAAGACCCCTAACCC
10198653 AAAC
1 AAAC
10198657 TTTATCAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
56 28 0.56
57 22 0.44
ACGTcount: A:0.42, C:0.39, G:0.06, T:0.13
Consensus pattern (57 bp):
AAACCCTAACCAAACCAAGACCCATAACCTAAACTCCCAAACCAAGACCCCTAACCC
Found at i:10198738 original size:16 final size:16
Alignment explanation
Indices: 10198717--10198754 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10198707 AATTGTCCAT
10198717 AAACCAA-CCAAAATCC
1 AAACCAATCCAAAA-CC
*
10198733 AAACCAATCCTAAACC
1 AAACCAATCCAAAACC
10198749 AAACCA
1 AAACCA
10198755 CCCTATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.55, C:0.37, G:0.00, T:0.08
Consensus pattern (16 bp):
AAACCAATCCAAAACC
Found at i:10198821 original size:20 final size:20
Alignment explanation
Indices: 10198796--10198838 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10198786 AGCACTTAAA
* *
10198796 CCTTAACCAATCCCTAAAAC
1 CCTTAAACAACCCCTAAAAC
*
10198816 CCTTAAACTACCCCTAAAAC
1 CCTTAAACAACCCCTAAAAC
10198836 CCT
1 CCT
10198839 AATTCCACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (20 bp):
CCTTAAACAACCCCTAAAAC
Found at i:10201733 original size:19 final size:18
Alignment explanation
Indices: 10201711--10201775 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
10201701 GAAACCAAAC
10201711 CCTTAAACCCTAACCTAAA
1 CCTTAAACCCTAA-CTAAA
*
10201730 CCTTCAAA-CCTAA--GAA
1 CCTT-AAACCCTAACTAAA
*
10201746 CCTTAAACTCTAAGCTAAA
1 CCTTAAACCCTAA-CTAAA
10201765 CCATTAAACCC
1 CC-TTAAACCC
10201776 CAAATCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
15 3 0.08
16 10 0.28
19 13 0.36
20 10 0.28
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.22
Consensus pattern (18 bp):
CCTTAAACCCTAACTAAA
Found at i:10201899 original size:18 final size:18
Alignment explanation
Indices: 10201876--10201938 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
10201866 AACGCTAACT
10201876 CAAACCCTAAACCAATCC
1 CAAACCCTAAACCAATCC
*
10201894 CAAACCCT-AA--AA-CT
1 CAAACCCTAAACCAATCC
*
10201908 CAAACCCTAAATCAATCC
1 CAAACCCTAAACCAATCC
10201926 CAAACCCTGAAAC
1 CAAACCCT-AAAC
10201939 TTAAACCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 9 0.24
15 4 0.11
17 4 0.11
18 17 0.46
19 3 0.08
ACGTcount: A:0.46, C:0.40, G:0.02, T:0.13
Consensus pattern (18 bp):
CAAACCCTAAACCAATCC
Found at i:10201913 original size:32 final size:31
Alignment explanation
Indices: 10201835--10201963 Score: 165
Period size: 32 Copynumber: 4.2 Consensus size: 31
10201825 CTTAGACCCT
*
10201835 CAAACCCTAAACT--AACCCTAAACTAATCC
1 CAAACCCTAAACTCAAACCCTAAACCAATCC
*
10201864 CAAACGCT-AACTCAAACCCTAAACCAATCC
1 CAAACCCTAAACTCAAACCCTAAACCAATCC
*
10201894 CAAACCCTAAAACTCAAACCCTAAATCAATCC
1 CAAACCCT-AAACTCAAACCCTAAACCAATCC
* * *
10201926 CAAACCCTGAAACTTAAACCTTAAATCAATCC
1 CAAACCCT-AAACTCAAACCCTAAACCAATCC
10201958 CAAACC
1 CAAACC
10201964 TATGTAAACC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.04
29 7 0.08
30 22 0.25
32 56 0.63
ACGTcount: A:0.45, C:0.37, G:0.02, T:0.16
Consensus pattern (31 bp):
CAAACCCTAAACTCAAACCCTAAACCAATCC
Found at i:10202030 original size:11 final size:12
Alignment explanation
Indices: 10201996--10202035 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
10201986 AAAACCAATC
10201996 CCAAACCCT-AA
1 CCAAACCCTAAA
10202007 CTCAAACCCTAAA
1 C-CAAACCCTAAA
10202020 CCAAA-CCTAAA
1 CCAAACCCTAAA
10202031 CCAAA
1 CCAAA
10202036 ACAACCCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 12 0.44
12 12 0.44
13 3 0.11
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (12 bp):
CCAAACCCTAAA
Found at i:10202155 original size:21 final size:21
Alignment explanation
Indices: 10202129--10202174 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10202119 ACAAATTGAG
*
10202129 CCAAAACCATGCTAAA-CTAAA
1 CCAAAACCACGCTAAATCT-AA
10202150 CCAAAACCACGCTAAATCTAA
1 CCAAAACCACGCTAAATCTAA
