Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 58 of 318
Found at i:20763608 original size:16 final size:16
Alignment explanation
Indices: 20763568--20763608 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20763558 ATTTATTTCA
20763568 TAATA-TAATTAATAT
1 TAATAGTAATTAATAT
*
20763583 TAATATTAATTAATAAT
1 TAATAGTAATTAAT-AT
20763600 T-ATAGTAAT
1 TAATAGTAAT
20763609 GATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 15 0.65
17 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATAGTAATTAATAT
Found at i:20763851 original size:22 final size:24
Alignment explanation
Indices: 20763808--20763854 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
20763798 TGTATTACAA
20763808 ATGTATGTATATTATTTATCACAC
1 ATGTATGTATATTATTTATCACAC
*
20763832 ATGTAT-TTTATTA-TTATCACAC
1 ATGTATGTATATTATTTATCACAC
20763854 A
1 A
20763855 CTTGGCACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 6 0.27
24 6 0.27
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (24 bp):
ATGTATGTATATTATTTATCACAC
Found at i:20779703 original size:5 final size:5
Alignment explanation
Indices: 20779693--20779724 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
20779683 TGAAAAGGAT
20779693 AGATG AGATG AGATG AGATG AGATG AGATG AG
1 AGATG AGATG AGATG AGATG AGATG AGATG AG
20779725 GGAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (5 bp):
AGATG
Found at i:20781085 original size:29 final size:29
Alignment explanation
Indices: 20781043--20781109 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
20781033 CCCTAAAATG
20781043 GAAGGAATTTGAAACCAAAGTTGTTATTT
1 GAAGGAATTTGAAACCAAAGTTGTTATTT
20781072 GAAGGAATTTGAAACCAAAGTTGTTATTT
1 GAAGGAATTTGAAACCAAAGTTGTTATTT
20781101 GAAGGAATT
1 GAAGGAATT
20781110 AATATTAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (29 bp):
GAAGGAATTTGAAACCAAAGTTGTTATTT
Found at i:20784856 original size:21 final size:21
Alignment explanation
Indices: 20784830--20784871 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20784820 ATAACATATA
20784830 AATTTATTATAAAAATATAAT
1 AATTTATTATAAAAATATAAT
20784851 AATTTATTATAAAAATATAAT
1 AATTTATTATAAAAATATAAT
20784872 TTTTACTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTATTATAAAAATATAAT
Found at i:20789208 original size:15 final size:15
Alignment explanation
Indices: 20789188--20789295 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
20789178 TTTATGGAAA
*
20789188 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
20789203 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
*
20789217 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
20789233 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
20789247 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
**
20789263 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
20789277 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
20789293 ATC
1 ATC
20789296 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:20789225 original size:30 final size:30
Alignment explanation
Indices: 20789182--20789305 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
20789172 TCCATATTTA
* *
20789182 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
20789212 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
20789242 TGGAAAGTCAAATATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
20789272 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
20789303 TGG
1 TGG
20789306 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:20793900 original size:15 final size:15
Alignment explanation
Indices: 20793880--20793987 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
20793870 TTTATGGAAA
*
20793880 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
20793895 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
*
20793909 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
20793925 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
20793939 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
**
20793955 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
20793969 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
20793985 ATC
1 ATC
20793988 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:20793917 original size:30 final size:30
Alignment explanation
Indices: 20793874--20793997 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
20793864 TCCATATTTA
* *
20793874 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
20793904 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
20793934 TGGAAAGTCAAATATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
