Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 117 of 133
Found at i:22545894 original size:13 final size:14
Alignment explanation
Indices: 22545876--22545904 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22545866 AGCCACATTC
22545876 ATCTTTTTTTT-TT
1 ATCTTTTTTTTGTT
22545889 ATCTTTTTTTTGTT
1 ATCTTTTTTTTGTT
22545903 AT
1 AT
22545905 TACACCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.79
Consensus pattern (14 bp):
ATCTTTTTTTTGTT
Found at i:22546511 original size:12 final size:11
Alignment explanation
Indices: 22546491--22546579 Score: 63
Period size: 11 Copynumber: 7.8 Consensus size: 11
22546481 GTCTCAAAGA
22546491 TTTTTTTTTCT
1 TTTTTTTTTCT
22546502 TTTTTATTTTCT
1 TTTTT-TTTTCT
22546514 TTTCATTTTTCTCT
1 TTT--TTTTT-TCT
** **
22546528 TCCTACTTTC-
1 TTTTTTTTTCT
*
22546538 TTTCTTTTTCT
1 TTTTTTTTTCT
*
22546549 TTTTTTTTCCT
1 TTTTTTTTTCT
**
22546560 TTTTTTTTAAT
1 TTTTTTTTTCT
22546571 TTTTTTTTT
1 TTTTTTTTT
22546580 TTGCATATGC
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
10 5 0.08
11 33 0.56
12 12 0.20
13 3 0.05
14 6 0.10
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:22546516 original size:17 final size:18
Alignment explanation
Indices: 22546490--22546523 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22546480 AGTCTCAAAG
*
22546490 ATTTTTTTTTC-TTTTTT
1 ATTTTCTTTTCATTTTTT
22546507 ATTTTCTTTTCATTTTT
1 ATTTTCTTTTCATTTTT
22546524 CTCTTCCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (18 bp):
ATTTTCTTTTCATTTTTT
Found at i:22549273 original size:30 final size:30
Alignment explanation
Indices: 22549239--22549307 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
22549229 TATTATTAAC
22549239 TTTAAGTAATAATTTAAAAGTCCTCTAATA
1 TTTAAGTAATAATTTAAAAGTCCTCTAATA
22549269 TTTAAG-AGATAATTTAAAAGTCCTCTAATA
1 TTTAAGTA-ATAATTTAAAAGTCCTCTAATA
*
22549299 TTTAGGTAA
1 TTTAAGTAA
22549308 AACTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 1 0.03
30 34 0.94
31 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (30 bp):
TTTAAGTAATAATTTAAAAGTCCTCTAATA
Found at i:22552436 original size:11 final size:10
Alignment explanation
Indices: 22552409--22552435 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22552399 TTAATAAAAT
22552409 AATTTTTAAA
1 AATTTTTAAA
22552419 AATTTTTAAA
1 AATTTTTAAA
22552429 AATTTTT
1 AATTTTT
22552436 TTTTACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:22552701 original size:27 final size:27
Alignment explanation
Indices: 22552671--22552729 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
22552661 ACGGTATCGT
*
22552671 TTTGGG-TCTTTATTAAAACGTCGTCGC
1 TTTGGGCT-TTTATTAAAACGACGTCGC
* *
22552698 TTTGGGCTTTTATTGAAACGACGTCGT
1 TTTGGGCTTTTATTAAAACGACGTCGC
22552725 TTTGG
1 TTTGG
22552730 TTTTGGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (27 bp):
TTTGGGCTTTTATTAAAACGACGTCGC
Found at i:22553084 original size:23 final size:22
Alignment explanation
Indices: 22553032--22553084 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
22553022 TGGCCAAAAA
* *
22553032 TTTTTTTTGTTGTGTTTTTGTG
1 TTTTTTTTGTTGTGTTATGGTG
22553054 TTTTTTTTGTTAGTGTTATGGT-
1 TTTTTTTTGTT-GTGTTATGGTG
22553076 TTTTGTTTT
1 TTTT-TTTT
22553085 CAGAGGCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.04, C:0.00, G:0.21, T:0.75
Consensus pattern (22 bp):
TTTTTTTTGTTGTGTTATGGTG
Found at i:22553298 original size:23 final size:23
Alignment explanation
Indices: 22553269--22553317 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
22553259 TTTATAGAGC
*
22553269 TTTTTGAGATTCAAATCTCAGAT
1 TTTTTGAGATTCAAATCCCAGAT
* *
22553292 TTTTTGAGATTCGAATCCCATAT
1 TTTTTGAGATTCAAATCCCAGAT
22553315 TTT
1 TTT
22553318 CAACCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (23 bp):
TTTTTGAGATTCAAATCCCAGAT
Found at i:22553486 original size:22 final size:20
Alignment explanation
Indices: 22553452--22553496 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
22553442 ATAAGGAAAG
22553452 AAAAAGAAAGAAAAAAAAGTA
1 AAAAAGAAAGAAAAAAAA-TA
* *
22553473 AAAAATAAACGAAAAATAATA
1 AAAAAGAAA-GAAAAAAAATA
22553494 AAA
1 AAA
22553497 TAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (20 bp):
AAAAAGAAAGAAAAAAAATA
Found at i:22553496 original size:9 final size:9
Alignment explanation
Indices: 22553484--22553551 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
22553474 AAAATAAACG
22553484 AAAAATAAT
1 AAAAATAAT
22553493 -AAAATAA-
1 AAAAATAAT
*
22553500 AATAATAAT
1 AAAAATAAT
*
22553509 AATAATAAT
1 AAAAATAAT
*
22553518 AATAATAAT
1 AAAAATAAT
*
22553527 AATAATAAT
1 AAAAATAAT
*
22553536 GACAAAAAAAT
1 -A-AAAATAAT
22553547 AAAAA
1 AAAAA
22553552 ATGATGTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
8 13 0.25
9 31 0.60
10 2 0.04
11 6 0.12
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (9 bp):
AAAAATAAT
Found at i:22553506 original size:3 final size:3
Alignment explanation
Indices: 22553487--22553535 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
22553477 ATAAACGAAA
22553487 AAT AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22553533 AAT
1 AAT
22553536 GACAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22558947 original size:44 final size:41
Alignment explanation
Indices: 22558914--22559023 Score: 109
Period size: 41 Copynumber: 2.6 Consensus size: 41
22558904 TATAATATTC
*
22558914 ATAAA-ATATTATTTTTAATATAATTATATTTTAATTATAT
1 ATAAATATAATATTTTTAATATAATTATATTTTAATTATAT
* *
22558954 ATAAATATAATATTTTTATTA-AATTATTATTTTAAATTAAAAT
1 ATAAATATAATATTTTTAATATAATTA-TATTTT-AATT-ATAT
*
22558997 ATTAAATA-ATTATTTTATTAATATAAT
1 A-TAAATATAATA-TTT-TTAATATAAT
22559024 ACTTATATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
40 10 0.18
41 19 0.33
42 4 0.07
43 7 0.12
44 9 0.16
45 5 0.09
46 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (41 bp):
ATAAATATAATATTTTTAATATAATTATATTTTAATTATAT
Found at i:22558952 original size:17 final size:15
Alignment explanation
Indices: 22558899--22558948 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
22558889 ATAATTTTAA
22558899 TTTAATATAA-TATT
1 TTTAATATAATTATT
** *
22558913 CATAAAAT-ATTATT
1 TTTAATATAATTATT
22558927 TTTAATATAATTATAT
1 TTTAATATAATTAT-T
22558943 TTTAAT
1 TTTAAT
22558949 TATATATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 1 0.04
14 14 0.52
15 5 0.19
16 7 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAATATAATTATT
Found at i:22559080 original size:59 final size:61
Alignment explanation
Indices: 22558948--22559082 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 61
22558938 TATATTTTAA
* * ** *
22558948 TTATATATAAATATAATATTTTTATTAAATTATTATTTTAAATTAAAATATTAAATAATTAT
1 TTATATAT-AATATAATACTTATATTAAATTATTAAATTAAATTAAAATACTAAATAATTAT
*
22559010 TT-TAT-TAATATAATACTTATATATAAA-TATTAAATTAAA-T-AAATACTAAAAATATTAT
1 TTATATATAATATAATACTTATAT-TAAATTATTAAATTAAATTAAAATACTAAATA-ATTAT
*
22559068 ATATATATATATATA
1 TTATATATA-ATATA
22559083 TATATTGAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
57 10 0.16
58 7 0.11
59 27 0.44
60 7 0.11
61 8 0.13
62 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (61 bp):
TTATATATAATATAATACTTATATTAAATTATTAAATTAAATTAAAATACTAAATAATTAT
Found at i:22559493 original size:17 final size:17
Alignment explanation
Indices: 22559471--22559507 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22559461 TATTTAGATA
* *
22559471 ATTTTTTATTAATATAT
1 ATTTTTTAATAAAATAT
22559488 ATTTTTTAATAAAATAT
1 ATTTTTTAATAAAATAT
22559505 ATT
1 ATT
22559508 AATTCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTAATAAAATAT
Found at i:22566497 original size:26 final size:26
Alignment explanation
Indices: 22566469--22566517 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
22566459 TAAAAAATAA
*
22566469 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
22566494 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
22566518 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:22569923 original size:27 final size:27
Alignment explanation
Indices: 22569884--22569935 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22569874 AGTCAACACC
*
22569884 AAGTCAGAGTGATGATGGTGGTGGTTT
1 AAGTCAGAGTGATGATGGTGATGGTTT
22569911 AAGTCCAGA-TGATGATGGTGATGGT
1 AAGT-CAGAGTGATGATGGTGATGGT
22569936 GCGAATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (27 bp):
AAGTCAGAGTGATGATGGTGATGGTTT
Found at i:22570305 original size:18 final size:18
Alignment explanation
Indices: 22570282--22570404 Score: 78
Period size: 18 Copynumber: 6.8 Consensus size: 18
22570272 GGTTATTATT
22570282 CACCTCAAATGTATCCTC
1 CACCTCAAATGTATCCTC
*
22570300 CACCTCTTCAAATATATCCTC
1 CA-C-C-TCAAATGTATCCTC
* *
22570321 TACCTCAAATGTATCAGT-
1 CACCTCAAATGTATC-CTC
* *
22570339 TACCACAAATGTA-CCTTC
1 CACCTCAAATGTATCC-TC
*
22570357 CACCAT-AAATGTATCAT-
1 CACC-TCAAATGTATCCTC
*
22570374 --CCTCAAATATATCCTC
1 CACCTCAAATGTATCCTC
*
22570390 CACCTTAAATGTATC
1 CACCTCAAATGTATC
22570405 AAGAACAAAG
Statistics
Matches: 80, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
14 1 0.01
15 11 0.14
17 2 0.03
18 46 0.57
19 4 0.05
20 2 0.03
21 14 0.17
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.31
Consensus pattern (18 bp):
CACCTCAAATGTATCCTC
Found at i:22570312 original size:21 final size:21
Alignment explanation