10202171 CCAA
1 CCAA
10202175 TCCACAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.50, C:0.33, G:0.04, T:0.13
Consensus pattern (21 bp):
CCAAAACCACGCTAAATCTAA
Found at i:10204253 original size:51 final size:53
Alignment explanation
Indices: 10204151--10204272 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 53
10204141 ATTAAAACAT
* * * *
10204151 TATTCATTAAATATTACTAATTTTATTTATATTAAAAAATATAATTATTTAAA
1 TATTTATTAAATATTACTAATTCTATTAATACTAAAAAATATAATTATTTAAA
* *
10204204 TATTTATTAAATATTGCT-ATTCTATTAATACTAAAAAGTATAA-TATTTAAA
1 TATTTATTAAATATTACTAATTCTATTAATACTAAAAAATATAATTATTTAAA
10204255 TATTTATTAAATATTACT
1 TATTTATTAAATATTACT
10204273 GCTTTTATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 25 0.40
52 21 0.34
53 16 0.26
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (53 bp):
TATTTATTAAATATTACTAATTCTATTAATACTAAAAAATATAATTATTTAAA
Found at i:10208317 original size:186 final size:186
Alignment explanation
Indices: 10207996--10208364 Score: 657
Period size: 186 Copynumber: 2.0 Consensus size: 186
10207986 GATTCATGTT
* * *
10207996 TGATATGTGATATTGATATTAACTTAAATAATGGATGTATAAGATCATGAATTTAAACCAAACAT
1 TGATATGTGATATTAATATTAACTCAAATAATAGATGTATAAGATCATGAATTTAAACCAAACAT
10208061 ATAGTATATTGATATGTAACGAAGTATACATGTTAATTATGAGATAAATACCATGTATGCTATAT
66 ATAGTATATTGATATGTAACGAAGTATACATGTTAATTATGAGATAAATACCATGTATGCTATAT
*
10208126 TGGTTTATGATTGTACATGTTAGAATTTATGTATACTTCATGTATGATAAATGCTA
131 TGGTTTATGATTATACATGTTAGAATTTATGTATACTTCATGTATGATAAATGCTA
*
10208182 TGATATGTGATATTAATATTAACTCAAATAATAGATGTATAAGATCATGAATTTGAACCAAACAT
1 TGATATGTGATATTAATATTAACTCAAATAATAGATGTATAAGATCATGAATTTAAACCAAACAT
* * *
10208247 ATAGTTTATTGATATGTAACGAAGTCTACATGTTAATTATGAGATAAATACCATGTATGCTATGT
66 ATAGTATATTGATATGTAACGAAGTATACATGTTAATTATGAGATAAATACCATGTATGCTATAT
*
10208312 TGGTTTATGATTATACATGTTAGACTTTATGTATACTTCATGTATGATAAATG
131 TGGTTTATGATTATACATGTTAGAATTTATGTATACTTCATGTATGATAAATG
10208365 TTGTGTATAA
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 174 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (186 bp):
TGATATGTGATATTAATATTAACTCAAATAATAGATGTATAAGATCATGAATTTAAACCAAACAT
ATAGTATATTGATATGTAACGAAGTATACATGTTAATTATGAGATAAATACCATGTATGCTATAT
TGGTTTATGATTATACATGTTAGAATTTATGTATACTTCATGTATGATAAATGCTA
Found at i:10211281 original size:22 final size:22
Alignment explanation
Indices: 10211256--10211307 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
10211246 ATTTCATTGA
*
10211256 TTCATTCTCTTTCTTTCGTCAG
1 TTCATTCTCTCTCTTTCGTCAG
* **
10211278 TTCATTCTCTCTCTTTTGTTGG
1 TTCATTCTCTCTCTTTCGTCAG
10211300 TTCATTCT
1 TTCATTCT
10211308 TTCTAACGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.25, G:0.10, T:0.58
Consensus pattern (22 bp):
TTCATTCTCTCTCTTTCGTCAG
Found at i:10212337 original size:13 final size:13
Alignment explanation
Indices: 10212305--10212340 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
10212295 GTTCATGCTT
* *
10212305 GTGTATAATAATG
1 GTGTATGATGATG
10212318 GTGTATGATGATG
1 GTGTATGATGATG
10212331 GTGTATGATG
1 GTGTATGATG
10212341 GTGATGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (13 bp):
GTGTATGATGATG
Found at i:10212400 original size:47 final size:47
Alignment explanation
Indices: 10212348--10212458 Score: 204
Period size: 47 Copynumber: 2.4 Consensus size: 47
10212338 ATGGTGATGT
*
10212348 GTCAAATAGCTGATGGTACATGCTTGTGTATAATAATGTATGTGTGA
1 GTCAAATAGTTGATGGTACATGCTTGTGTATAATAATGTATGTGTGA
*
10212395 GTCAAATAGTTGATGGTACATGCTTGTGTATAATGATGTATGTGTGA
1 GTCAAATAGTTGATGGTACATGCTTGTGTATAATAATGTATGTGTGA
10212442 GTCAAATAGTTGATGGT
1 GTCAAATAGTTGATGGT
10212459 GTGTGATTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (47 bp):
GTCAAATAGTTGATGGTACATGCTTGTGTATAATAATGTATGTGTGA
Found at i:10212604 original size:75 final size:73
Alignment explanation
Indices: 10212505--10212671 Score: 185