20793964 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
20793995 TGG
1 TGG
20793998 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:20823441 original size:22 final size:21
Alignment explanation
Indices: 20823405--20823445 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20823395 CACGATCAAC
20823405 AAATATATTAATATATAAACA
1 AAATATATTAATATATAAACA
*
20823426 AAATATAATTATTATATAAA
1 AAATAT-ATTAATATATAAA
20823446 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATATTAATATATAAACA
Found at i:20823450 original size:21 final size:21
Alignment explanation
Indices: 20823405--20823469 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
20823395 CACGATCAAC
* *
20823405 AAATAT-ATTAATATATAAACA
1 AAATATAATTATTATATAAA-T
20823426 AAATATAATTATTATATAAAT
1 AAATATAATTATTATATAAAT
* *
20823447 AAATTTAA--ATGATATAAAT
1 AAATATAATTATTATATAAAT
20823466 AAAT
1 AAAT
20823470 GAAAGTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 14 0.36
21 13 0.33
22 12 0.31
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATATAATTATTATATAAAT
Found at i:20827223 original size:7 final size:7
Alignment explanation
Indices: 20827211--20827236 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20827201 GATTCTTGCC
20827211 CTCAACT
1 CTCAACT
20827218 CTCAACT
1 CTCAACT
20827225 CTCAACT
1 CTCAACT
20827232 CTCAA
1 CTCAA
20827237 ATTACTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (7 bp):
CTCAACT
Found at i:20827654 original size:17 final size:18
Alignment explanation
Indices: 20827624--20827657 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20827614 ATAGTAGTTA
*
20827624 AATATAATTTTATTTTTC
1 AATATAATTATATTTTTC
20827642 AATA-AATTATATTTTT
1 AATATAATTATATTTTT
20827658 ATAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
AATATAATTATATTTTTC
Found at i:20832906 original size:53 final size:53
Alignment explanation
Indices: 20832753--20832912 Score: 200
Period size: 53 Copynumber: 3.0 Consensus size: 53
20832743 GAAAAATATG
* ** *
20832753 TGATAA-GTG-CTCCCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATG
1 TGATAATGTGACT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATA
*
20832805 TGATAATGTGACTCCATATAAGACCATAGCTGGGCTATGGCATCGGTATAATA
1 TGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATA
* * * *
20832858 TGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATA
1 TGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATA
20832911 TG
1 TG
20832913 TGAACCGTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 7 0.07
53 86 0.91
54 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (53 bp):
TGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATA
Found at i:20835276 original size:13 final size:12
Alignment explanation
Indices: 20835258--20835310 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
20835248 TTTACTTCTT
20835258 TTTTTAATAAAAA
1 TTTTTAA-AAAAA
**
20835271 TTTTTAAAAAGG
1 TTTTTAAAAAAA
20835283 TTTTTAAAAAAA
1 TTTTTAAAAAAA
*
20835295 TTTATT-TAAAAA
1 TTT-TTAAAAAAA
20835307 TTTT
1 TTTT
20835311 AAATGTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 1 0.03
12 24 0.71
13 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (12 bp):
TTTTTAAAAAAA
Found at i:20835351 original size:19 final size:21
Alignment explanation
Indices: 20835320--20835378 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 21
20835310 TAAATGTTTA
20835320 AATATTATTAAAAAT-ATATTT
1 AATATT-TTAAAAATAATATTT
20835341 AATA-TTTAAAAATAATATTT
1 AATATTTTAAAAATAATATTT
20835361 AATATTTTAAAAAATAAT
1 AATATTTT-AAAAATAAT
20835379 TTCAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.23
20 11 0.31
21 7 0.20
22 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATTTTAAAAATAATATTT
Found at i:20835352 original size:20 final size:20
Alignment explanation
Indices: 20835320--20835373 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
20835310 TAAATGTTTA
20835320 AATATTATTAAAAATATATTT
1 AATATT-TTAAAAATATATTT
20835341 AATA-TTTAAAAATAATATTT
1 AATATTTTAAAAAT-ATATTT
20835361 AATATTTTAAAAA
1 AATATTTTAAAAA
20835374 ATAATTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.26
20 11 0.35
21 12 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTTTAAAAATATATTT
Found at i:20835395 original size:15 final size:14
Alignment explanation
Indices: 20835362--20835399 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
20835352 ATAATATTTA
*
20835362 ATATTTTAAAAAAT
1 ATATTTCAAAAAAT
20835376 A-ATTTCAAAAATAT
1 ATATTTCAAAAA-AT
20835390 ATATTTCAAA
1 ATATTTCAAA
20835400 TTTAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.43
14 4 0.19