Indices: 22570286--22570326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22570276 ATTATTCACC
*
22570286 TCAAATGTATCCTCCACCTCT
1 TCAAATATATCCTCCACCTCT
*
22570307 TCAAATATATCCTCTACCTC
1 TCAAATATATCCTCCACCTC
22570327 AAATGTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.37, G:0.02, T:0.34
Consensus pattern (21 bp):
TCAAATATATCCTCCACCTCT
Found at i:22570392 original size:33 final size:34
Alignment explanation
Indices: 22570307--22570405 Score: 105
Period size: 33 Copynumber: 2.9 Consensus size: 34
22570297 CTCCACCTCT
*
22570307 TCAAATATATCCTCTACCTCAAATGTATCAGTTACC
1 TCAAATATATCCTCCACCT-AAATGTATCAG-TACC
* *
22570343 ACAAATGTA-CCTTCCACCATAAATGTATCA-T-CC
1 TCAAATATATCC-TCCACC-TAAATGTATCAGTACC
22570376 TCAAATATATCCTCCACCTTAAATGTATCA
1 TCAAATATATCCTCCACC-TAAATGTATCA
22570406 AGAACAAAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
33 26 0.48
34 3 0.06
35 2 0.04
36 22 0.41
37 1 0.02
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.31
Consensus pattern (34 bp):
TCAAATATATCCTCCACCTAAATGTATCAGTACC
Found at i:22570797 original size:6 final size:6
Alignment explanation
Indices: 22570786--22570813 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22570776 ATAAGATTTT
22570786 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
22570814 TACATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:22572277 original size:2 final size:2
Alignment explanation
Indices: 22572270--22572331 Score: 53
Period size: 2 Copynumber: 33.5 Consensus size: 2
22572260 AACAATTATT
* * *
22572270 TA TA TA TA TA TA TA TA TA TT TA TG TA TA TA T- TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22572311 -A T- TA TA T- TA AA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22572332 GTTCATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
1 5 0.11
2 42 0.89
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:22573554 original size:10 final size:10
Alignment explanation
Indices: 22573539--22573615 Score: 77
Period size: 10 Copynumber: 7.8 Consensus size: 10
22573529 TACATCAGCA
22573539 TTAAAAAATT
1 TTAAAAAATT
*
22573549 TTAAAAAACTC
1 TTAAAAAA-TT
*
22573560 TAAAAAAATT
1 TTAAAAAATT
22573570 TTAAAAAATT
1 TTAAAAAATT
22573580 TTAAAAAA-T
1 TTAAAAAATT
* * *
22573589 ATGAAATATT
1 TTAAAAAATT
22573599 TT-AAAAATT
1 TTAAAAAATT
*
22573608 ATAAAAAA
1 TTAAAAAA
22573616 ATAAAAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 13 0.24
10 33 0.61
11 8 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:22573567 original size:21 final size:21
Alignment explanation
Indices: 22573541--22573587 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
22573531 CATCAGCATT
22573541 AAAAAATTTTAAAAAACTCTA
1 AAAAAATTTTAAAAAACTCTA
* *
22573562 AAAAAATTTTAAAAAATTTTA
1 AAAAAATTTTAAAAAACTCTA
22573583 AAAAA
1 AAAAA
22573588 TATGAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATTTTAAAAAACTCTA
Found at i:22573575 original size:9 final size:9
Alignment explanation
Indices: 22573563--22573614 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
22573553 AAAACTCTAA
22573563 AAAAATTTT
1 AAAAATTTT
22573572 AAAAAATTTT
1 -AAAAATTTT
* *
22573582 AAAAAATATG
1 -AAAAATTTT
*
22573592 AAATATTTT
1 AAAAATTTT
*
22573601 AAAAATTAT
1 AAAAATTTT
22573610 AAAAA
1 AAAAA
22573615 AATAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
9 18 0.51
10 17 0.49
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:22573604 original size:40 final size:41
Alignment explanation
Indices: 22573560--22573644 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 41
22573550 TAAAAAACTC
* * **
22573560 TAAAAAAATTTTAAAAAATTTTAAAA-A-ATATGAAATATT
1 TAAAAAAATTATAAAAAAATAAAAAATATATATGAAATATT
*
22573599 T-TAAAAATTATAAAAAAATAAAAAATATATATGAAATATT
1 TAAAAAAATTATAAAAAAATAAAAAATATATATGAAATATT
22573639 TAAAAA
1 TAAAAA
22573645 TAAAAGAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
38 19 0.51
39 2 0.05
40 13 0.35
41 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (41 bp):
TAAAAAAATTATAAAAAAATAAAAAATATATATGAAATATT
Found at i:22573662 original size:19 final size:19
Alignment explanation
Indices: 22573539--22573662 Score: 76
Period size: 19 Copynumber: 6.4 Consensus size: 19
22573529 TACATCAGCA
* *
22573539 TTAAAAAATTTTAAAAAACTC
1 TTAAAAAA-TATAAAAAA-TT
* *
22573560 TAAAAAAATTTTAAAAAATT
1 TTAAAAAA-TATAAAAAATT
* *
22573580 TTAAAAAATATGAAATATT
1 TTAAAAAATATAAAAAATT
*
22573599 TTAAAAATTATAAAAAA--
1 TTAAAAAATATAAAAAATT
* *
22573616 ATAAAAAATATATATGAAATAT
1 TTAAAAAATATA-A-AAAAT-T
22573638 TT-AAAAATA-AAAGAAATT
1 TTAAAAAATATAAA-AAATT
22573656 TTAAAAA
1 TTAAAAA
22573663 TTCAAAAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
17 10 0.12
18 4 0.05
19 34 0.41
20 9 0.11
21 24 0.29
22 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TTAAAAAATATAAAAAATT
Found at i:22573663 original size:28 final size:27
Alignment explanation
Indices: 22573560--22573663 Score: 77
Period size: 29 Copynumber: 3.7 Consensus size: 27
22573550 TAAAAAACTC
22573560 TAAAAAAATTTTAAAAA-ATTTTAAAAAA
1 TAAAAAAATTTTAAAAATA-TTT-AAAAA
* * *
22573588 TATGAAATATTTTAAAAAT-TATAAAAA
1 TA-AAAAAATTTTAAAAATATTTAAAAA
* * *
22573615 AATAAAAAATATATATGAAATATTTAAAAA
1 TA-AAAAAAT-TTTA-AAAATATTTAAAAA
22573645 TAAAAGAAATTTTAAAAAT
1 TAAAA-AAATTTTAAAAAT
22573664 TCAAAAAAAG
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
27 12 0.21
28 11 0.19
29 23 0.40
30 12 0.21
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (27 bp):
TAAAAAAATTTTAAAAATATTTAAAAA
Found at i:22573689 original size:41 final size:41
Alignment explanation
Indices: 22573643--22573732 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
22573633 AATATTTAAA
*
22573643 AATAAAAGAAATTTTAAAAATTCA-AAAAA-AGAAAAATTTTT
1 AATAAAA-AAATTTTAAAAATTCATAAAAATACAAAAA-TTTT
* *
22573684 AAT-AAAAAATCTAAAAAATTCATTAAAAATACAAAAATTTT
1 AATAAAAAAATTTTAAAAATTCA-TAAAAATACAAAAATTTT
22573725 AATAAAAA
1 AATAAAAA
22573733 TAAATTTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
39 14 0.33
40 3 0.07
41 15 0.36
42 10 0.24
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (41 bp):
AATAAAAAAATTTTAAAAATTCATAAAAATACAAAAATTTT
Found at i:22573719 original size:20 final size:20
Alignment explanation
Indices: 22573658--22573734 Score: 52
Period size: 20 Copynumber: 3.9 Consensus size: 20
22573648 AAGAAATTTT
*
22573658 AAAAATTCAA-AAAAAGA-A
1 AAAAATTCAATAAAAATACA
** *
22573676 AAATTTTTAATAAAAA-ATCTA
1 AAAAATTCAATAAAAATA-C-A
*
22573697 AAAAATTCATTAAAAATACA
1 AAAAATTCAATAAAAATACA
* *
22573717 AAAATTTTAATAAAAATA
1 AAAAATTCAATAAAAATA
22573735 AATTTTTCTT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
18 8 0.18
19 5 0.11
20 16 0.36
21 14 0.32
22 1 0.02
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.27
Consensus pattern (20 bp):
AAAAATTCAATAAAAATACA
Found at i:22573980 original size:28 final size:28
Alignment explanation
Indices: 22573934--22574000 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
22573924 ATTAAATTAT
* *
22573934 TAATTTTTGAAAATGTTTT-ATTTTTTAA
1 TAATTTTTTAAAATATTTTAATTTTTT-A
*
22573962 TAATTTTTTAGAATATTTTAGATTTTTTA
1 TAATTTTTTAAAATATTTTA-ATTTTTTA
22573991 -AATTTTTTAA
1 TAATTTTTTAA
22574001 TTTTTTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 25 0.76
29 1 0.03
30 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (28 bp):
TAATTTTTTAAAATATTTTAATTTTTTA
Found at i:22573997 original size:10 final size:9
Alignment explanation
Indices: 22573953--22574035 Score: 64
Period size: 9 Copynumber: 9.0 Consensus size: 9
22573943 AAAATGTTTT
22573953 ATTTTTTAATA
1 ATTTTTT-A-A
22573964 ATTTTTTAGA
1 ATTTTTTA-A
* *
22573974 ATATTTTAG
1 ATTTTTTAA
22573983 ATTTTTTAA
1 ATTTTTTAA
22573992 ATTTTTT-A
1 ATTTTTTAA
22574000 ATTTTTTGAA
1 ATTTTTT-AA
* *
22574010 A-ATTTGAA
1 ATTTTTTAA
22574018 A-TTTTTAGA
1 ATTTTTTA-A
22574027 ATTTTTTAA
1 ATTTTTTAA
22574036 TAAAATTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
8 15 0.25
9 20 0.34
10 17 0.29
11 7 0.12
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:22574022 original size:35 final size:36
Alignment explanation
Indices: 22573962--22574036 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
22573952 TATTTTTTAA
* * *
22573962 TAATTTTTTAGAATATTTTAGATTTTTTA-AATTTTT
1 TAATTTTTTAGAAAATTTGA-AATTTTTAGAATTTTT
22573998 TAATTTTTT-GAAAATTTGAAATTTTTAGAATTTTT
1 TAATTTTTTAGAAAATTTGAAATTTTTAGAATTTTT
22574033 TAAT
1 TAAT
22574037 AAAATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 7 0.20
35 19 0.54
36 9 0.26
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (36 bp):
TAATTTTTTAGAAAATTTGAAATTTTTAGAATTTTT
Found at i:22574057 original size:17 final size:17
Alignment explanation
Indices: 22574031--22574067 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22574021 TTTAGAATTT
* *
22574031 TTTAATAAAATTTTATA
1 TTTAAAAAAATTTTAGA
22574048 TTTAAAAAAATTTTAGA
1 TTTAAAAAAATTTTAGA
22574065 TTT
1 TTT
22574068 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAAAAAATTTTAGA
Found at i:22574090 original size:33 final size:32
Alignment explanation
Indices: 22574039--22574145 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 32
22574029 TTTTTAATAA
* *
22574039 AATTTTATATTTAAAAAAATTTTAGATTTTTTT
1 AATTTTAAATTT-TAAAAATTTTAGATTTTTTT
** *
22574072 AATTTTCAAATTTTAAAAAAATTAGA-ATTTTT
1 AATTTT-AAATTTTAAAAATTTTAGATTTTTTT