Period size: 75 Copynumber: 2.2 Consensus size: 73
10212495 TTGATGATAC
* *** *
10212505 ATGCATGCATGTCAATTGGATAAT-GGTCCATGCTTTTGTCAA-TAGCTAATCGTGCGTGCTTGT
1 ATGCATGCATGTCAAAT-GATAATGGGT--ATGCTTGCATCAACTAGCTAATCGTGCATGCTTGT
10212568 ATCTAATGATG
63 ATCTAATGATG
* * *
10212579 ATTGCATGCATGTCAAATGACTAATGGGTGTGCTTGCATCAACTAGCTAATGGTGCATGTTTGTA
1 A-TGCATGCATGTCAAATGA-TAATGGGTATGCTTGCATCAACTAGCTAATCGTGCATGCTTGTA
10212644 TCTAATGATG
64 TCTAATGATG
* *
10212654 ATGCATGAATATCAAATG
1 ATGCATGCATGTCAAATG
10212672 GTTATGTGAG
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
74 27 0.34
75 49 0.62
76 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (73 bp):
ATGCATGCATGTCAAATGATAATGGGTATGCTTGCATCAACTAGCTAATCGTGCATGCTTGTATC
TAATGATG
Found at i:10212696 original size:51 final size:52
Alignment explanation
Indices: 10212641--10212743 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
10212631 GTGCATGTTT
*
10212641 GTATCTAATGATG-ATGCATGA-ATATCAAATGGTTATGTGAGATGGCTAGTG
1 GTATCTAATGATGTATGCAT-ATATATCAAATGGCTATGTGAGATGGCTAGTG
* *
10212692 GTATCTAATGATGTGTGCATATATGTCAAATGGCTATGTGAGATGGCTAGTG
1 GTATCTAATGATGTATGCATATATATCAAATGGCTATGTGAGATGGCTAGTG
10212744 TTTAGGATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 14 0.30
52 33 0.70
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (52 bp):
GTATCTAATGATGTATGCATATATATCAAATGGCTATGTGAGATGGCTAGTG
Found at i:10217210 original size:104 final size:104
Alignment explanation
Indices: 10217028--10217380 Score: 429
Period size: 104 Copynumber: 3.4 Consensus size: 104
10217018 TTCTAGATTT
* * * * *
10217028 AAAAGATGGTTTTCTTCCTTTCATGTTCGATTTGCACCTATTAGTGTCAAAAAGAAGGTGGCTTT
1 AAAAGATGGCTTTCTTCCTTTCATGTTCGATTTACACCTGTTAGTGTAAAAAAAAAGGTGGCTTT
* * * *
10217093 TTTCATTTCATGATTGGTTTGCACTTGTTAAAGTAAACA
66 CTTCCTTTCATGATTGGTTTGCACTTGTTAGAGTAAAAA
* ** * *
10217132 AGAAGATGGCTTTCTTTTTTTCATGTTCGGTTTACACCTGTTAGTGTAAAAACAAAGGTGGCTTT
1 AAAAGATGGCTTTCTTCCTTTCATGTTCGATTTACACCTGTTAGTGTAAAAAAAAAGGTGGCTTT
* *
10217197 CTTCCTTTCATGATTGGTTTACACCTGTTAGAGTAAAAA
66 CTTCCTTTCATGATTGGTTTGCACTTGTTAGAGTAAAAA
* * ** * * *
10217236 AAAAAATGGTTTTCTTTATTTCATGTTCGATTTGCACCTGTTAGCGTAAAAAAAAAAGGTCGCTT
1 AAAAGATGGCTTTCTTCCTTTCATGTTCGATTTACACCTGTTAGTGT-AAAAAAAAAGGTGGCTT
* * *
10217301 TCTTTCTTTCATGATTGGTTTGTACTTATTAGAGTAAAAA
65 TCTTCCTTTCATGATTGGTTTGCACTTGTTAGAGTAAAAA
*
10217341 AAAAGGATGGCTTTCCTCCTTTCATGTTC-AGTTTACACCT
1 AAAA-GATGGCTTTCTTCCTTTCATGTTCGA-TTTACACCT
10217381 AGTAATGCTA
Statistics
Matches: 210, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
104 128 0.61
105 55 0.26
106 27 0.13
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (104 bp):
AAAAGATGGCTTTCTTCCTTTCATGTTCGATTTACACCTGTTAGTGTAAAAAAAAAGGTGGCTTT
CTTCCTTTCATGATTGGTTTGCACTTGTTAGAGTAAAAA
Found at i:10217311 original size:53 final size:52
Alignment explanation
Indices: 10217028--10217380 Score: 327
Period size: 52 Copynumber: 6.8 Consensus size: 52
10217018 TTCTAGATTT
* * * * * * *
10217028 AAAAGATGGTTTTCTTCCTTTCATGTTCGATTTGCACCTATTAGTGTCAAAA
1 AAAAGGTGGCTTTCTTTCTTTCATGTTCGGTTTGCACCTGTTAGAGTAAAAA
* * * *
10217080 AGAAGGTGGCTTT-TTTCATTTCATGATT-GGTTTGCACTTGTTAAAGTAAACA
1 AAAAGGTGGCTTTCTTTC-TTTCATG-TTCGGTTTGCACCTGTTAGAGTAAAAA
* * * * *
10217132 AGAAGATGGCTTTCTTTTTTTCATGTTCGGTTTACACCTGTTAGTGTAAAAA
1 AAAAGGTGGCTTTCTTTCTTTCATGTTCGGTTTGCACCTGTTAGAGTAAAAA
* * *
10217184 CAAAGGTGGCTTTCTTCCTTTCATGATT-GGTTTACACCTGTTAGAGTAAAAA
1 AAAAGGTGGCTTTCTTTCTTTCATG-TTCGGTTTGCACCTGTTAGAGTAAAAA
** * * * *
10217236 AAAAAATGGTTTTCTTTATTTCATGTTCGATTTGCACCTGTTAGCGTAAAAAA
1 AAAAGGTGGCTTTCTTTCTTTCATGTTCGGTTTGCACCTGTTAGAGT-AAAAA
* * * *
10217289 AAAAGGTCGCTTTCTTTCTTTCATGATT-GGTTTGTACTTATTAGAGTAAAAA
1 AAAAGGTGGCTTTCTTTCTTTCATG-TTCGGTTTGCACCTGTTAGAGTAAAAA
* * * *
10217341 AAAAGGATGGCTTTCCTCCTTTCATGTTCAGTTTACACCT
1 AAAAGG-TGGCTTTCTTTCTTTCATGTTCGGTTTGCACCT
10217381 AGTAATGCTA