15 8 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATTTCAAAAAAT
Found at i:20835411 original size:21 final size:22
Alignment explanation
Indices: 20835376--20835422 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
20835366 TTTAAAAAAT
20835376 AATTTCAAAAATATATATTTCA
1 AATTTCAAAAATATATATTTCA
* * *
20835398 AATTT-AAAAGTATATTTTTGA
1 AATTTCAAAAATATATATTTCA
20835419 AATT
1 AATT
20835423 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTCA
Found at i:20835453 original size:14 final size:14
Alignment explanation
Indices: 20835434--20835514 Score: 62
Period size: 13 Copynumber: 5.9 Consensus size: 14
20835424 TTTTATTTTA
20835434 TTTAAAAATATATT
1 TTTAAAAATATATT
20835448 TTTAAAAATATA--
1 TTTAAAAATATATT
* *
20835460 TTTAAAATTTAAAATT
1 TTTAAAA-AT-ATATT
** *
20835476 TAGAAAAAT-TAAT
1 TTTAAAAATATATT
*
20835489 TTCAAAAATATATT
1 TTTAAAAATATATT
20835503 TTT-AAAATATAT
1 TTTAAAAATATAT
20835515 AAGACATATT
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
12 7 0.14
13 19 0.37
14 19 0.37
15 1 0.02
16 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:20835507 original size:36 final size:34
Alignment explanation
Indices: 20835344--20835590 Score: 164
Period size: 34 Copynumber: 7.0 Consensus size: 34
20835334 TATATTTAAT
*
20835344 ATTT-AAAAATA-ATATTTAATATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAA-AATTTAAAAAATA
* *
20835377 ATTTCAAAAATATATATTTCAAATTTAAAAGTATA
1 ATTTCAAAAATATATATTTAAAATTTAAAA-AATA
* ** * * *
20835412 TTTTTGAAATTATTTTATTT--TATTTAAAAATATA
1 ATTTCAAAAATA-TATATTTAAAATTTAAAAA-ATA
* *
20835446 TTTTTAAAAATATATTTAAAATTTAAAATTTAGAAAAATTA
1 ATTTCAAAAATATA--T---ATTTAAAATTTA-AAAAA-TA
* * *
20835487 ATTTCAAAAATATATTTTTAAAATATATAAGACATA
1 ATTTCAAAAATATATATTTAAAAT-T-TAAAAAATA
* * *
20835523 TTTTCAAAAAAATAATATTCAAAATTTAAAAAATA
1 ATTTCAAAAATAT-ATATTTAAAATTTAAAAAATA
20835558 ATTT-AAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAA-TTTAAAAAATA
20835591 TATTATAAAA
Statistics
Matches: 168, Mismatches: 28, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
32 9 0.05
33 16 0.10
34 42 0.25
35 29 0.17
36 28 0.17
37 13 0.08
38 6 0.04
39 1 0.01
40 6 0.04
41 18 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
ATTTCAAAAATATATATTTAAAATTTAAAAAATA
Found at i:20835553 original size:21 final size:20
Alignment explanation
Indices: 20835529--20835567 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20835519 CATATTTTCA
*
20835529 AAAAAATAATATTCAAAATTT
1 AAAAAATAAT-TTAAAAATTT
20835550 AAAAAATAATTTAAAAAT
1 AAAAAATAATTTAAAAAT
20835568 AATATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATAATTTAAAAATTT
Found at i:20835571 original size:32 final size:35
Alignment explanation
Indices: 20835530--20835600 Score: 112
Period size: 32 Copynumber: 2.1 Consensus size: 35
20835520 ATATTTTCAA
20835530 AAAAATAATATTCAAAA-TTTAAAAAATA-ATT-T
1 AAAAATAATATTCAAAATTTTAAAAAATATATTAT
*
20835562 AAAAATAATATTTAAAATTTTAAAAAATATATTAT
1 AAAAATAATATTCAAAATTTTAAAAAATATATTAT
20835597 AAAA
1 AAAA
20835601 CATTTCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
32 16 0.46
33 11 0.31
34 3 0.09
35 5 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAAATAATATTCAAAATTTTAAAAAATATATTAT
Found at i:20835721 original size:20 final size:21
Alignment explanation
Indices: 20835688--20835743 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
20835678 ATAAAACTCA
*
20835688 AAAAAAGAAAAAAAATTAAAG
1 AAAAAAGAACAAAAATTAAAG
* *
20835709 AAAAAAG-ACAAAAGTTAAAT
1 AAAAAAGAACAAAAATTAAAG
*
20835729 AAAAAAGTACAAAAA
1 AAAAAAGAACAAAAA
20835744 AAAAAGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAAAAGAACAAAAATTAAAG
Found at i:20836160 original size:23 final size:20
Alignment explanation
Indices: 20836128--20836176 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
20836118 AAGGGTTAGA
20836128 AAAATAGAAAGATAGAAAATAT
1 AAAATAGAAAGA-AGAAAA-AT
*
20836150 ATAAATGGAAAGAAGAAAAAT
1 A-AAATAGAAAGAAGAAAAAT
20836171 AAAATA
1 AAAATA
20836177 TAATTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 3 0.12
22 7 0.29
23 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAATAGAAAGAAGAAAAAT
Found at i:20847309 original size:28 final size:29
Alignment explanation
Indices: 20847278--20847355 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
20847268 TATTATTATT
*
20847278 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
20847306 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
20847334 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
20847356 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:20847355 original size:31 final size:28