* * **
22574104 AAGTTTTAATTTTTTAAGTTTTTATGATTTTTTT
1 AA-TTTTAAATTTTAAAAATTTTA-GATTTTTTT
22574138 AATTTTAA
1 AATTTTAA
22574146 GAATTTTTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
32 18 0.31
33 28 0.48
34 12 0.21
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (32 bp):
AATTTTAAATTTTAAAAATTTTAGATTTTTTT
Found at i:22574143 original size:17 final size:17
Alignment explanation
Indices: 22574099--22574162 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
22574089 AAAATTAGAA
*
22574099 TTTTTAAGTTT-T-AAT
1 TTTTTAATTTTATGAAT
*
22574114 TTTTTAAGTTTTTATGATT
1 TTTTTAA--TTTTATGAAT
*
22574133 TTTTTAATTTTAAGAAT
1 TTTTTAATTTTATGAAT
*
22574150 TTTTTATTTTTAT
1 TTTTTAATTTTAT
22574163 TAAAATTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 7 0.18
17 22 0.56
18 1 0.03
19 9 0.23
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTTAATTTTATGAAT
Found at i:22574178 original size:19 final size:20
Alignment explanation
Indices: 22574142--22574179 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
22574132 TTTTTTAATT
*
22574142 TTAAGAATTTTTTATTTTTA
1 TTAAGAATTTTCTATTTTTA
*
22574162 TTAA-AATTTTCTCTTTTT
1 TTAAGAATTTTCTATTTTT
22574180 TAATTTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTAAGAATTTTCTATTTTTA
Found at i:22574179 original size:43 final size:46
Alignment explanation
Indices: 22574132--22574219 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 46
22574122 TTTTTATGAT
22574132 TTTTTTAATTTTAAGAATTTTT-T-A-TTTTTATTAAAATTTTCTC
1 TTTTTTAATTTTAAGAATTTTTGTGATTTTTTATTAAAATTTTCTC
*
22574175 TTTTTTAATTTTTAGAATTTTTGTGGATTTTTTTATTAAAATTTT
1 TTTTTTAATTTTAAGAATTTTTGT-GA-TTTTTTATTAAAATTTT
22574220 AAGATTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 21 0.54
44 1 0.03
46 1 0.03
48 16 0.41
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (46 bp):
TTTTTTAATTTTAAGAATTTTTGTGATTTTTTATTAAAATTTTCTC
Found at i:22574228 original size:48 final size:43
Alignment explanation
Indices: 22574133--22574230 Score: 106
Period size: 48 Copynumber: 2.2 Consensus size: 43
22574123 TTTTATGATT
** *
22574133 TTTTTAATTTTAAGAATTTTTTATTTTTATTAAAATTTTCTCT
1 TTTTTAATTTTAAGAATTTTTTATTTTTATTAAAATTTTAACA
* *
22574176 TTTTTAATTTTTAGAATTTTTGTGGATTTTTTTATTAAAATTTTAAGA
1 TTTTTAATTTTAAGAATTTTT-T--A--TTTTTATTAAAATTTTAACA
22574224 TTTTTAA
1 TTTTTAA
22574231 AATTTTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 20 0.44
44 1 0.02
46 1 0.02
48 23 0.51
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (43 bp):
TTTTTAATTTTAAGAATTTTTTATTTTTATTAAAATTTTAACA
Found at i:22574296 original size:39 final size:36
Alignment explanation
Indices: 22574248--22574321 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
22574238 TAAGAGTTCA
22574248 TTTTTTATAATTTCTAAAAATATGTCATATATTTTTAT
1 TTTTTTATAATTT-TAAAAATATGTCA-ATATTTTTAT
* * *
22574286 TTTTGTTATAATTTTTAAAATATTTCAATTTTTTTA
1 TTTT-TTATAATTTTAAAAATATGTCAATATTTTTA
22574322 AAATTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 8 0.25
38 15 0.47
39 9 0.28
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTTTTATAATTTTAAAAATATGTCAATATTTTTAT
Found at i:22574333 original size:23 final size:24
Alignment explanation
Indices: 22574307--22574351 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
22574297 TTTTTAAAAT
22574307 ATTTCAATTTTTTT-AAAATTTGA
1 ATTTCAATTTTTTTGAAAATTTGA
**
22574330 ATTTTTATTTTTTTGAAAATTT
1 ATTTCAATTTTTTTGAAAATTT
22574352 TTTTTAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTCAATTTTTTTGAAAATTTGA
Found at i:22576380 original size:14 final size:15
Alignment explanation
Indices: 22576343--22576388 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
22576333 ATTTAAGAAA
*
22576343 TAATATTTAATAAATT
1 TAATATTT-ATAATTT
*
22576359 TGATATTTA-AATTT
1 TAATATTTATAATTT
22576373 TAATATTTATAATTT
1 TAATATTTATAATTT
22576388 T
1 T
22576389 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:22576407 original size:22 final size:23
Alignment explanation
Indices: 22576369--22576411 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
22576359 TGATATTTAA
22576369 ATTTTAATATTTATAATTTTTTT
1 ATTTTAATATTTATAATTTTTTT
*
22576392 ATTTTTATA-TTATAATTTTT
1 ATTTTAATATTTATAATTTTT
22576412 ATGTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTAATATTTATAATTTTTTT
Found at i:22578898 original size:15 final size:16
Alignment explanation
Indices: 22578878--22578911 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22578868 TTAGTTTGAA
*
22578878 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
22578893 AATATAAAATAATTAT
1 AATATAAAATAATTAT
22578909 AAT
1 AAT
22578912 TTTAAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:22584195 original size:11 final size:11
Alignment explanation
Indices: 22584179--22584220 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22584169 AAATTTTAAA
22584179 TTATATTATTT
1 TTATATTATTT
22584190 TTATATT-TTT
1 TTATATTATTT
*
22584200 TTTTAATTATTT
1 TTAT-ATTATTT
*
22584212 TTGTATTAT
1 TTATATTAT
22584221 ATTATCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.22
11 15 0.56
12 6 0.22
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (11 bp):
TTATATTATTT
Found at i:22592015 original size:41 final size:41
Alignment explanation
Indices: 22591958--22592037 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
22591948 CTTAGGATTC
*
22591958 TTGCATAATTATGATGTGTTTTTGTTCTTCCCAATTAAACT
1 TTGCATAATTATGATGTGTTTTTGCTCTTCCCAATTAAACT
*
22591999 TTGCATAATTATGATGTGTTTTTGCTCTTTCCAATTAAA
1 TTGCATAATTATGATGTGTTTTTGCTCTTCCCAATTAAA
22592038 TTTAACATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (41 bp):
TTGCATAATTATGATGTGTTTTTGCTCTTCCCAATTAAACT
Found at i:22592047 original size:41 final size:41
Alignment explanation
Indices: 22591961--22592047 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
22591951 AGGATTCTTG
* *
22591961 CATAATTATGATGTGTTTTTGTTCTTCCCAATTAAACTTTG
1 CATAATTATGATGTGTTTTTGCTCTTCCCAATTAAACTTTA
*
22592002 CATAATTATGATGTGTTTTTGCTCTTTCCAATTAAA-TTTAA
1 CATAATTATGATGTGTTTTTGCTCTTCCCAATTAAACTTT-A
22592043 CATAA
1 CATAA
22592048 ACTAACAAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 3 0.07
41 39 0.93
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (41 bp):
CATAATTATGATGTGTTTTTGCTCTTCCCAATTAAACTTTA
Found at i:22601607 original size:10 final size:9
Alignment explanation
Indices: 22601587--22601626 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
22601577 TTTGTTAATG
22601587 AAAAAAT-A
1 AAAAAATAA
22601595 AAAAAATAA
1 AAAAAATAA
22601604 AAAAAATAA
1 AAAAAATAA
22601613 AAAAAATGAA
1 AAAAAAT-AA
22601623 AAAA
1 AAAA
22601627 TAAGTAGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 7 0.23
9 17 0.57
10 6 0.20
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:22601624 original size:17 final size:17
Alignment explanation
Indices: 22601583--22601629 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
22601573 TAATTTTGTT
22601583 AATGAAAAAAT-AAAAA
1 AATGAAAAAATAAAAAA
*
22601599 AATAAAAAAAATAAAAAA
1 AAT-GAAAAAATAAAAAA
22601617 AATGAAAAAATAA
1 AATGAAAAAATAA
22601630 GTAGTTGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 3 0.11
17 16 0.59
18 8 0.30
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (17 bp):
AATGAAAAAATAAAAAA
Found at i:22606613 original size:11 final size:11
Alignment explanation
Indices: 22606597--22606668 Score: 105
Period size: 11 Copynumber: 6.7 Consensus size: 11
22606587 AATGAAAAAT
22606597 AAAAAAAATGA
1 AAAAAAAATGA
22606608 AAAAAAAATGA
1 AAAAAAAATGA
22606619 AAAAAAAATG-
1 AAAAAAAATGA
22606629 AAAAAAAATG-
1 AAAAAAAATGA
22606639 AAAAAAAA-GA
1 AAAAAAAATGA
*
22606649 AAAAAAAGTGA
1 AAAAAAAATGA
22606660 AAAATAAAA
1 AAAA-AAAA
22606669 AATGAAGACT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
9 1 0.02
10 25 0.45
11 27 0.48
12 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:22607474 original size:63 final size:63
Alignment explanation
Indices: 22607375--22607524 Score: 228
Period size: 63 Copynumber: 2.4 Consensus size: 63
22607365 TTAGTGGGTG
* * *
22607375 AAATTTGTTTTGAAATGGTTAGTGCTGAAAAACCTATGAGTGGTGACCAAGTGATACATGATA
1 AAATTTGTTTTGAAATGGCTAGTGCTGAAAAACCTATGAGTGGTGACCAAGTGATACAAGACA
* *
22607438 AAATTTGTTTTGAAATGGCTAGTGCTGAGAAACCTATGAGTGGTGACCAAGTGATAGAAGACA
1 AAATTTGTTTTGAAATGGCTAGTGCTGAAAAACCTATGAGTGGTGACCAAGTGATACAAGACA
* **
22607501 GAATTCATTTTGAAATGGCTAGTG
1 AAATTTGTTTTGAAATGGCTAGTG
22607525 TTAAAAGCTC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 79 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (63 bp):
AAATTTGTTTTGAAATGGCTAGTGCTGAAAAACCTATGAGTGGTGACCAAGTGATACAAGACA
Found at i:22607882 original size:21 final size:21
Alignment explanation
Indices: 22607858--22608105 Score: 136
Period size: 21 Copynumber: 10.7 Consensus size: 21
22607848 TTGAATTTTC
22607858 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
22607879 AAATGAAAATCTTTAAAGGCATTTT
1 AAATGAGAATCTTT-GA-G--TCTT
22607904 CAAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
* *
22607926 AAATGAGAATCTTTAAAGGCATTTT
1 AAATGAGAATCTTT-GA-G--TCTT
22607951 CAAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
* *
22607973 AAATGAGAATCTTTAAGGCATTTT
1 AAATGAGAATCTTTGA-G--TCTT
* * *
22607997 CAAATAAAAACCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
* *