Statistics
Matches: 241, Mismatches: 50, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
51 7 0.03
52 163 0.68
53 69 0.29
54 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (52 bp):
AAAAGGTGGCTTTCTTTCTTTCATGTTCGGTTTGCACCTGTTAGAGTAAAAA
Found at i:10217576 original size:52 final size:52
Alignment explanation
Indices: 10217467--10217566 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 52
10217457 ATTAGTGTAA
*
10217467 AAAAAAGAATGTGGCTTTCTTCCTTTCACGATCTATTTGCACTTGTTAGAGT
1 AAAAAAGAATGTGGCTTTCTTCCTTTCACGATCTATTTGCACCTGTTAGAGT
* *
10217519 AAAAAAGAA-GATGGCTTTCTTCCTTTCAC-ATTTGGTTTGCACCTGTTA
1 AAAAAAGAATG-TGGCTTTCTTCCTTTCACGATCT-ATTTGCACCTGTTA
10217567 ATGTTAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 4 0.09
52 39 0.91
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (52 bp):
AAAAAAGAATGTGGCTTTCTTCCTTTCACGATCTATTTGCACCTGTTAGAGT
Found at i:10219700 original size:13 final size:13
Alignment explanation
Indices: 10219667--10219709 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10219657 CAAGGGACTG
10219667 TGGTTTTTTGTTTCT
1 TGGTTTTTT-TTT-T
*
10219682 TTGTTTTTTTTTT
1 TGGTTTTTTTTTT
*
10219695 TGGTTTTTCTTTT
1 TGGTTTTTTTTTT
10219708 TG
1 TG
10219710 ATAGGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 3 0.12
15 8 0.32
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.79
Consensus pattern (13 bp):
TGGTTTTTTTTTT
Found at i:10219958 original size:15 final size:16
Alignment explanation
Indices: 10219930--10219963 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10219920 AACTACCAGA
10219930 AAAAGGAAAAAAAAAT
1 AAAAGGAAAAAAAAAT
*
10219946 AAAA-GAAAGAAAAAT
1 AAAAGGAAAAAAAAAT
10219961 AAA
1 AAA
10219964 TAAATGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAGGAAAAAAAAAT
Found at i:10220348 original size:98 final size:97
Alignment explanation
Indices: 10220211--10220435 Score: 342
Period size: 98 Copynumber: 2.3 Consensus size: 97
10220201 TGAATGATCC
* * * *
10220211 TCTAAGCAGAGGTTCAACAACTTTAAAGAATCATCTTGGAAAAAGCTCTTTTAAGCAGAAACTAA
1 TCTAAGCAAAGGCTCCACAACTTTAAA-AATCATCTTGGAAAAAGCTCATTTAAGCAGAAACTAA
* *
10220276 ACAACTTTAAAAATTCATTTTGGAAAAAGCTCT
65 ACAACTTTAAAAATTCATCTTGAAAAAAGCTCT
* * **
10220309 TCTAAGCAAAGGCTCCATAACTTTAAAAATTCATCTTGGAAAAAGCTCATTTAAGCAGAGACTTC
1 TCTAAGCAAAGGCTCCACAACTTTAAAAA-TCATCTTGGAAAAAGCTCATTTAAGCAGAAACTAA
10220374 ACAACTTTAAAAATTCATCTTGAAAAAAGCTCT
65 ACAACTTTAAAAATTCATCTTGAAAAAAGCTCT
10220407 TCTAAGCAAAGGCTCCACAACTTTAAAAA
1 TCTAAGCAAAGGCTCCACAACTTTAAAAA
10220436 AAATCATCGT
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
97 2 0.02
98 113 0.98
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (97 bp):
TCTAAGCAAAGGCTCCACAACTTTAAAAATCATCTTGGAAAAAGCTCATTTAAGCAGAAACTAAA
CAACTTTAAAAATTCATCTTGAAAAAAGCTCT
Found at i:10220426 original size:49 final size:49
Alignment explanation
Indices: 10220211--10220435 Score: 285
Period size: 49 Copynumber: 4.6 Consensus size: 49
10220201 TGAATGATCC
* * *
10220211 TCTAAGCAGAGGTTCAACAACTTTAAAGAA-TCATCTTGGAAAAAGCTCT
1 TCTAAGCAAAGGCTCCACAACTTTAAA-AATTCATCTTGGAAAAAGCTCT
* * ** *
10220260 TTTAAGCAGAA-ACTAAACAACTTTAAAAATTCATTTTGGAAAAAGCTCT
1 TCTAAGCA-AAGGCTCCACAACTTTAAAAATTCATCTTGGAAAAAGCTCT
*
10220309 TCTAAGCAAAGGCTCCATAACTTTAAAAATTCATCTTGGAAAAAGCTCAT
1 TCTAAGCAAAGGCTCCACAACTTTAAAAATTCATCTTGGAAAAAGCTC-T
* * * *
10220359 T-TAAGCAGAGACTTCACAACTTTAAAAATTCATCTTGAAAAAAGCTCT
1 TCTAAGCAAAGGCTCCACAACTTTAAAAATTCATCTTGGAAAAAGCTCT
10220407 TCTAAGCAAAGGCTCCACAACTTTAAAAA
1 TCTAAGCAAAGGCTCCACAACTTTAAAAA
10220436 AAATCATCGT
Statistics
Matches: 151, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
48 6 0.04
49 142 0.94
50 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (49 bp):
TCTAAGCAAAGGCTCCACAACTTTAAAAATTCATCTTGGAAAAAGCTCT
Found at i:10230923 original size:5 final size:5
Alignment explanation