Alignment explanation
Indices: 20847289--20847356 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
20847279 ATATAAATAT
**
20847289 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
20847317 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
20847348 ATAAATTAA
1 ATAAATTAA
20847357 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:20848249 original size:3 final size:3
Alignment explanation
Indices: 20848243--20848269 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20848233 GTATTAATAA
20848243 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
20848270 GAGTGGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20854763 original size:28 final size:29
Alignment explanation
Indices: 20854732--20854809 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
20854722 TATTATTATT
*
20854732 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
20854760 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
20854788 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
20854810 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:20854809 original size:31 final size:28
Alignment explanation
Indices: 20854743--20854810 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
20854733 ATATAAATAT
**
20854743 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
20854771 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
20854802 ATAAATTAA
1 ATAAATTAA
20854811 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:20854977 original size:16 final size:16
Alignment explanation
Indices: 20854958--20854992 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20854948 AAAGAAAAAG
20854958 AAAGAAACAAAACAGA
1 AAAGAAACAAAACAGA
* *
20854974 AAAGAAACAGAATAGA
1 AAAGAAACAAAACAGA
20854990 AAA
1 AAA
20854993 AACAAAGGAA
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:0.74, C:0.09, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAGAAACAAAACAGA
Found at i:20855032 original size:11 final size:11
Alignment explanation
Indices: 20855016--20855041 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20855006 AGAAAGAGAC
20855016 GAAACAGGGGA
1 GAAACAGGGGA
20855027 GAAACAGGGGA
1 GAAACAGGGGA
20855038 GAAA
1 GAAA
20855042 GAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:20864266 original size:13 final size:12
Alignment explanation
Indices: 20864248--20864284 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
20864238 TTATATATAT
20864248 TTTAAACTAAAAA
1 TTTAAAC-AAAAA
20864261 TTTAAACAAAAA
1 TTTAAACAAAAA
*
20864273 GTTAAACAAAAA
1 TTTAAACAAAAA
20864285 AGGAGAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (12 bp):
TTTAAACAAAAA
Found at i:20877378 original size:23 final size:23
Alignment explanation
Indices: 20877351--20877397 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20877341 AAAATACATG
20877351 TGTAAAAA-TATTATACATATACT
1 TGTAAAAATTA-TATACATATACT
* *
20877374 TGTAATAATTATATACATTTACT
1 TGTAAAAATTATATACATATACT
20877397 T
1 T
20877398 ATTATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (23 bp):
TGTAAAAATTATATACATATACT
Found at i:20877480 original size:18 final size:19
Alignment explanation
Indices: 20877445--20877495 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
20877435 AAATATAAAA
20877445 GAAACAAAACAAAAAGAAT
1 GAAACAAAACAAAAAGAAT
* *
20877464 GAAA-AAAAGAAACAGAAT
1 GAAACAAAACAAAAAGAAT
20877482 AGCAAACGAAAACA
1 -G-AAAC-AAAACA
20877496 GAGGAGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 12 0.48
19 5 0.20
20 3 0.12
22 5 0.20
ACGTcount: A:0.71, C:0.12, G:0.14, T:0.04
Consensus pattern (19 bp):
GAAACAAAACAAAAAGAAT
Found at i:20879201 original size:37 final size:37
Alignment explanation
Indices: 20879140--20879285 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
20879130 TACGTATGAT
* *
20879140 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
20879175 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
20879212 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
20879249 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
20879286 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:20879302 original size:46 final size:46
Alignment explanation
Indices: 20879249--20879517 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
20879239 TAAGTGTAGC
* **
20879249 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
20879295 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
20879341 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
20879393 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