22608019 AAATGAGAATCTTTAGGGCATTTT
1 AAATGAGAATCTTT-GAG--TCTT
*
22608043 CAAATGAAAATCTTTGAGTCACATTTTT
1 -AAATGAGAATCTTTGAGT--C----TT
* *
22608071 AAATGAAAATCTTTTAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
22608092 AAATGATAATCTTT
1 AAATGAGAATCTTT
22608106 AAGACGTTTT
Statistics
Matches: 176, Mismatches: 27, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
21 68 0.39
22 15 0.09
23 2 0.01
24 11 0.06
25 34 0.19
26 27 0.15
27 17 0.10
28 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:22608012 original size:46 final size:47
Alignment explanation
Indices: 22607852--22608062 Score: 354
Period size: 47 Copynumber: 4.5 Consensus size: 47
22607842 GAAGTCTTGA
*
22607852 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAAAGGC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAGGC
22607899 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAGGC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAGGC
22607946 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT-AAGGC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAGGC
* * * *
22607992 ATTTTCAAATAAAAACCTTTGAGTCTTAAATGAGAATCTTT-AGGGC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAGGC
*
22608038 ATTTTCAAATGAAAATCTTTGAGTC
1 ATTTTCAAATGAGAATCTTTGAGTC
22608063 ACATTTTTAA
Statistics
Matches: 157, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 70 0.45
47 87 0.55
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (47 bp):
ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAGGC
Found at i:22608074 original size:27 final size:27
Alignment explanation
Indices: 22608037--22608089 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
22608027 ATCTTTAGGG
22608037 CATTTTCAAATGAAAATCTTTGAGTCA
1 CATTTTCAAATGAAAATCTTTGAGTCA
* *
22608064 CATTTTTAAATGAAAATCTTTTAGTC
1 CATTTTCAAATGAAAATCTTTGAGTC
22608090 TTAAATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (27 bp):
CATTTTCAAATGAAAATCTTTGAGTCA
Found at i:22608132 original size:73 final size:73
Alignment explanation
Indices: 22607991--22608132 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 73
22607981 ATCTTTAAGG
* * *
22607991 CATTTTCAAATAAAAACCTTTGAGTCTTAAATGAGAATCTTTAGGGCATTTTCAAATGAAAATCT
1 CATTTTCAAATAAAAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAATAT
22608056 TTGAGTCA
66 TTGAGTCA
* * * * * * **
22608064 CATTTTTAAATGAAAATCTTTTAGTCTTAAATGATAATCTTTAAGACGTTTTCAAATGAGCATAT
1 CATTTTCAAATAAAAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAATAT
22608129 TTGA
66 TTGA
22608133 ATCTCTAATG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 58 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (73 bp):
CATTTTCAAATAAAAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAATAT
TTGAGTCA
Found at i:22608761 original size:123 final size:123
Alignment explanation
Indices: 22608542--22608827 Score: 396
Period size: 123 Copynumber: 2.3 Consensus size: 123
22608532 ATGATTGTCA
* * *
22608542 AAAAGCCTTTTATTTTTCAAAGTTATTGTGTCTCTATTTAAAGGAGCCATTTATTTTTCAAAGTT
1 AAAAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAAAAGAGCCATTTATTTTTCAAAGTT
* * * *
22608607 GTTGTGCCTTTATTTAGATAAGCTTTGTATTTTTCAAAGTTGTTATGTCTCTGCTTAG
66 ATTGTGCCTTTATTTAAAGAAGCTTTGTATTTTTCAAAGTTGTTATGCCTCTGCTTAG
* * *
22608665 AAAAGCCTTTTATTTTTCAAAATTGTTATGCCTCTGTTTAAAAGAG-CATTTTATTTTTCAAAGT
1 AAAAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAAAAGAGCCA-TTTATTTTTCAAAGT
* * *
22608729 TATTGTGCCTTTGTTTAAAGGAGCCTTT-TATTTTTCAAAGTTGTTATGCCTCTGTTTAG
65 TATTGTGCCTTTATTTAAAGAAG-CTTTGTATTTTTCAAAGTTGTTATGCCTCTGCTTAG
** *
22608788 ATGAGCCTTTTATTTTTCAAAGTTGTTGTGCCACTATTTA
1 AAAAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTA
22608828 GATAAGCTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
122 2 0.01
123 136 0.96
124 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (123 bp):
AAAAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAAAAGAGCCATTTATTTTTCAAAGTT
ATTGTGCCTTTATTTAAAGAAGCTTTGTATTTTTCAAAGTTGTTATGCCTCTGCTTAG
Found at i:22608828 original size:41 final size:41
Alignment explanation
Indices: 22608545--22608867 Score: 335
Period size: 41 Copynumber: 7.9 Consensus size: 41
22608535 ATTGTCAAAA
* * * * *
22608545 AGCCTTTTATTTTTCAAAGTTATTGTGTCTCTATTTAAAGG
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
* * * *
22608586 AGCCATTTATTTTTCAAAGTTGTTGTGCCTTTATTTAGATA
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
* * * **
22608627 AG-CTTTGTATTTTTCAAAGTTGTTATGTCTCTGCTTAGAAA
1 AGCCTTT-TATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
* * * *
22608668 AGCCTTTTATTTTTCAAAATTGTTATGCCTCTGTTTAAAAG
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
* * * * *
22608709 AGCATTTTATTTTTCAAAGTTATTGTGCCTTTGTTTAAAGG
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
*
22608750 AGCCTTTTATTTTTCAAAGTTGTTATGCCTCTGTTTAGATG
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
* * *
22608791 AGCCTTTTATTTTTCAAAGTTGTTGTGCCACTATTTAGATA
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
* * * * *
22608832 AG-CTTTTTTTTTTTAAAGTTGTGGAGCATCTGTTTA
1 AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTA
22608868 TAAGAGTTTT
Statistics
Matches: 238, Mismatches: 42, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
40 30 0.13
41 204 0.86
42 4 0.02
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (41 bp):
AGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGATG
Found at i:22609475 original size:10 final size:10
Alignment explanation
Indices: 22609460--22609518 Score: 59
Period size: 10 Copynumber: 5.7 Consensus size: 10
22609450 AGCTGCTTCA
22609460 TTTTTTTTAG
1 TTTTTTTTAG
22609470 TTTTTTTTAG
1 TTTTTTTTAG
22609480 TTATTTATTTA-
1 TT-TTT-TTTAG
22609491 TTTTTTATGT-G
1 TTTTTT-T-TAG
22609502 TTTTTTTTAG
1 TTTTTTTTAG
*
22609512 TATTTTT
1 TTTTTTT
22609519 GCATGATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
9 2 0.05
10 24 0.57
11 12 0.29
12 4 0.10
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (10 bp):
TTTTTTTTAG
Found at i:22609613 original size:26 final size:25
Alignment explanation
Indices: 22609584--22609665 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
22609574 AATAAGTATT
22609584 AATTATCAAATGATAGAATTTATA-AA
1 AATT-TCAAATGATA-AATTTATATAA
* *
22609610 AATTTCAAATGGTAAATTTCTATAA
1 AATTTCAAATGATAAATTTATATAA
* * *
22609635 AATTCTTAGATGAGAAATTT-TATCAA
1 AATT-TCAAATGATAAATTTATAT-AA
22609661 AATTT
1 AATTT
22609666 ATCTCAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 7 0.15
25 19 0.40
26 21 0.45
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (25 bp):
AATTTCAAATGATAAATTTATATAA
Found at i:22609636 original size:25 final size:26
Alignment explanation
Indices: 22609584--22609638 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
22609574 AATAAGTATT
22609584 AATTATCAAATGATAGAATTTATAAA
1 AATTATCAAATGATAGAATTTATAAA
* *
22609610 AATT-TCAAATGGTA-AATTTCTATAA
1 AATTATCAAATGATAGAATTTATA-AA
22609635 AATT
1 AATT
22609639 CTTAGATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 7 0.27
25 15 0.58
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.38
Consensus pattern (26 bp):
AATTATCAAATGATAGAATTTATAAA
Found at i:22609908 original size:184 final size:184
Alignment explanation
Indices: 22609546--22609893 Score: 417
Period size: 184 Copynumber: 1.9 Consensus size: 184
22609536 AAAAAAGAAT
* * *
22609546 AAAAATAAAAAATAAAATATTTTTTGAGAATAAGTATTAATTATCAAATGATAGAATTTATAAAA
1 AAAAATAAAAAATAAAATATTTGTTAAAAATAAGTATTAATTATCAAATGATAGAATTTATAAAA
* * *
22609611 ATTTCAAATGGTAAATTTCTATAAAATTCTTAGATGAGAAATTTTATCAAAATTTATCTCAAATA
66 ATTTCAAATGGTAAATTCCTATAAAATTCTAAGATGAGAAATTTTATCAAAATTTATCCCAAATA
* * * * *
22609676 GTAGAATAATTTAGATAAAGTTTCAATAATAATAACTAATATTTATTTTCAATA
131 GTAGAAGAATTTAAATAAAATTTCAAGAAAAATAACTAATATTTATTTTCAATA
* *
22609730 AAAAATAAAAAATAAAAT-TTTGGTTAAAAATATGTGA-TAATTATCTAATGAT-GATATTCT-T
1 AAAAATAAAAAATAAAATATTT-GTTAAAAATAAGT-ATTAATTATCAAATGATAGA-ATT-TAT
* * *
22609791 AAAATTTTCAAATGGTAAATTCCTA-AGAAATCTCTAAG-TGAGAAATTTCT-T-TAAATTTGTC
62 AAAAATTTCAAATGGTAAATTCCTATA-AAAT-TCTAAGATGAGAAATTT-TATCAAAATTTATC
22609852 CCAAATAGT-GAAAGAATTTAAATAAAATTTCAAGAAAAATAA
124 CCAAATAGTAG-AAGAATTTAAATAAAATTTCAAGAAAAATAA
22609894 TTGTCATATT
Statistics
Matches: 140, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
182 1 0.01
183 48 0.34
184 83 0.59
185 8 0.06
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (184 bp):
AAAAATAAAAAATAAAATATTTGTTAAAAATAAGTATTAATTATCAAATGATAGAATTTATAAAA
ATTTCAAATGGTAAATTCCTATAAAATTCTAAGATGAGAAATTTTATCAAAATTTATCCCAAATA
GTAGAAGAATTTAAATAAAATTTCAAGAAAAATAACTAATATTTATTTTCAATA
Found at i:22611267 original size:18 final size:19
Alignment explanation
Indices: 22611239--22611274 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22611229 TTATTAATTA
22611239 AAATAATAAAAATATATTT
1 AAATAATAAAAATATATTT
*
22611258 AAAT-ATAAAAATTTATT
1 AAATAATAAAAATATATT
22611275 ATGTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATAATAAAAATATATTT
Found at i:22611698 original size:35 final size:35
Alignment explanation
Indices: 22611652--22611746 Score: 172
Period size: 35 Copynumber: 2.7 Consensus size: 35
22611642 CTAGTTGTAA
22611652 ATAGACCACTAGCTAGAATCATATGTACGCATGTT
1 ATAGACCACTAGCTAGAATCATATGTACGCATGTT
*
22611687 ATAGACCACTAGCTAGAATCATATGTTCGCATGTT