Indices: 10230915--10230945 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
10230905 TGTTTTAAGA
*
10230915 TTTTT TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG T
10230946 ATTCTTACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:10230933 original size:15 final size:15
Alignment explanation
Indices: 10230898--10230945 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
10230888 AAAAAAGGTC
10230898 TTTTTTTTGTTTTAAGAT
1 TTTTTTTTGTTTT--G-T
10230916 TTTTTTTTGTTTTGT
1 TTTTTTTTGTTTTGT
*
10230931 TTTGTTTTGTTTTGT
1 TTTTTTTTGTTTTGT
10230946 ATTCTTACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 15 0.52
16 1 0.03
18 13 0.45
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (15 bp):
TTTTTTTTGTTTTGT
Found at i:10232549 original size:18 final size:18
Alignment explanation
Indices: 10232528--10232570 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10232518 TTTATTTTAT
*
10232528 TTATTTTTTTTGCA-TTTG
1 TTATTTTTTTT-AAGTTTG
*
10232546 TTATTATTTTTAAGTTTG
1 TTATTTTTTTTAAGTTTG
10232564 TTATTTT
1 TTATTTT
10232571 ATTAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.72
Consensus pattern (18 bp):
TTATTTTTTTTAAGTTTG
Found at i:10233884 original size:13 final size:13
Alignment explanation
Indices: 10233866--10233890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10233856 TTTATCATAT
10233866 GCTTATGGGTATG
1 GCTTATGGGTATG
10233879 GCTTATGGGTAT
1 GCTTATGGGTAT
10233891 TATCGGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (13 bp):
GCTTATGGGTATG
Found at i:10235696 original size:61 final size:60
Alignment explanation
Indices: 10235544--10235750 Score: 182
Period size: 61 Copynumber: 3.3 Consensus size: 60
10235534 TTCATTAAGG
* * * * *
10235544 GGATTATTGAAGGTGTTTTTCGCTAAAAACACCTTTAATAATCTCCTAAACAAAATTTGGAAG
1 GGATTATTGAAGGT-ATTTTCGGTAAAAAAACCTTTAATAATC-CCTATA-AAAATTTGGAAA
* * * * *
10235607 GGATTATTAAAGGCATTTTTGGTAAAAAAAACCTTCAATAATCCCTTTAAAAATTTGGAAA
1 GGATTATTGAAGGTATTTTCGGT-AAAAAAACCTTTAATAATCCCTATAAAAATTTGGAAA
* ** * *
10235668 GGATTGTTGAAGGTATTTTCGGTCAAAAATGCCTTTAATAATCTCTCATAAAAATTTAGTG-AG
1 GGATTATTGAAGGTATTTTCGGT-AAAAAAACCTTTAATAATCCCT-ATAAAAATTT-G-GAAA
*
10235731 GGAATTATTGAAGGCATTTT
1 GG-ATTATTGAAGGTATTTT
10235751 TGGCCAGAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
61 48 0.41
62 19 0.16
63 33 0.28
64 16 0.14
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (60 bp):
GGATTATTGAAGGTATTTTCGGTAAAAAAACCTTTAATAATCCCTATAAAAATTTGGAAA
Found at i:10235762 original size:64 final size:62
Alignment explanation
Indices: 10235504--10235766 Score: 203
Period size: 64 Copynumber: 4.2 Consensus size: 62
10235494 AATTTTCGCA
* * ** *
10235504 AAAAATACCTTTAATAATC-CTTCATAACAATTCAT-TAAGGGGATTATTGAAGGTGTTTTTCGC
1 AAAAATACCTTTAATAATCTC-TCATAAAAATT--TGGAA-GGGATTATTGAAGGCATTTTTGGC
*
10235567 T
62 C
* * * **
10235568 AAAAACACCTTTAATAATCTC-CTAAACAAAATTTGGAAGGGATTATTAAAGGCATTTTTGGTA
1 AAAAATACCTTTAATAATCTCTC-ATA-AAAATTTGGAAGGGATTATTGAAGGCATTTTTGGCC
* * * * * * * * *
10235631 AAAAAAACCTTCAATAATCCCT-TTAAAAATTTGGAAAGGATTGTTGAAGGTATTTTCGGTC
1 AAAAATACCTTTAATAATCTCTCATAAAAATTTGGAAGGGATTATTGAAGGCATTTTTGGCC
*
10235692 AAAAATGCCTTTAATAATCTCTCATAAAAATTTAGTG-AGGGAATTATTGAAGGCATTTTTGGCC
1 AAAAATACCTTTAATAATCTCTCATAAAAATTT-G-GAAGGG-ATTATTGAAGGCATTTTTGGCC
* *
10235756 AGAAATGCCTT
1 AAAAATACCTT
10235767 GATTAACCCC
Statistics
Matches: 158, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
61 48 0.30
62 10 0.06
63 43 0.27
64 51 0.32
65 6 0.04
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (62 bp):
AAAAATACCTTTAATAATCTCTCATAAAAATTTGGAAGGGATTATTGAAGGCATTTTTGGCC
Found at i:10241315 original size:202 final size:200
Alignment explanation
Indices: 10241048--10241770 Score: 735
Period size: 203 Copynumber: 3.6 Consensus size: 200
10241038 TTTTTTTTTT
* *
10241048 TTTTTGTGATGTTAATTTTCATCAGCTATTTATCAAA-AAAAA-GTCATTGAAGGCTATATTCAT