20879439 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
20879491 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
20879518 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:20879368 original size:52 final size:52
Alignment explanation
Indices: 20879292--20879511 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
20879282 TAGCTAAAGC
* *
20879292 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
20879345 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
20879397 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
20879443 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
20879495 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
20879512 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:20879414 original size:98 final size:98
Alignment explanation
Indices: 20879249--20879517 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
20879239 TAAGTGTAGC
* * *
20879249 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
20879314 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
20879348 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
20879413 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
20879446 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
20879511 GATCAGA
66 GATCAGA
20879518 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:20887808 original size:15 final size:15
Alignment explanation
Indices: 20887788--20887816 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20887778 AGAAATTGAA
20887788 TAAAAATTTGAGAAC
1 TAAAAATTTGAGAAC
20887803 TAAAAATTTGAGAA
1 TAAAAATTTGAGAA
20887817 AATTGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (15 bp):
TAAAAATTTGAGAAC
Found at i:20888380 original size:21 final size:21
Alignment explanation
Indices: 20888347--20888386 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20888337 CTAATAACTC
*
20888347 TATTTAAACATAATTAAATAA
1 TATTTAAACATAAATAAATAA
**
20888368 TATTTAATTATAAATAAAT
1 TATTTAAACATAAATAAAT
20888387 GCTGAAATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAACATAAATAAATAA
Found at i:20889373 original size:42 final size:43
Alignment explanation
Indices: 20889318--20889425 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 43
20889308 TAGGCAATAA
* * * * * *
20889318 GGGATGTGCAGGCAACGGTGG-TGGTGGTGGTTTTGGCAGGGG
1 GGGAGGTGTAGGCAATGGTGGTTGGTGGAGGTTTCGGCAGAGG
20889360 GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGG
1 GGGAGGTGTAGGCAATGGTGG--TTGGTGGAGGTTTCGGCAGAGG
**
20889405 GGGAGGCATAGGCAATGGTGG
1 GGGAGGTGTAGGCAATGGTGG
20889426 AACCGGGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 18 0.33
45 37 0.67
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.22
Consensus pattern (43 bp):
GGGAGGTGTAGGCAATGGTGGTTGGTGGAGGTTTCGGCAGAGG
Found at i:20889388 original size:45 final size:45
Alignment explanation
Indices: 20889339--20889425 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
20889329 GCAACGGTGG
* * * **
20889339 TGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGTCT
1 TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGGTCT
20889384 TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGG
1 TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGG
20889426 AACCGGGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.15, C:0.08, G:0.53, T:0.24
Consensus pattern (45 bp):
TGGTGGAGGTTTCGGCAGAGGGGGAGGCATAGGCAATGGTGGTCT
Found at i:20890978 original size:13 final size:13
Alignment explanation
Indices: 20890960--20891007 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
20890950 CAATTATTTT
20890960 TATTAAAAAATTA
1 TATTAAAAAATTA
*
20890973 TATTAAATAATGATA
1 TATTAAAAAAT--TA
20890988 TATTAAATAAAATTA
1 TATT-AA-AAAATTA
20891003 TATTA
1 TATTA
20891008 CGTGTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 10 0.34
14 1 0.03
15 12 0.41
16 2 0.07
17 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
TATTAAAAAATTA
Found at i:20891004 original size:15 final size:15
Alignment explanation
Indices: 20890966--20891007 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
20890956 TTTTTATTAA
20890966 AAAATTATATTAAAT
1 AAAATTATATTAAAT
*
20890981 AATGA-TATATTAAAT
1 AA-AATTATATTAAAT
20890996 AAAATTATATTA
1 AAAATTATATTA
20891008 CGTGTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAAATTATATTAAAT
Found at i:20897245 original size:17 final size:17
Alignment explanation
Indices: 20897225--20897258 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20897215 CTTGTGATTC
*
20897225 TTCTTTTCTTGTTTTTT
1 TTCTTTTCTTCTTTTTT
*
20897242 TTCTTTTTTTCTTTTTT
1 TTCTTTTCTTCTTTTTT