1 ATAGACCACTAGCTAGAATCATATGTACGCATGTT
*
22611722 ATAGACCACTAACTAGAATCATATG
1 ATAGACCACTAGCTAGAATCATATG
22611747 CACTGTTGAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (35 bp):
ATAGACCACTAGCTAGAATCATATGTACGCATGTT
Found at i:22611905 original size:21 final size:22
Alignment explanation
Indices: 22611881--22611948 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
22611871 TTTGATGTAT
**
22611881 TATTATTTTATAAATTTTAT-A
1 TATTATTTTATAAATTAAATAA
*
22611902 TATTA-TTAATAAATTAAATAA
1 TATTATTTTATAAATTAAATAA
* *
22611923 TATTATTTTATTAATGAAATAA
1 TATTATTTTATAAATTAAATAA
22611945 -ATTA
1 TATTA
22611949 AATTAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 11 0.28
21 15 0.38
22 13 0.33
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TATTATTTTATAAATTAAATAA
Found at i:22611962 original size:30 final size:31
Alignment explanation
Indices: 22611909--22611967 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 31
22611899 ATATATTATT
22611909 AATAAATTAAATAATATTATTTTATTAATGA
1 AATAAATTAAATAATATTATTTTATTAATGA
22611940 AATAAATTAAATTAA-A-TATTTTATTAAT
1 AATAAATTAAA-TAATATTATTTTATTAAT
22611968 TAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 12 0.44
31 12 0.44
32 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
AATAAATTAAATAATATTATTTTATTAATGA
Found at i:22612017 original size:51 final size:51
Alignment explanation
Indices: 22611948--22612045 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
22611938 GAAATAAATT
* *
22611948 AAATTAAATATTTTATTAATTAATAAAATATTTATTTTATATATTTATTTCAA
1 AAATTAAATATTTTATTAATTAATAAAATA-ATATTATATA-ATTTATTTCAA
22612001 AAATT-AATA-TTTATTAATTAATAAAATAATATTATATAATTTATT
1 AAATTAAATATTTTATTAATTAATAAAATAATATTATATAATTTATT
22612046 AGTAAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 7 0.16
50 8 0.19
51 19 0.44
52 4 0.09
53 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (51 bp):
AAATTAAATATTTTATTAATTAATAAAATAATATTATATAATTTATTTCAA
Found at i:22614558 original size:13 final size:13
Alignment explanation
Indices: 22614540--22614564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22614530 CTTGCAAATT
22614540 TAATAACATTTTG
1 TAATAACATTTTG
22614553 TAATAACATTTT
1 TAATAACATTTT
22614565 TTTGTTGTTA
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:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
TAATAACATTTTG
Found at i:22619706 original size:20 final size:21
Alignment explanation
Indices: 22619655--22619707 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
22619645 AAATTTCAAG
*
22619655 AAAATTTTAAAA-AGTTTTAA
1 AAAATTATAAAATAGTTTTAA
* * *
22619675 GAAATGACAAAATA-TTTTAA
1 AAAATTATAAAATAGTTTTAA
22619695 AAAATTATAAAAT
1 AAAATTATAAAAT
22619708 CTGAATTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (21 bp):
AAAATTATAAAATAGTTTTAA
Found at i:22619891 original size:25 final size:26
Alignment explanation
Indices: 22619858--22619912 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
22619848 AAAAGAACTC
* *
22619858 AAAATTAAAAAATCTAAAATTTTTTT
1 AAAATTAAAAAATCTAAAATCTTTTG
22619884 AAAA-TAAAAAATCTAAAATCTTTTG
1 AAAATTAAAAAATCTAAAATCTTTTG
22619909 AAAA
1 AAAA
22619913 AAATATGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (26 bp):
AAAATTAAAAAATCTAAAATCTTTTG
Found at i:22619984 original size:28 final size:28
Alignment explanation
Indices: 22619943--22620080 Score: 84
Period size: 28 Copynumber: 4.9 Consensus size: 28
22619933 AATTTTGAAA
* * *
22619943 AAAAAATTTCAAAAATCTGAAAATTTTT
1 AAAAAATTTAAAAAATATAAAAATTTTT
*
22619971 AAAAAATTTAAAAATTATAAAAATTTTT
1 AAAAAATTTAAAAAATATAAAAATTTTT
* * * **
22619999 GAAAAA--TAAAACATTTTAAAAATATAAT
1 AAAAAATTTAAAA-AATATAAAAAT-TTTT
** * *
22620027 AAAAAATCCAAAAAAATCTAAAAA-TTTC
1 AAAAAAT-TTAAAAAATATAAAAATTTTT
* *
22620055 AAAAATATATAAAAAAAATAAAAATT
1 AAAAA-ATTTAAAAAATATAAAAATT
22620081 GAAAGATAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
26 5 0.06
27 10 0.12
28 54 0.64
29 3 0.04
30 8 0.10
31 4 0.05
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAAAATTTAAAAAATATAAAAATTTTT
Found at i:22619993 original size:19 final size:18
Alignment explanation
Indices: 22619971--22620070 Score: 58
Period size: 19 Copynumber: 5.3 Consensus size: 18
22619961 GAAAATTTTT
22619971 AAAAAATTTAAAAATTATA
1 AAAAAATTTAAAAA-TATA
** *
22619990 AAAATTTTTGAAAA-ATA
1 AAAAAATTTAAAAATATA
* *
22620007 AAACATTTTAAAAATATAA
1 AAAAAATTTAAAAATAT-A
** * *
22620026 TAAAAAATCCAAAAAAATC
1 -AAAAAATTTAAAAATATA
*
22620045 TAAAAATTTCAAAAATATA
1 AAAAAATTT-AAAAATATA
22620064 TAAAAAA
1 -AAAAAA
22620071 AATAAAAATT
Statistics
Matches: 58, Mismatches: 18, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
17 14 0.24
18 8 0.14
19 19 0.33
20 17 0.29
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (18 bp):
AAAAAATTTAAAAATATA
Found at i:22620025 original size:18 final size:18
Alignment explanation
Indices: 22619977--22620025 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 18
22619967 TTTTAAAAAA
22619977 TTTAAAAATTATAAAAATT
1 TTTAAAAA-TATAAAAATT
*
22619996 TTTGAAAAATA-AAACA-T
1 TTT-AAAAATATAAAAATT
22620013 TTTAAAAATATAA
1 TTTAAAAATATAA
22620026 TAAAAAATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 4 0.15
19 5 0.19
20 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
TTTAAAAATATAAAAATT
Found at i:22632146 original size:168 final size:168
Alignment explanation
Indices: 22631868--22632206 Score: 669
Period size: 168 Copynumber: 2.0 Consensus size: 168
22631858 AAATCTCTTA
*
22631868 TGAGATTTGAGTCACTATTCCTAACAATTTTCATATTGACTCAAATTCTATGAAATCATTTATTT
1 TGAGATTTAAGTCACTATTCCTAACAATTTTCATATTGACTCAAATTCTATGAAATCATTTATTT
22631933 TCATGCTAGACATACTTGACTTCACCTGTAATGAAAATCTCACAATTATCTTCTTTTGTGTATCT
66 TCATGCTAGACATACTTGACTTCACCTGTAATGAAAATCTCACAATTATCTTCTTTTGTGTATCT
22631998 TCACACTTCACGTAAATCGATCTTCAATTCTCAAAACT
131 TCACACTTCACGTAAATCGATCTTCAATTCTCAAAACT
22632036 TGAGATTTAAGTCACTATTCCTAACAATTTTCATATTGACTCAAATTCTATGAAATCATTTATTT
1 TGAGATTTAAGTCACTATTCCTAACAATTTTCATATTGACTCAAATTCTATGAAATCATTTATTT
22632101 TCATGCTAGACATACTTGACTTCACCTGTAATGAAAATCTCACAATTATCTTCTTTTGTGTATCT
66 TCATGCTAGACATACTTGACTTCACCTGTAATGAAAATCTCACAATTATCTTCTTTTGTGTATCT
22632166 TCACACTTCACGTAAATCGATCTTCAATTCTCAAAACT
131 TCACACTTCACGTAAATCGATCTTCAATTCTCAAAACT
22632204 TGA
1 TGA
22632207 ACTCGAATTC
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 170 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (168 bp):
TGAGATTTAAGTCACTATTCCTAACAATTTTCATATTGACTCAAATTCTATGAAATCATTTATTT
TCATGCTAGACATACTTGACTTCACCTGTAATGAAAATCTCACAATTATCTTCTTTTGTGTATCT
TCACACTTCACGTAAATCGATCTTCAATTCTCAAAACT
Found at i:22641348 original size:10 final size:10
Alignment explanation
Indices: 22641335--22641393 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
22641325 AGAAAATGAT
*
22641335 AAAAAA-AAT
1 AAAAAATAAA
22641344 AAAAAATAAA
1 AAAAAATAAA
*
22641354 GAAAAAT-AA
1 AAAAAATAAA
* *
22641363 AGAAAA-AGA
1 AAAAAATAAA
22641372 AAAAAATAAA
1 AAAAAATAAA
*
22641382 ATAAAATAAA
1 AAAAAATAAA
22641392 AA
1 AA
22641394 GTACTAAACA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
9 18 0.47
10 20 0.53
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:22641354 original size:28 final size:28
Alignment explanation
Indices: 22641322--22641391 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
22641312 GAATTTTATT
*
22641322 TAAAGAAAATGATAAA-AAAAA-TAAAAAA
1 TAAAGAAAA--ATAAAGAAAAAGAAAAAAA
22641350 TAAAGAAAAATAAAGAAAAAGAAAAAAA
1 TAAAGAAAAATAAAGAAAAAGAAAAAAA
22641378 TAAA-ATAAAATAAA
1 TAAAGA-AAAATAAA
22641392 AAGTACTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 5 0.13
27 6 0.16
28 27 0.71
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (28 bp):
TAAAGAAAAATAAAGAAAAAGAAAAAAA
Found at i:22642308 original size:11 final size:10
Alignment explanation
Indices: 22642232--22642395 Score: 56
Period size: 10 Copynumber: 15.9 Consensus size: 10
22642222 AAAGAAAAAA
*
22642232 AATAAAAAAT
1 AATAAATAAT
22642242 AA-AAA-AAT
1 AATAAATAAT
*
22642250 AA-AGATAAT
1 AATAAATAAT
*
22642259 ATATTAATAGAT
1 A-ATAAATA-AT
*
22642271 AA-AAATATT
1 AATAAATAAT
*
22642280 AATAGATAAAT
1 AATAAAT-AAT
22642291 AAT-AATAAT
1 AATAAATAAT
22642300 AGATAAATAAT
1 A-ATAAATAAT
22642311 AATAAAATATAT
1 AAT-AAATA-AT
* *
22642323 ATATCAACAGAT
1 A-ATAAATA-AT
*
22642335 AA-ATAGTAAT
1 AATA-AATAAT
22642345 AATAAA-ATAT
1 AATAAATA-AT
* *
22642355 ATATATATATT
1 A-ATAAATAAT
*
22642366 AATAAATAGT
1 AATAAATAAT
22642376 AAT-AATAAAT
1 AATAAAT-AAT
22642386 AAATAAATAA
1 -AATAAATAA
22642396 ATACAAATAT
Statistics
Matches: 115, Mismatches: 20, Indels: 37
0.67 0.12 0.22
Matches are distributed among these distances:
8 7 0.06
9 18 0.16
10 36 0.31
11 36 0.31
12 16 0.14
13 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (10 bp):
AATAAATAAT
Found at i:22642308 original size:31 final size:31
Alignment explanation
Indices: 22642254--22642394 Score: 123
Period size: 34 Copynumber: 4.4 Consensus size: 31
22642244 AAAAATAAAG
*
22642254 ATAATATATTAATAGATAAAAATATTAATAGATAA
1 ATAATATA-TAATAGAT--AAATAGTAATA-ATAA
*
22642289 ATAATA-ATAATAGATAAATAATAAT-A-AA
1 ATAATATATAATAGATAAATAGTAATAATAA
*
22642317 ATATATATATCAACAGATAAATAGTAATAATAAA
1 ATA-ATATAT-AATAGATAAATAGTAATAAT-AA
22642351 ATATATATATATATTA-ATAAATAGTAATAATAA
1 ATA-ATATATA-A-TAGATAAATAGTAATAATAA