1 TTTTTGTGATGTTAATTTTCGTCAGCTATTTAT-AAAGAAAAACGTCATT-AAGGCTATAATCAT
* * * *
10241111 CACAAAA-AAATGAGAAAATCTAATATATTAGTGACGAAAGGTAAATTGTCATAGTATTAGTGAC
64 CACAAAATAAATGATAAAATCTGATATATTAGTGACGAAAGGTAAATCGTCATA-TATTGGTGAC
* * * **
10241175 AAAATTATCATCACTAATGATTATAAAATAATATC-TACTGTGACAATAAAATCAAGTGTCACCT
128 AAAATTATCGTCACTAATGATTATAAGATAATATCAAAC-GTGACAATAAAATCAAGCATCACCT
10241239 TATGCATTAA
192 TATGC-TTAA
** * * *
10241249 TTTTTGTGGCGTTAGTTTTCGTCAGCTATTTATAAAGAAAAACATTATTAAAGGCTATAATCATC
1 TTTTTGTGATGTTAATTTTCGTCAGCTATTTATAAAGAAAAACGTCATT-AAGGCTATAATCATC
* ** *
10241314 ACAAAATAAATGATAAAATCTGATATATTAGTGAC-AATAGGTAAGTCACCACAATATTGGTGAC
65 ACAAAATAAATGATAAAATCTGATATATTAGTGACGAA-AGGTAAATCGTCA-TATATTGGTGAC
* * * *
10241378 ACAATTATCGTCA-TGAATGATTATAAGATAATGTCAAACGTGACAATAAAATCAAACATTACCT
128 AAAATTATCGTCACT-AATGATTATAAGATAATATCAAACGTGACAATAAAATCAAGCATCACCT
**
10241442 TATGCTTTT
192 TATGCTTAA
* * * * **
10241451 TTTTATATGATGTTAATTTTCGTCAACTATTTATAAAGAAAAACGTCATTGATGCTTATAATTGT
1 TTTT-TGTGATGTTAATTTTCGTCAGCTATTTATAAAGAAAAACGTCATTAAGGC-TATAATCAT
* * * *
10241516 CACAAAATAAATGATAAAATTTGATATATTAATGATGAAAGGTAAATCGTCATATATTGGT-AAA
64 CACAAAATAAATGATAAAATCTGATATATTAGTGACGAAAGGTAAATCGTCATATATTGGTGACA
* * * *
10241580 ATAATTATCGTCACAAATGGTTATAAGATAACATCAAACGTGACAATAAAATCAAGCATCACATT
129 A-AATTATCGTCACTAATGATTATAAGATAATATCAAACGTGACAATAAAATCAAGCATCACCTT
**
10241645 ATGCTTTTTTTTTTTT
193 ATGC--------TTAA
** * * * *
10241661 TTTTTGTGATGTTAGCTTTCATTAGCTATTTAT-GA-AAAAATGTCATTGAAGGCTATAATCATC
1 TTTTTGTGATGTTAATTTTCGTCAGCTATTTATAAAGAAAAACGTCATT-AAGGCTATAATCATC
* * *
10241724 ACAAAATAAATGATTAAATCTGATATATTAGTGATGAAAGATAAATC
65 ACAAAATAAATGATAAAATCTGATATATTAGTGACGAAAGGTAAATC
10241771 ATCACAAAAT
Statistics
Matches: 431, Mismatches: 70, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
200 3 0.01
201 36 0.08
202 103 0.24
203 187 0.43
204 5 0.01
207 62 0.14
208 4 0.01
209 23 0.05
210 8 0.02
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (200 bp):
TTTTTGTGATGTTAATTTTCGTCAGCTATTTATAAAGAAAAACGTCATTAAGGCTATAATCATCA
CAAAATAAATGATAAAATCTGATATATTAGTGACGAAAGGTAAATCGTCATATATTGGTGACAAA
ATTATCGTCACTAATGATTATAAGATAATATCAAACGTGACAATAAAATCAAGCATCACCTTATG
CTTAA
Found at i:10243198 original size:94 final size:92
Alignment explanation
Indices: 10243080--10243261 Score: 328
Period size: 94 Copynumber: 2.0 Consensus size: 92
10243070 ACATAAAATG
10243080 GAATGGACATGAAAGAGATAATTACTAGAAATCATGTGAAAAAGTCATGGGGAACCTTTCTTTGG
1 GAATGGACATGAAAGAGATAATTACTAGAAATCATGTGAAAAAGTCATGGGGAACCTTTCTTTGG
10243145 CTACATAGTTTTATATAAAACCTCTAC
66 CTACATAGTTTTATATAAAACCTCTAC
*
10243172 GAATGGACATATGAAAGAGATCATTACTAGAAATCATGTGAAAAAGTCATGGGGAACCTTTCTTT
1 GAATGGAC--ATGAAAGAGATAATTACTAGAAATCATGTGAAAAAGTCATGGGGAACCTTTCTTT
*
10243237 GGCTACATAGTTTTGTATAAAACCT
64 GGCTACATAGTTTTATATAAAACCT
10243262 TTACTCAACT
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
92 8 0.09
94 78 0.91
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (92 bp):
GAATGGACATGAAAGAGATAATTACTAGAAATCATGTGAAAAAGTCATGGGGAACCTTTCTTTGG
CTACATAGTTTTATATAAAACCTCTAC
Found at i:10246474 original size:237 final size:236
Alignment explanation
Indices: 10246031--10247039 Score: 991
Period size: 237 Copynumber: 4.3 Consensus size: 236
10246021 AATTTATTAG
* *
10246031 AAAAAATTCATCATAGATAAAATTTTAAATTGGTGACAAAATTATAATGTCACCTAAAAT--AAA
1 AAAAAATTCATCACAGATAAAATTTTAAATTGGTGACAAAATTATAAAGTCACCTAAAATAAAAA
* * **
10246094 AAATGTCATAAAACATTTTGCACCAAATAAAATT-GTTGTAAAAGTTTGTGACATTTATATTATC
66 AAATGTCATAAAAAATTTTTCACCAAATAAAATTGGCAGTAAAAGTTTGTGACATTTATATTATC
* * * * ** * * *
10246158 ATTATATAACATCA-AACATTAATGTGATGAAATTATAATATCATTAATAATTAATTAAAGTGTT
131 ATCATATAACACCATAA-ATTAATATGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTGTT
** *
10246222 CAATTTGTGACAAAAATTAATAACGTTACCTAAAACCTATCA