20897259 ACATATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTCTTTTCTTCTTTTTT
Found at i:20897981 original size:18 final size:18
Alignment explanation
Indices: 20897958--20897992 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20897948 TTTTAATATA
20897958 ATAATTATAATTATAAGT
1 ATAATTATAATTATAAGT
* *
20897976 ATAATTTTAATTTTAAG
1 ATAATTATAATTATAAG
20897993 AAAATAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
ATAATTATAATTATAAGT
Found at i:20902447 original size:9 final size:9
Alignment explanation
Indices: 20902433--20902461 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
20902423 TTTCCCCTTT
20902433 CCCTCAAAC
1 CCCTCAAAC
20902442 CCCTCAAAC
1 CCCTCAAAC
20902451 CCCTCAAAC
1 CCCTCAAAC
20902460 CC
1 CC
20902462 TTTTATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.59, G:0.00, T:0.10
Consensus pattern (9 bp):
CCCTCAAAC
Found at i:20905693 original size:3 final size:3
Alignment explanation
Indices: 20905685--20905730 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
20905675 GTTAAAGAGT
20905685 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
20905731 AGTCTTATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20908191 original size:5 final size:5
Alignment explanation
Indices: 20908181--20908252 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
20908171 TGTTAAAAAA
* *
20908181 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
20908227 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
20908253 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:20908234 original size:19 final size:19
Alignment explanation
Indices: 20908210--20908252 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
20908200 ATTATGTTTT
20908210 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
20908229 TATATTATATTATATTATA
1 TATATTATATTATATTATA
20908248 TATAT
1 TATAT
20908253 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:20908282 original size:15 final size:15
Alignment explanation
Indices: 20908262--20908307 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
20908252 TACATAAAAC
20908262 AAAAGAAAGAATAGA
1 AAAAGAAAGAATAGA
20908277 AAAAGAAAGAA-AG-
1 AAAAGAAAGAATAGA
20908290 AAAAGAAACAGAATAGA
1 AAAAG-AA-AGAATAGA
20908307 A
1 A
20908308 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 15 0.56
16 2 0.07
17 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (15 bp):
AAAAGAAAGAATAGA
Found at i:20908309 original size:19 final size:19
Alignment explanation
Indices: 20908258--20908328 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
20908248 TATATACATA
*
20908258 AAACA-AAAGAAAGAATAG
1 AAACAGAAAGAAAGAAAAG
*
20908276 AAAAAGAAAGAAAGAAAAG
1 AAACAGAAAGAAAGAAAAG
* *
20908295 AAACAGAATAG-AAGAGACG
1 AAACAGAA-AGAAAGAAAAG
20908314 AAACAG--AGAAAGAAA
1 AAACAGAAAGAAAGAAA
20908329 CAGAGAGCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 2 0.05
17 5 0.11
18 4 0.09
19 31 0.70
20 2 0.05
ACGTcount: A:0.70, C:0.06, G:0.21, T:0.03
Consensus pattern (19 bp):
AAACAGAAAGAAAGAAAAG
Found at i:20909285 original size:46 final size:44
Alignment explanation
Indices: 20909226--20909340 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
20909216 ACAGGACAGA
* *
20909226 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
20909272 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
20909316 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
20909341 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:20909321 original size:44 final size:45
Alignment explanation
Indices: 20909226--20909359 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
20909216 ACAGGACAGA
* *
20909226 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
20909272 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
20909316 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
20909360 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:20913438 original size:46 final size:46
Alignment explanation
Indices: 20913369--20913638 Score: 210
Period size: 36 Copynumber: 6.6 Consensus size: 46
20913359 TTTAAGTACT
* *
20913369 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACCTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
20913415 TTTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
20913451 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
20913497 TCTGATCAAGTGAAAAAGTGATAA---GT-G--TTA--T--ACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
20913533 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
20913569 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
20913614 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