22642384 ATAA-ATA-AATA
1 ATAATATATAATA
22642395 AATACAAATA
Statistics
Matches: 94, Mismatches: 4, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
28 7 0.07
29 5 0.05
30 3 0.03
31 27 0.29
32 2 0.02
33 14 0.15
34 29 0.31
35 7 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (31 bp):
ATAATATATAATAGATAAATAGTAATAATAA
Found at i:22642388 original size:17 final size:16
Alignment explanation
Indices: 22642232--22642413 Score: 92
Period size: 17 Copynumber: 11.4 Consensus size: 16
22642222 AAAGAAAAAA
* *
22642232 AATAAA-AAATAAAAA
1 AATAAATAAATATAAT
* *
22642247 AATAAAGATAATATATT
1 AATAAATA-AATATAAT
* * *
22642264 AATAGATAAAAATATT
1 AATAAATAAATATAAT
*
22642280 AATAGATAAATAATAAT
1 AATAAATAAAT-ATAAT
*
22642297 AATAGAT-AA-ATAAT
1 AATAAATAAATATAAT
*
22642311 AATAAA-ATATATATAT
1 AATAAATAAATATA-AT
* *
22642327 CAACAGATAAATAGTAAT
1 -AATAAATAAATA-TAAT
*
22642345 AATAAA-ATATATATAT
1 AATAAATAAATATA-AT
*
22642361 ATATTAATAAATAGTAAT
1 A-ATAAATAAATA-TAAT
22642379 AATAAATAAATA-AAT
1 AATAAATAAATATAAT
* *
22642394 AA-ATACAAATATAA-
1 AATAAATAAATATAAT
22642408 AATAAA
1 AATAAA
22642414 AATACAAAAT
Statistics
Matches: 130, Mismatches: 22, Indels: 30
0.71 0.12 0.16
Matches are distributed among these distances:
14 20 0.15
15 20 0.15
16 29 0.22
17 44 0.34
18 13 0.10
19 4 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAAATAAATATAAT
Found at i:22642404 original size:25 final size:24
Alignment explanation
Indices: 22642366--22642447 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 24
22642356 TATATATATT
**
22642366 AATAAATAGTAATAATAAATAAATA
1 AATAAATACAAATAATAAATAAA-A
22642391 AATAAATACAAAT-ATAAAATAAAA
1 AATAAATACAAATAAT-AAATAAAA
*
22642415 ATACAAAATACAAAATACA-AAATAAAA
1 A-A-TAAATAC-AAATA-ATAAATAAAA
22642442 AATAAA
1 AATAAA
22642448 CTGGGCTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
24 4 0.09
25 22 0.47
26 7 0.15
27 13 0.28
29 1 0.02
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.21
Consensus pattern (24 bp):
AATAAATACAAATAATAAATAAAA
Found at i:22642416 original size:13 final size:13
Alignment explanation
Indices: 22642382--22642447 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
22642372 TAGTAATAAT
22642382 AAATAAATAA-AT-
1 AAATAAA-AATATA
*
22642394 AAATACAAATATA
1 AAATAAAAATATA
*
22642407 AAATAAAAATACA
1 AAATAAAAATATA
*
22642420 AAATACAAAATACA
1 AAATA-AAAATATA
22642434 AAATAAAAA-ATA
1 AAATAAAAATATA
22642446 AA
1 AA
22642448 CTGGGCTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 2 0.04
12 12 0.26
13 20 0.43
14 13 0.28
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (13 bp):
AAATAAAAATATA
Found at i:22642416 original size:27 final size:28
Alignment explanation
Indices: 22642380--22642447 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
22642370 AATAGTAATA
*
22642380 ATAAATAAATAAATAAATAC-AAATATAAA
1 ATAAA-AAATAAA-AAATACAAAATACAAA
*
22642409 AT-AAAAATACAAAATACAAAATACAAA
1 ATAAAAAATAAAAAATACAAAATACAAA
22642436 ATAAAAAATAAA
1 ATAAAAAATAAA
22642448 CTGGGCTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 6 0.18
27 16 0.47
28 10 0.29
29 2 0.06
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (28 bp):
ATAAAAAATAAAAAATACAAAATACAAA
Found at i:22642422 original size:7 final size:7
Alignment explanation
Indices: 22642394--22642445 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
22642384 ATAAATAAAT
22642394 AAATAC-
1 AAATACA
*
22642400 AAATATA
1 AAATACA
22642407 AAATA-A
1 AAATACA
22642413 AAATACA
1 AAATACA
22642420 AAATACA
1 AAATACA
22642427 AAATACA
1 AAATACA
*
22642434 AAATAAA
1 AAATACA
22642441 AAATA
1 AAATA
22642446 AACTGGGCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
6 11 0.26
7 31 0.74
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (7 bp):
AAATACA
Found at i:22642446 original size:7 final size:7
Alignment explanation
Indices: 22642379--22642447 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
22642369 AAATAGTAAT
22642379 AATAAATA
1 AATAAA-A
22642387 AATAAATA
1 AATAAA-A
*
22642395 AAT-ACA
1 AATAAAA
*
22642401 AATATAA
1 AATAAAA
22642408 AAT-AAA
1 AATAAAA
*
22642414 AATACAA
1 AATAAAA
*
22642421 AATACAA
1 AATAAAA
*
22642428 AATACAA
1 AATAAAA
22642435 AATAAAA
1 AATAAAA
22642442 AATAAA
1 AATAAA
22642448 CTGGGCTTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
6 9 0.17
7 33 0.62
8 11 0.21
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:22642679 original size:42 final size:42
Alignment explanation
Indices: 22642627--22642819 Score: 233
Period size: 42 Copynumber: 4.5 Consensus size: 42
22642617 AAATCTCATT
* * **
22642627 TAAGTAGAGGCTCAACGACTTTAAAAATAAGCAAAGCTTTTC
1 TAAGTAGAGGCTCAACAACTTTAAAAATAAACAAAGCTCCTC
** * * * *
22642669 TAAACAGAGGCTCAACGACTTTGAAAATAAGCAAAACTCCTC
1 TAAGTAGAGGCTCAACAACTTTAAAAATAAACAAAGCTCCTC
* *
22642711 TAAGTAGAGGCTCCATAACTTTTGAAAAATAAACAAAGCTCCTC
1 TAAGTAGAGGCTCAACAAC-TTT-AAAAATAAACAAAGCTCCTC
* *
22642755 TAAGTAGAGGCTCAACAACTTTAGAAAATAAATAAAGCTCATC
1 TAAGTAGAGGCTCAACAACTTTA-AAAATAAACAAAGCTCCTC
22642798 TAAGTAGAGGCTCAACAACTTT
1 TAAGTAGAGGCTCAACAACTTT
22642820 TGGAAAGTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 51 0.39
43 45 0.35
44 34 0.26
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (42 bp):
TAAGTAGAGGCTCAACAACTTTAAAAATAAACAAAGCTCCTC
Found at i:22642755 original size:44 final size:43
Alignment explanation
Indices: 22642627--22642874 Score: 232
Period size: 44 Copynumber: 5.7 Consensus size: 43
22642617 AAATCTCATT
* * * **
22642627 TAAGTAGAGGCTCAACGAC-TTTAAAAATAAGCAAAGCTTTTC
1 TAAGTAGAGGCTCAACAACTTTTGAAAATAAACAAAGCTCCTC
** * * *
22642669 TAAACAGAGGCTCAACGAC-TTTGAAAATAAGCAAAACTCCTC
1 TAAGTAGAGGCTCAACAACTTTTGAAAATAAACAAAGCTCCTC
* *
22642711 TAAGTAGAGGCTCCATAACTTTTGAAAAATAAACAAAGCTCCTC
1 TAAGTAGAGGCTCAACAACTTTTG-AAAATAAACAAAGCTCCTC
* * *
22642755 TAAGTAGAGGCTCAACAACTTTAGAAAATAAATAAAGCTCATC
1 TAAGTAGAGGCTCAACAACTTTTGAAAATAAACAAAGCTCCTC
* * *
22642798 TAAGTAGAGGCTCAACAACTTTTGGAAAGTAAATACAA-CTCCTT
1 TAAGTAGAGGCTCAACAACTTTT-GAAAATAAACA-AAGCTCCTC
** ** *
22642842 TAAACAGAGGCTCAATGACTTTTGGAAAGTAAA
1 TAAGTAGAGGCTCAACAACTTTT-GAAAATAAA
22642875 TGGCTCATTA
Statistics
Matches: 176, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
42 50 0.28
43 43 0.24
44 81 0.46
45 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (43 bp):
TAAGTAGAGGCTCAACAACTTTTGAAAATAAACAAAGCTCCTC
Found at i:22642863 original size:87 final size:86
Alignment explanation
Indices: 22642616--22642863 Score: 277
Period size: 87 Copynumber: 2.9 Consensus size: 86
22642606 AAATTTTGAT
* * * * **
22642616 CAAATCTCATTTAAGTAGAGGCTCAACGAC-TTT-AAAAATAAGCAAAGCTTTTCTAAACAGAGG
1 CAAAACTCATCTAAGTAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGG
*
22642679 CTCAACGACTTTGAAAATAAG
66 CTCAACGACTTTGAAAATAAA
* * * **
22642700 CAAAACTCCTCTAAGTAGAGGCTCCATAACTTTTGAAAAATAAACAAAGCTCCTCTAAGTAGAGG
1 CAAAACTCATCTAAGTAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGG
*
22642765 CTCAACAACTTTAGAAAATAAA
66 CTCAACGACTTT-GAAAATAAA
* * * * * *
22642787 TAAAGCTCATCTAAGTAGAGGCTCAACAACTTTTGGAAAGTAAATACAA-CTCCTTTAAACAGAG
1 CAAAACTCATCTAAGTAGAGGCTCAACAACTTTTGAAAAATAAACA-AAGCTCCTCTAAACAGAG
*
22642851 GCTCAATGACTTT
65 GCTCAACGACTTT
22642864 TGGAAAGTAA
Statistics
Matches: 134, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
84 24 0.18
85 3 0.02
86 36 0.27
87 69 0.51
88 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (86 bp):
CAAAACTCATCTAAGTAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGG
CTCAACGACTTTGAAAATAAA
Found at i:22643941 original size:6 final size:6
Alignment explanation
Indices: 22643901--22643968 Score: 73
Period size: 6 Copynumber: 10.7 Consensus size: 6
22643891 TTCACTTTTT
* * *
22643901 TTTTCC TTTTCC TTTTCA TTTTCC TTTTCA TTTTTCA TTTTTTCA TTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA -TTTTCA --TTTTCA TTTTCA
22643952 TTTTCA TTTTTCA TTTT
1 TTTTCA -TTTTCA TTTT
22643969 TTCTCTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
6 37 0.66
7 12 0.21
8 7 0.12
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:22643943 original size:27 final size:27
Alignment explanation
Indices: 22643913--22643971 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
22643903 TTCCTTTTCC
*
22643913 TTTTCATTTTCCTTTTCATTTTTCATT
1 TTTTCATTTTCATTTTCATTTTTCATT
22643940 TTTTCATTTTCATTTTCATTTTTCATT
1 TTTTCATTTTCATTTTCATTTTTCATT
22643967 TTTTC
1 TTTTC
22643972 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTCATTTTCATTTTCATTTTTCATT
Found at i:22651219 original size:15 final size:15
Alignment explanation
Indices: 22651199--22651232 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
22651189 CTTTGTTAAG
*
22651199 TGTAATGAGTGAAAA
1 TGTAATGAATGAAAA
22651214 TGTAATGAATGAAAA
1 TGTAATGAATGAAAA
22651229 TGTA
1 TGTA
22651233 TGTATGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (15 bp):
TGTAATGAATGAAAA
Found at i:22654577 original size:13 final size:13
Alignment explanation
Indices: 22654545--22654589 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
22654535 TTATTTAAAG
* *
22654545 AAAATAATAAAAA
1 AAAAAAATAAAAT
22654558 AATAAAAATAAAAT
1 AA-AAAAATAAAAT
22654572 AAAAAAATAAAAT
1 AAAAAAATAAAAT
22654585 AAAAA
1 AAAAA
22654590 GTACTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:22654589 original size:19 final size:19