195 CAATTTGTGACAAAAATTAATAATATCACCTAAAACCTATCA
** * * * * *
10246264 AAAAAGATTTGTCACAAATAAAAATTTAAATTGGTGACAAAATTATAAGGTCACATAAGATAAAA
1 AAAAA-ATTCATCACAGATAAAATTTTAAATTGGTGACAAAATTATAAAGTCACCTAAAATAAAA
* * * * * *
10246329 AAAATGTCATAAAAAATTTTTCATCAAATAAATTTGGCAGTAAAAATTTATGACATTTATGTTGT
65 AAAATGTCATAAAAAATTTTTCACCAAATAAAATTGGCAGTAAAAGTTTGTGACATTTATATTAT
** * * *
10246394 TGTCATATAACACCATAAATTGACATGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTATT
130 CATCATATAACACCATAAATTAATATGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTGTT
* *
10246459 CAATCTGTAACAAAAATTAATAATATCACCTAAAACCTATCA
195 CAATTTGTGACAAAAATTAATAATATCACCTAAAACCTATCA
* * * * * * *
10246501 GAAAACATTCATCATAGATAAAATTTTAAATTAGTGACACATTTATAACATTC-CTTAAAATAAA
1 -AAAAAATTCATCACAGATAAAATTTTAAATTGGTGACAAAATTATAA-AGTCACCTAAAATAAA
* * * * *
10246565 AAAAA-GTCATAAAAAAATTTTTCACCGAATAAAATCGACAATAAAAGTTTGTGACATTTATGTT
64 AAAAATGTCAT-AAAAAATTTTTCACCAAATAAAATTGGCAGTAAAAGTTTGTGACATTTATATT
* * * * * *
10246629 ATCATCATATAATACCATAAAATAAAAGGTGACAAAATTGTAGTGTCATTAATAGTTAACTAAAG
128 ATCATCATATAACACCATAAATTAATA--TGACGAAATTGCAATGTCATTAATAGTTAACTAAAG
* * * * *
10246694 TGTT-ACATTTATGACAAAAATTGATAATGTCACCTCTAAA-CT-GCTA
191 TGTTCA-ATTTGTGACAAAAATTAATAATATCACCT-AAAACCTATC-A
* * ** * * *
10246740 GAAAAATTCATCATAGATAAAATTTTAAATTAATAAC-AAATTTTAAACATCACCTAAAATAAAA
1 AAAAAATTCATCACAGATAAAATTTTAAATTGGTGACAAAATTATAAA-GTCACCTAAAATAAAA
** ** * *
10246804 AAAATCACA-AAAAAAAATTTCACCAAATAAATTTAG-AGGTAAAAGTTTGTGACATTTATATTA
65 AAAATGTCATAAAAAATTTTTCACCAAATAAAATTGGCA-GTAAAAGTTTGTGACATTTATATTA
* * * * * *
10246867 TCGTCATATAACAACATACATTGATGTGACGAAATTGCAATGTCATTAATAGTTAATTAAAGTGT
129 TCATCATATAACACCATAAATTAATATGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTGT
* ** *
10246932 TCGATTTGTGGTAAAAATTAATAATATCACCTAAAATCTATCA
194 TCAATTTGTGACAAAAATTAATAATATCACCTAAAACCTATCA
* ** * * **
10246975 AAAAATTTTGTCACAGATAAAATTTTAAATTGATGATAAAATTATAACA-TTGCCTAAAATAAAA
1 AAAAAATTCATCACAGATAAAATTTTAAATTGGTGACAAAATTATAA-AGTCACCTAAAATAAAA
10247039 A
65 A
10247040 TCACAAATAT
Statistics
Matches: 627, Mismatches: 127, Indels: 42
0.79 0.16 0.05
Matches are distributed among these distances:
233 5 0.01
234 50 0.08
235 106 0.17
236 49 0.08
237 291 0.46
238 58 0.09
239 65 0.10
240 3 0.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (236 bp):
AAAAAATTCATCACAGATAAAATTTTAAATTGGTGACAAAATTATAAAGTCACCTAAAATAAAAA
AAATGTCATAAAAAATTTTTCACCAAATAAAATTGGCAGTAAAAGTTTGTGACATTTATATTATC
ATCATATAACACCATAAATTAATATGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTGTTC
AATTTGTGACAAAAATTAATAATATCACCTAAAACCTATCA
Found at i:10246920 original size:474 final size:469
Alignment explanation
Indices: 10246032--10247039 Score: 1134
Period size: 474 Copynumber: 2.1 Consensus size: 469
10246022 ATTTATTAGA
** *
10246032 AAAAATTCATCATAGATAAAATTTTAAATTGGTGACAAAATTATAATGTCACCTAAAAT-AAAAA
1 AAAAATTCATCATAGATAAAATTTTAAATT-GTGACAAAATTATAACAT-TCCTAAAATAAAAAA
* * * *** *
10246096 ATGTCATAAAACATTTTGCACCAAATAAAATTGTTGTAAAAGTTTGTGACATTTATATTATCATT
64 AAGTCATAAAAAATTTTGCACCAAATAAAATCGCAATAAAAGTTTGTGACATTTATATTATCATC
* * * * ** *
10246161 ATATAACATCAAACATTAATGTGATGAAATTATAATATCATTAATAATTAATTAAAGTGTTCAAT
129 ATATAACACCAAAAATAAAGGTGACAAAATTATAATATCATTAATAATTAACTAAAGTGTTCAAT
* * **
10246226 TTGTGACAAAAATTAATAACGTTACCTAAAACCTATCAAAAAAGATTTGTCACAAATAAAAATTT
194 TTATGACAAAAATTAATAACGTCACCTAAAACCTATCAAAAAAGATTCATCACAAATAAAAATTT
** * ** * ** ** *
10246291 AAATTGGTGACAAAATTATAAGGTCACATAAGATAAAAAAAATGTCATAAAAAATTTTTCATCAA
259 AAATTAATAACAAAATTATAACATCACATAAAATAAAAAAAATCACATAAAAAAAATTTCACCAA
* * * * *
10246356 ATAAATTTGGCAGTAAAAATTTATGACATTTATGTTGTTGTCATATAACACCATAAATTGACATG
324 ATAAATTTAGCAGTAAAAATTTATGACATTTATATTATCGTCATATAACAACATAAATTGACATG
10246421 ACGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATCTGTAACAAAAATTAATAATATC
389 ACGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATCTGTAACAAAAATTAATAATATC
10246486 ACCTAAAACCTATCAG
454 ACCTAAAACCTATCAG
* *
10246502 AAAACATTCATCATAGATAAAATTTTAAATTAGTGACACATTTATAACATTCCTTAAAATAAAAA
1 AAAA-ATTCATCATAGATAAAATTTTAAATT-GTGACAAAATTATAACATTCC-TAAAATAAAAA
* * *
10246567 AAAGTCATAAAAAAATTTTTCACCGAATAAAATCGACAATAAAAGTTTGTGACATTTATGTTATC
63 AAAGTCAT-AAAAAATTTTGCACCAAATAAAATCG-CAATAAAAGTTTGTGACATTTATATTATC
* * * * *
10246632 ATCATATAATACCATAAAATAAAAGGTGACAAAATTGTAGTGTCATTAATAGTTAACTAAAGTGT
126 ATCATATAACACCA-AAAAT-AAAGGTGACAAAATTATAATATCATTAATAATTAACTAAAGTGT
* * * * * * *
10246697 T-ACATTTATGACAAAAATTGATAATGTCACCTCTAAA-CT-GCTAGAAAA-ATTCATCATAGAT
189 TCA-ATTTATGACAAAAATTAATAACGTCACCT-AAAACCTATC-AAAAAAGATTCATCACAAAT
* * *
10246758 AAAATTTTAAATTAATAAC-AAATTTTAAACATCACCTAAAATAAAAAAAATCACA-AAAAAAAA
251 AAAAATTTAAATTAATAACAAAATTAT-AACATCACATAAAATAAAAAAAATCACATAAAAAAAA
* *
10246821 TTTCACCAAATAAATTTAG-AGGTAAAAGTTTGTGACATTTATATTATCGTCATATAACAACATA
315 TTTCACCAAATAAATTTAGCA-GTAAAAATTTATGACATTTATATTATCGTCATATAACAACATA
* ** * * * * ***
10246885 CATTGATGTGACGAAATTGCAATGTCATTAATAGTTAATTAAAGTGTTCGATTTGTGGTAAAAAT
379 AATTGACATGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATCTGTAACAAAAAT
*
10246950 TAATAATATCACCTAAAATCTATCA-
444 TAATAATATCACCTAAAACCTATCAG
** * *
10246975 AAAAATTTTGTCACAGATAAAATTTTAAATTGATGATAAAATTATAACATTGCCTAAAATAAAAA
1 AAAAA-TTCATCATAGATAAAATTTTAAATTG-TGACAAAATTATAACATT-CCTAAAATAAAAA
10247040 TCACAAATAT
Statistics
Matches: 446, Mismatches: 77, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
470 6 0.01
471 46 0.10
472 13 0.03
473 75 0.17
474 183 0.41
475 52 0.12
476 68 0.15
477 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (469 bp):
AAAAATTCATCATAGATAAAATTTTAAATTGTGACAAAATTATAACATTCCTAAAATAAAAAAAA
GTCATAAAAAATTTTGCACCAAATAAAATCGCAATAAAAGTTTGTGACATTTATATTATCATCAT
ATAACACCAAAAATAAAGGTGACAAAATTATAATATCATTAATAATTAACTAAAGTGTTCAATTT
ATGACAAAAATTAATAACGTCACCTAAAACCTATCAAAAAAGATTCATCACAAATAAAAATTTAA
ATTAATAACAAAATTATAACATCACATAAAATAAAAAAAATCACATAAAAAAAATTTCACCAAAT
AAATTTAGCAGTAAAAATTTATGACATTTATATTATCGTCATATAACAACATAAATTGACATGAC
GAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATCTGTAACAAAAATTAATAATATCAC
CTAAAACCTATCAG
Found at i:10248204 original size:3 final size:3
Alignment explanation
Indices: 10248198--10248249 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
10248188 AAAGAAGAAA
* * *
10248198 ATG ATG ATG GTG ATG AAG ATG ATG ATA ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
10248246 ATG A
1 ATG A
10248250 AACATATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:10249133 original size:19 final size:21
Alignment explanation
Indices: 10249109--10249150 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
10249099 TTTTGATTTT
10249109 TTTATTATT-AGAAAAA-AAA
1 TTTATTATTGAGAAAAATAAA
*
10249128 TTTATTCTTGAGAAAAATAAA
1 TTTATTATTGAGAAAAATAAA
10249149 TT
1 TT
10249151 AAAACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTATTATTGAGAAAAATAAA
Found at i:10250963 original size:4 final size:4
Alignment explanation
Indices: 10250949--10250978 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
10250939 CCATTTTTTA
10250949 TGTT CTGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT -TGTT TGTT TGTT TGTT TGTT TGTT T
10250979 TCGATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.00, C:0.03, G:0.23, T:0.73
Consensus pattern (4 bp):
TGTT
Found at i:10251026 original size:20 final size:18
Alignment explanation
Indices: 10250976--10251013 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10250966 TGTTTGTTTG
*
10250976 TTTTCGATATTTTATATT
1 TTTTTGATATTTTATATT
*
10250994 TTTTTGATATTTTGTATT
1 TTTTTGATATTTTATATT
10251012 TT
1 TT
10251014 GTATTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTTTGATATTTTATATT
Done.