20913639 ATCATAGTAA
Statistics
Matches: 192, Mismatches: 11, Indels: 45
0.77 0.04 0.18
Matches are distributed among these distances:
36 91 0.47
37 2 0.01
38 1 0.01
39 2 0.01
40 6 0.03
41 2 0.01
42 3 0.02
43 12 0.06
44 8 0.04
45 14 0.07
46 51 0.27
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:20913446 original size:36 final size:36
Alignment explanation
Indices: 20913405--20913595 Score: 220
Period size: 36 Copynumber: 5.0 Consensus size: 36
20913395 GGTAGCTTTA
* *
20913405 GCTACACCTATTTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
20913441 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
20913486 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
20913523 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
20913559 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
20913595 G
1 G
20913596 GTAGTTTAGC
Statistics
Matches: 135, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
36 97 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:20913506 original size:82 final size:82
Alignment explanation
Indices: 20913369--20913559 Score: 319
Period size: 82 Copynumber: 2.3 Consensus size: 82
20913359 TTTAAGTACT
* *
20913369 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACCTATTTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACCTATCTGATCAAGTGAAAAAGT
20913434 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
20913451 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACCTATCTGATCAAGTGAAAAAGT
* *
20913516 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
*
20913533 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
20913560 CTATACTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 102 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACCTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:20917348 original size:32 final size:30
Alignment explanation
Indices: 20917290--20917383 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 30
20917280 AAATTACAAG
20917290 AGTAATTGAATCCTAATAAAACTCTTTCAAA
1 AGTAATTGAATCCTAATAAAACTCTTT-AAA
20917321 AGTAATTGAATCCTAATAAAAACTCTTTAAA
1 AGTAATTGAATCCTAAT-AAAACTCTTTAAA
20917352 GAGTAATTGAATCCTAATAAAACTCTTTAAA
1 -AGTAATTGAATCCTAATAAAACTCTTTAAA
20917383 A
1 A
20917384 TTATCTAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
30 1 0.02
31 33 0.54
32 27 0.44
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AGTAATTGAATCCTAATAAAACTCTTTAAA
Found at i:20922562 original size:4 final size:4
Alignment explanation
Indices: 20922550--20922580 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
20922540 TAAAATTAGT
20922550 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
20922581 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:20922976 original size:31 final size:31
Alignment explanation
Indices: 20922883--20922978 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
20922873 GGCAAATTAC
*
20922883 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
*
20922914 AAGAGTAATTGAATCCTAATAAAAACGCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
20922946 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20922977 AA
1 AA
20922979 ATTATCTAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:20925667 original size:22 final size:22
Alignment explanation
Indices: 20925633--20925675 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20925623 TACCCAAATA
20925633 ATAATAACAAAAT-AGTAGCAAT
1 ATAATAACAAAATGA-TAGCAAT
**
20925655 ATAATAATGAAATGATAGCAA
1 ATAATAACAAAATGATAGCAA
20925676 AACAATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATGATAGCAAT
Found at i:20949002 original size:19 final size:20
Alignment explanation
Indices: 20948980--20949019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
20948970 GGATGACAAT
20948980 GGAA-CTTACCACTGACATA
1 GGAACCTTACCACTGACATA
*
20948999 GGAACTCTTACTACTGACATA
1 GGAAC-CTTACCACTGACATA
20949020 TTAAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
GGAACCTTACCACTGACATA
Found at i:20952966 original size:14 final size:14
Alignment explanation
Indices: 20952947--20952973 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20952937 AGACAACATA
20952947 TATGTATGTATATG
1 TATGTATGTATATG
20952961 TATGTATGTATAT
1 TATGTATGTATAT
20952974 ATGTATAATC
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:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TATGTATGTATATG
Found at i:20954571 original size:22 final size:22
Alignment explanation
Indices: 20954525--20954572 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
20954515 AATTTCTTTT
*