Alignment explanation
Indices: 22654550--22654588 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
22654540 TAAAGAAAAT
22654550 AATAAAAAAATAAAAATAA
1 AATAAAAAAATAAAAATAA
22654569 AATAAAAAAAT-AAAATAA
1 AATAAAAAAATAAAAATAA
22654587 AA
1 AA
22654589 AGTACTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (19 bp):
AATAAAAAAATAAAAATAA
Found at i:22655444 original size:16 final size:17
Alignment explanation
Indices: 22655423--22655511 Score: 66
Period size: 16 Copynumber: 5.5 Consensus size: 17
22655413 AAAAGATAAT
22655423 ATATTAATAGATAAA-A
1 ATATTAATAGATAAATA
22655439 ATATTAATAGATAAATA
1 ATATTAATAGATAAATA
*
22655456 ATAATAA-A-AT--AT-
1 ATATTAATAGATAAATA
* * *
22655468 ATATCAACAAATAAATA
1 ATATTAATAGATAAATA
*
22655485 ATAATAATA-ATAAAATA
1 ATATTAATAGAT-AAATA
22655502 TATATTAATA
1 -ATATTAATA
22655512 AATAGTAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
12 5 0.09
13 3 0.05
14 2 0.03
15 2 0.03
16 20 0.34
17 18 0.31
18 8 0.14
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATTAATAGATAAATA
Found at i:22655460 original size:3 final size:3
Alignment explanation
Indices: 22655418--22655536 Score: 57
Period size: 3 Copynumber: 37.3 Consensus size: 3
22655408 AAAAAAAAAG
* * *
22655418 ATA AT- ATA TTA ATA GATA AAA ATA TTA ATA GATAA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA
* *
22655464 AT- ATA TATCA ACAA ATAA ATA ATA ATA ATA ATA A-A ATA TATA TTA
1 ATA ATA -AT-A A-TA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
22655509 ATAA ATA GTA ATA ATAA ATAA ATA ATA A
1 AT-A ATA ATA ATA AT-A AT-A ATA ATA A
22655537 ATAAAAATTC
Statistics
Matches: 90, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
2 8 0.09
3 52 0.58
4 28 0.31
5 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22655461 original size:20 final size:18
Alignment explanation
Indices: 22655418--22655458 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
22655408 AAAAAAAAAG
22655418 ATAAT-ATATTAATAGAT
1 ATAATAATATTAATAGAT
22655435 A-AA-AATATTAATAGAT
1 ATAATAATATTAATAGAT
22655451 A-AATAATA
1 ATAATAATA
22655459 ATAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAATAATATTAATAGAT
Found at i:22655491 original size:35 final size:37
Alignment explanation
Indices: 22655444--22655537 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 37
22655434 TAAAAATATT
22655444 AATAGATAAATAATAATAAAATATATATCAACAAATA-
1 AATA-ATAAATAATAATAAAATATATATCAACAAATAG
* *
22655481 AATAAT-AATAATAATAAAATATATATTAATAAATAG
1 AATAATAAATAATAATAAAATATATATCAACAAATAG
22655517 TAATAATAAATAAATAATAAA
1 -AATAATAAAT-AATAATAAA
22655538 TAAAAATTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
35 27 0.53
36 2 0.04
37 10 0.20
38 3 0.06
39 9 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (37 bp):
AATAATAAATAATAATAAAATATATATCAACAAATAG
Found at i:22655500 original size:21 final size:21
Alignment explanation
Indices: 22655476--22655536 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
22655466 ATATATCAAC
22655476 AAATAAATAATAATAATAATA
1 AAATAAATAATAATAATAATA
* * *
22655497 AAATATATATTAATAAATAGTA
1 AAATAAATAATAAT-AATAATA
22655519 ATAATAAATAAATAATAA
1 A-AATAAAT-AATAATAA
22655537 ATAAAAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 12 0.38
22 7 0.22
23 8 0.25
24 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATAAATAATAATAATAATA
Found at i:22659719 original size:40 final size:40
Alignment explanation
Indices: 22659623--22659726 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
22659613 CTTTATACAC
* *
22659623 ACATTGCATTCCATGCAAACACATCATCTAATGAAATAGG
1 ACATAGCATTTCATGCAAACACATCATCTAATGAAATAGG
* *
22659663 ATATAGCATTTAATGCAAACACATCATCTAATGAAATAGG
1 ACATAGCATTTCATGCAAACACATCATCTAATGAAATAGG
* *
22659703 ACATTA-TATTTCATGCATACACAT
1 ACA-TAGCATTTCATGCAAACACAT
22659727 TCATATGGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (40 bp):
ACATAGCATTTCATGCAAACACATCATCTAATGAAATAGG
Found at i:22661470 original size:10 final size:10
Alignment explanation
Indices: 22661406--22661476 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 10
22661396 AAGAGAAGCC
*
22661406 AAAATAAAAA
1 AAAAGAAAAA
22661416 CAAAAGAGAAAGA
1 -AAAAGA-AAA-A
**
22661429 AAAAGTTAAA
1 AAAAGAAAAA
22661439 AAAAG--AAA
1 AAAAGAAAAA
22661447 AAAAG--AAA
1 AAAAGAAAAA
22661455 AAAAGAAAAA
1 AAAAGAAAAA
22661465 AAAAGAAGAAA
1 AAAAGAA-AAA
22661476 A
1 A
22661477 TCTTGAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
8 16 0.31
10 16 0.31
11 11 0.21
12 8 0.15
13 1 0.02
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:22661476 original size:8 final size:8
Alignment explanation
Indices: 22661436--22661466 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
22661426 AGAAAAAGTT
22661436 AAAAAAAG
1 AAAAAAAG
22661444 AAAAAAAG
1 AAAAAAAG
22661452 AAAAAAAG
1 AAAAAAAG
22661460 AAAAAAA
1 AAAAAAA
22661467 AAGAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:22661912 original size:36 final size:36
Alignment explanation
Indices: 22661871--22661944 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
22661861 AAAAAGACAG
* *
22661871 AAAATGATTGAATGGCAAATGTGGAAAATGAAAGGA
1 AAAATGATTGAATGGCAAATGTGAAAAATCAAAGGA
*
22661907 AAAATGATTGAATGGCAAGTGTGAAAAATCAAAGGA
1 AAAATGATTGAATGGCAAATGTGAAAAATCAAAGGA
22661943 AA
1 AA
22661945 GAAGTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.04, G:0.26, T:0.19
Consensus pattern (36 bp):
AAAATGATTGAATGGCAAATGTGAAAAATCAAAGGA
Found at i:22665012 original size:46 final size:46
Alignment explanation
Indices: 22664886--22665171 Score: 242
Period size: 46 Copynumber: 6.2 Consensus size: 46
22664876 CTTTAATTAG
* * * *
22664886 AGGAGCTTTTAACTTTGTTTTCAAAAGTTGTTGAGTATTTT-CTCAA
1 AGGAACTTTTAAATTTATTTTCAAAAGTTGTTGAGTCTTTTCCT-AA
* * * *
22664932 AGGAA-TTTTAAAATTTATTTTAAAAACTTATTGAGTCTTTGCCTAA
1 AGGAACTTTT-AAATTTATTTTCAAAAGTTGTTGAGTCTTTTCCTAA
* * *
22664978 AGGAGCTTTTAAATTTATTTTCGAAAA-TTGTTGAGCCTTTTCGTAA
1 AGGAACTTTTAAATTTATTTTC-AAAAGTTGTTGAGTCTTTTCCTAA
** * **
22665024 AATAACTTTTAAATTTATTTTCAAAAGCTGTTGAG-CGTTTTTGTAA
1 AGGAACTTTTAAATTTATTTTCAAAAGTTGTTGAGTC-TTTTCCTAA
* * * * *
22665070 A-AAAGCTTTTAAATATATTTTTAAAAGTTATTGAGTCTTTTCATAA
1 AGGAA-CTTTTAAATTTATTTTCAAAAGTTGTTGAGTCTTTTCCTAA
* * ** *
22665116 AGTAACTTTTAAATTTGTTTTTGAAAGTTGTT-AGGTCTTTTTCTAA
1 AGGAACTTTTAAATTTATTTTCAAAAGTTGTTGA-GTCTTTTCCTAA
22665162 AGGAACTTTT
1 AGGAACTTTT
22665172 GAGAATTAAC
Statistics
Matches: 196, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
45 12 0.06
46 171 0.87
47 13 0.07
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (46 bp):
AGGAACTTTTAAATTTATTTTCAAAAGTTGTTGAGTCTTTTCCTAA
Found at i:22665058 original size:92 final size:90
Alignment explanation
Indices: 22664886--22665171 Score: 267
Period size: 92 Copynumber: 3.1 Consensus size: 90
22664876 CTTTAATTAG
* * * *
22664886 AGGAGCTTTTAACTTTGTTTTCAAAAGTTGTTGAGTATTTTCTCAAAGGAA-TTTTAAAATTTAT
1 AGGAGCTTTTAAATTTATTTTCAAAAGTTGTTGAGTCTTTTCT-AAAGTAACTTTT-AAATTTAT
* *
22664950 TTTAAAAACTTATTGA-GTCTTTGCCTAA
64 TTTAAAAGC-TGTTGAGGTCTTTG-CTAA
* *
22664978 AGGAGCTTTTAAATTTATTTTCGAAAA-TTGTTGAGCCTTTTCGTAAAATAACTTTTAAATTTAT
1 AGGAGCTTTTAAATTTATTTTC-AAAAGTTGTTGAGTCTTTTC-TAAAGTAACTTTTAAATTTAT
*
22665042 TTTCAAAAGCTGTTGAGCGTTTTTG-TAA
64 TTT-AAAAGCTGTTGAG-GTCTTTGCTAA
** * * * *
22665070 AAAAGCTTTTAAATATATTTTTAAAAGTTATTGAGTCTTTTCATAAAGTAACTTTTAAATTTGTT
1 AGGAGCTTTTAAATTTATTTTCAAAAGTTGTTGAGTCTTTTC-TAAAGTAACTTTTAAATTT-AT
* * *
22665135 TTTGAAAGTTGTT-AGGTCTTTTTCTAA
64 TTTAAAAGCTGTTGAGGTC-TTTGCTAA
*
22665162 AGGAACTTTT
1 AGGAGCTTTT
22665172 GAGAATTAAC
Statistics
Matches: 159, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
90 2 0.01
91 9 0.06
92 124 0.78
93 18 0.11
94 6 0.04
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (90 bp):
AGGAGCTTTTAAATTTATTTTCAAAAGTTGTTGAGTCTTTTCTAAAGTAACTTTTAAATTTATTT
TAAAAGCTGTTGAGGTCTTTGCTAA
Found at i:22665188 original size:138 final size:139
Alignment explanation
Indices: 22664937--22665188 Score: 289
Period size: 138 Copynumber: 1.8 Consensus size: 139
22664927 CTCAAAGGAA
* * *
22664937 TTTTAAAATTTATTTTAAAAACTTATTGAGTCTTTGCCTAAAGGAGCTTTTAAATTTATTTTCGA
1 TTTTAAAATATATTTTAAAAACTTATTGAGTCTTTGCATAAAGGAACTTTTAAATTTATTTTCGA
* ***
22665002 AAATTGTTGAGCCTTTTCGTAAAATAACTTTTAAATTTATTTTCAAAAGCTGTTGAGCGTTTTTG
66 AAATTGTTGAGCCTTTTCGTAAAAGAACTTTTAAATTTAACGTCAAAAGCTGTTGAGCGTTTTTG
22665067 TAAAAAAGC
131 TAAAAAAGC
* * * * * *
22665076 TTTT-AAATATATTTTTAAAAGTTATTGAGTCTTTTCATAAAGTAACTTTTAAATTTGTTTTTGA
1 TTTTAAAATATATTTTAAAAACTTATTGAGTCTTTGCATAAAGGAACTTTTAAATTTATTTTCGA
* * *
22665140 AAGTTGTT-AGGTCTTTTTC-TAAAGGAACTTTTGAGAA-TTAACGT-AAAAG
66 AAATTGTTGA-G-CCTTTTCGTAAAAGAACTTTT-A-AATTTAACGTCAAAAG
22665189 AGCTTATAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
137 1 0.01
138 75 0.81
139 15 0.16
140 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.45
Consensus pattern (139 bp):
TTTTAAAATATATTTTAAAAACTTATTGAGTCTTTGCATAAAGGAACTTTTAAATTTATTTTCGA
AAATTGTTGAGCCTTTTCGTAAAAGAACTTTTAAATTTAACGTCAAAAGCTGTTGAGCGTTTTTG
TAAAAAAGC
Found at i:22665270 original size:17 final size:17
Alignment explanation
Indices: 22665248--22665303 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
22665238 TTTTTTAATT
*
22665248 AAAAATCCAAAAAATAA
1 AAAAATACAAAAAATAA
*
22665265 AAAAATATAAAAAA-AGA
1 AAAAATACAAAAAATA-A
* **
22665282 AAAAATTCAAAAGGTAA
1 AAAAATACAAAAAATAA
22665299 AAAAA
1 AAAAA
22665304 AAAGCATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAATACAAAAAATAA
Found at i:22665335 original size:30 final size:30
Alignment explanation
Indices: 22665297--22665354 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
22665287 TTCAAAAGGT
*
22665297 AAAAAAAAAAGCATAAAAAAGAG-AAAAGA
1 AAAAAAAAAAGAATAAAAAAGAGCAAAAGA
* *
22665326 AAAACAAAAAATAATACAAAAGAGCAAAA
1 AAAA-AAAAAAGAATAAAAAAGAGCAAAA
22665355 CATACAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 16 0.67
31 4 0.17
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (30 bp):
AAAAAAAAAAGAATAAAAAAGAGCAAAAGA
Found at i:22665379 original size:25 final size:25
Alignment explanation
Indices: 22665323--22665379 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
22665313 AAAAGAGAAA
22665323 AGAAAAACAAAAAATAATACAAAAG
1 AGAAAAACAAAAAATAATACAAAAG
* *
22665348 AGCAAAACATACAAAA-AA-ACAAAAT
1 AGAAAAACA-A-AAAATAATACAAAAG
22665373 AGAAAAA
1 AGAAAAA
22665380 ACCTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 20 0.74
26 3 0.11
27 4 0.15
ACGTcount: A:0.75, C:0.11, G:0.07, T:0.07
Consensus pattern (25 bp):
AGAAAAACAAAAAATAATACAAAAG
Found at i:22667322 original size:22 final size:20
Alignment explanation
Indices: 22667283--22667323 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
22667273 ACATATAATA
22667283 AAATATTTATAATTTTATTG
1 AAATATTTATAATTTTATTG
*
22667303 AAATATATTATTATTATTATT
1 AAATAT-TTATAATT-TTATT
22667324 ATTACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
AAATATTTATAATTTTATTG
Found at i:22668273 original size:32 final size:32
Alignment explanation
Indices: 22668173--22668276 Score: 111
Period size: 32 Copynumber: 3.1 Consensus size: 32
22668163 TTTTTTCTAA
22668173 TATTTCAAGACATGCAAATTTTCTAAAAATAT
1 TATTTCAAGACATGCAAATTTTCTAAAAATAT
* ** *
22668205 TATTGACATAAGTA-ATGCAAAAAATTATAAAAATAT
1 TATT-TC--AAG-ACATGC-AAATTTTCTAAAAATAT
*
22668241 TATTTCAAGACATGCAAGTTTTCTAAAAATAT
1 TATTTCAAGACATGCAAATTTTCTAAAAATAT
22668273 TATT
1 TATT
22668277 GACATAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
32 22 0.39
33 8 0.14
35 8 0.14
36 19 0.33
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (32 bp):
TATTTCAAGACATGCAAATTTTCTAAAAATAT
Found at i:22671071 original size:24 final size:24
Alignment explanation
Indices: 22670986--22671071 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 24
22670976 AAGTTTTTCA
* *
22670986 AATGAGAATCTTTAAAATTTTTTG
1 AATGAGAATCTTTTAAATTTTTTT
* * * *
22671010 ACTGAGAATATTTGAAA-TTTTGT
1 AATGAGAATCTTTTAAATTTTTTT
* **
22671033 -ATGTGAATC-ACTAAATTTTTTT
1 AATGAGAATCTTTTAAATTTTTTT
*
22671055 AATGTGAATCTTTTAAA
1 AATGAGAATCTTTTAAA
22671072 ATTTGGATGT
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
21 3 0.07
22 11 0.24
23 13 0.29
24 18 0.40
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (24 bp):
AATGAGAATCTTTTAAATTTTTTT
Found at i:22671082 original size:45 final size:45
Alignment explanation
Indices: 22671000--22671086 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
22670990 AGAATCTTTA
* * *
22671000 AAATTTTTTGACTGAGAATATTTGAAATTTTGTATGTGAATCACT
1 AAATTTTTTGAATGAGAATATTTGAAAATTTGGATGTGAATCACT
* * * *
22671045 AAATTTTTTTAATGTGAATCTTTTAAAATTTGGATGTGAATC
1 AAATTTTTTGAATGAGAATATTTGAAAATTTGGATGTGAATC
22671087 CTTATTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (45 bp):
AAATTTTTTGAATGAGAATATTTGAAAATTTGGATGTGAATCACT
Found at i:22671458 original size:16 final size:16
Alignment explanation
Indices: 22671400--22671475 Score: 50
Period size: 16 Copynumber: 4.7 Consensus size: 16
22671390 GAATATGAAA
*
22671400 TTCTTGTAAATCTGAG
1 TTCTTGTGAATCTGAG
* *
22671416 TTTTTGTG-ATCTTCCA-
1 TTCTTGTGAATC-T-GAG
**
22671432 TTCTTAAGAATCTGAG
1 TTCTTGTGAATCTGAG
22671448 TTCTTGTGAATCTGAAAG
1 TTCTTGTGAATCTG--AG
22671466 -TCTTGTGAAT
1 TTCTTGTGAAT
22671476 TTTTGAATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
15 4 0.09
16 25 0.56
17 14 0.31
18 2 0.04
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (16 bp):
TTCTTGTGAATCTGAG
Found at i:22671693 original size:52 final size:52
Alignment explanation
Indices: 22671574--22671703 Score: 127
Period size: 52 Copynumber: 2.5 Consensus size: 52
22671564 TGAAGTTTTG
* * * * *
22671574 TGAATCATTGAAATTCTAGCGAACCTAAAATTCTTGTGAATCAAAAAGTTTTG
1 TGAATCTTTG-AATTCTTGTGAACCTAAAATTCTTGTGAATCAAAAAGTCTTA
* * * * * *
22671627 CGAATTTTTAAATTCTTGTGAACCTATAATTCTTGTGACT-ATGAAAGTCTTA
1 TGAATCTTTGAATTCTTGTGAACCTAAAATTCTTGTGAATCA-AAAAGTCTTA
*
22671679 TGAATCTTTGAATTCTTGTAAACCT
1 TGAATCTTTGAATTCTTGTGAACCT
22671704 GAAGTTTTTG
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
51 1 0.02
52 54 0.89
53 6 0.10
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (52 bp):
TGAATCTTTGAATTCTTGTGAACCTAAAATTCTTGTGAATCAAAAAGTCTTA
Found at i:22671764 original size:18 final size:17
Alignment explanation
Indices: 22671689--22671786 Score: 81
Period size: 17 Copynumber: 5.7 Consensus size: 17
22671679 TGAATCTTTG
* *
22671689 AATTCTTGTAAACCTGA
1 AATTCTTGCAAATCTGA
* *
22671706 AGTTTTTGCAAAAT-TGA
1 AATTCTTGC-AAATCTGA
* * *
22671723 AATTCCTGCAAATTTGG
1 AATTCTTGCAAATCTGA
*
22671740 AATTCTTGCAAATCTTTA
1 AATTCTTGCAAATC-TGA
* *
22671758 CATTCTTACAAATCTGA
1 AATTCTTGCAAATCTGA
22671775 AATTCTTGCAAA
1 AATTCTTGCAAA
22671787 AATAAATGTC
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
16 4 0.07
17 41 0.67
18 16 0.26
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTCTTGCAAATCTGA
Found at i:22675152 original size:142 final size:142
Alignment explanation
Indices: 22674892--22675167 Score: 498
Period size: 142 Copynumber: 1.9 Consensus size: 142
22674882 AGGAAGATGA
22674892 AATTGGGACAAAATACAAAGGAAAAAGCTAATAGAAAGATGATAAATCAGTAGCCAAACTGCTGC
1 AATTGGGACAAAATACAAAGGAAAAAGCTAATAGAAAGATGATAAATCAGTAGCCAAACTGCTGC
* *
22674957 TACTTGGAGAAAGTAAAACAGAGCAATAAAAAAATGGAGTCTCGTTTGGTTCGGTTCCTTCCTCT
66 TACTTGGAGAAAGTAAAACAGAGCAATAAAAAAATGAAGTCTCGTTTGGTTCGGTTCCTCCCTCT
22675022 TTTTGCAGTTGG
131 TTTTGCAGTTGG
*
22675034 AATTGGGACAAAATACAAAGGAAAAAGCTAATAGAAAGATGATAAATCAGTAGCCAAATTGCTGC
1 AATTGGGACAAAATACAAAGGAAAAAGCTAATAGAAAGATGATAAATCAGTAGCCAAACTGCTGC
* * *
22675099 TACTTGGAGAAAGTAAAGCAGAGCAGTAAAAAAATGAAGTCTCGTTTGTTTCGGTTCCTCCCTCT
66 TACTTGGAGAAAGTAAAACAGAGCAATAAAAAAATGAAGTCTCGTTTGGTTCGGTTCCTCCCTCT
22675164 TTTT
131 TTTT
22675168 ACAGCAGCAA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 128 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (142 bp):
AATTGGGACAAAATACAAAGGAAAAAGCTAATAGAAAGATGATAAATCAGTAGCCAAACTGCTGC
TACTTGGAGAAAGTAAAACAGAGCAATAAAAAAATGAAGTCTCGTTTGGTTCGGTTCCTCCCTCT
TTTTGCAGTTGG
Found at i:22681129 original size:13 final size:13
Alignment explanation
Indices: 22681111--22681138 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22681101 TCCTATTAAT
22681111 TAGGGTAGGTAAA
1 TAGGGTAGGTAAA
22681124 TAGGGTAGGTAAA
1 TAGGGTAGGTAAA
22681137 TA
1 TA
22681139 ATTAATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (13 bp):
TAGGGTAGGTAAA
Found at i:22682109 original size:27 final size:27
Alignment explanation
Indices: 22682079--22682131 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
22682069 AAAAAAATAG
22682079 TACTATTTATTCTTTGAAATATCTTAA
1 TACTATTTATTCTTTGAAATATCTTAA
22682106 TACTATTTATTCTTTGAAATATCTTA
1 TACTATTTATTCTTTGAAATATCTTA
22682132 TTGGATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (27 bp):
TACTATTTATTCTTTGAAATATCTTAA
Found at i:22687025 original size:13 final size:13
Alignment explanation
Indices: 22687007--22687032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22686997 CATTAATTAG
22687007 GGTAGGTAAATAA
1 GGTAGGTAAATAA
22687020 GGTAGGTAAATAA
1 GGTAGGTAAATAA
22687033 TTAATGCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
GGTAGGTAAATAA
Found at i:22689934 original size:28 final size:29
Alignment explanation
Indices: 22689894--22689951 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
22689884 AATTATAGTG
22689894 AAATATTTAATGTGATATTTGAATT-TAA
1 AAATATTTAATGTGATATTTGAATTGTAA
*
22689922 AAATTTTTAATGTGATATTTGAATTGTAA
1 AAATATTTAATGTGATATTTGAATTGTAA
22689951 A
1 A
22689952 TTTATTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (29 bp):
AAATATTTAATGTGATATTTGAATTGTAA
Found at i:22689959 original size:28 final size:27
Alignment explanation
Indices: 22689894--22689959 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
22689884 AATTATAGTG
*
22689894 AAATATTTAATGTGATATTTGAATTTAA
1 AAATTTTTAATGTGATATTTGAATTT-A
22689922 AAATTTTTAATGTGATATTTGAATTGT-
1 AAATTTTTAATGTGATATTTGAATT-TA
22689949 AAATTTATTAA
1 AAATTT-TTAA
22689960 CTAATATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 6 0.17
28 28 0.80
29 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (27 bp):
AAATTTTTAATGTGATATTTGAATTTA
Found at i:22691128 original size:24 final size:24
Alignment explanation
Indices: 22691101--22691149 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22691091 TTGGATTTAT
* * *
22691101 ATTTGATGTATTATTATTATATAA
1 ATTTGATATATTATTAATAAATAA
*
22691125 ATTTTATATATTATTAATAAATAA
1 ATTTGATATATTATTAATAAATAA
22691149 A
1 A
22691150 AAGGCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTGATATATTATTAATAAATAA
Done.