20954525 TAAAAATAATGTTTGATAAACA
1 TAAAAATAATGTTTGATAAAAA
20954547 TAAAAATTAA-GTTATGA-AAAAA
1 TAAAAA-TAATGTT-TGATAAAAA
20954569 TAAA
1 TAAA
20954573 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAAATAATGTTTGATAAAAA
Found at i:20955106 original size:23 final size:23
Alignment explanation
Indices: 20955079--20955134 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
20955069 ACTATTTACT
20955079 AATGAATATTTT-ATAATATAAA
1 AATGAATATTTTAATAATATAAA
* *
20955101 ATATGAGTATTTTAATAGTATAAA
1 A-ATGAATATTTTAATAATATAAA
20955125 AATGAA-ATTT
1 AATGAATATTT
20955135 GTTTAACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (23 bp):
AATGAATATTTTAATAATATAAA
Found at i:20970597 original size:12 final size:13
Alignment explanation
Indices: 20970580--20970612 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
20970570 ACAGTAGGAG
20970580 TAATTAAT-ATAT
1 TAATTAATAATAT
20970592 TAATTAATAATAT
1 TAATTAATAATAT
20970605 TATATTAA
1 TA-ATTAA
20970613 ATGTAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 6 0.32
14 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTAATAATAT
Found at i:20975645 original size:19 final size:20
Alignment explanation
Indices: 20975623--20975662 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
20975613 GGATGACAAT
20975623 GGAA-CTTACCACTGACATA
1 GGAACCTTACCACTGACATA
*
20975642 GGAACTCTTACTACTGACATA
1 GGAAC-CTTACCACTGACATA
20975663 TTAAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
GGAACCTTACCACTGACATA
Found at i:20979615 original size:14 final size:14
Alignment explanation
Indices: 20979596--20979622 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20979586 AGACAACATA
20979596 TATGTATGTATATG
1 TATGTATGTATATG
20979610 TATGTATGTATAT
1 TATGTATGTATAT
20979623 ATGTATAATC
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:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TATGTATGTATATG
Found at i:20981224 original size:23 final size:22
Alignment explanation
Indices: 20981177--20981225 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
20981167 AATTTCTTTT
* *
20981177 TAAAAATAATGTTTGATAAACA
1 TAAAAATAATGTTTGAAAAAAA
20981199 TAAAAATTAA-GTTATGAAAAAAA
1 TAAAAA-TAATGTT-TGAAAAAAA
20981222 TAAA
1 TAAA
20981226 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAAATAATGTTTGAAAAAAA
Found at i:20981629 original size:17 final size:16
Alignment explanation
Indices: 20981604--20981647 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
20981594 AAAATTAAAT
* *
20981604 TTTAAATTTTATAATA
1 TTTAAATTTAAGAATA
20981620 TTTAATATTTAAGAATA
1 TTTAA-ATTTAAGAATA
*
20981637 TTTAAAATTAA
1 TTTAAATTTAA
20981648 AATTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTAAATTTAAGAATA
Found at i:20981761 original size:23 final size:23
Alignment explanation
Indices: 20981734--20981790 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
20981724 ACTATTTACT
20981734 AATGAATATTTT-ATAATATAAA
1 AATGAATATTTTAATAATATAAA
* *
20981756 ATATGAGTATTTTAATAGTATAAA
1 A-ATGAATATTTTAATAATATAAA
20981780 AATGAA-ATTTT
1 AATGAATATTTT
20981791 GTTTAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.20
23 14 0.47
24 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
AATGAATATTTTAATAATATAAA
Found at i:20999069 original size:16 final size:16
Alignment explanation
Indices: 20999048--20999078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20999038 GATATTTTAA
20999048 TATATTATATTAATAT
1 TATATTATATTAATAT
*
20999064 TATATTATGTTAATA
1 TATATTATATTAATA
20999079 AAACAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:20999175 original size:12 final size:12
Alignment explanation
Indices: 20999158--20999187 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20999148 GAAGCAGGGG
20999158 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
20999170 AGAAAAAGGGAA
1 AGAAAAAGAGAA
20999182 AGAAAA
1 AGAAAA
20999188 TAAAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:21025507 original size:32 final size:30
Alignment explanation
Indices: 21025471--21025542 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 30
21025461 ACATATGTTT
21025471 TATATATACAAAAAATTAACAAAAAAAGTCAA
1 TATATATACAAAAAA-TAA-AAAAAAAGTCAA
* *
21025503 TATATATGAC-ATATATAAAAAAAAAGTCAA
1 TATATAT-ACAAAAAATAAAAAAAAAGTCAA
* *
21025533 AATAGATACA
1 TATATATACA
21025543 CTATGCATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.06
30 17 0.50
31 3 0.09
32 10 0.29
33 2 0.06
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (30 bp):
TATATATACAAAAAATAAAAAAAAAGTCAA
Found at i:21025517 original size:41 final size:43
Alignment explanation
Indices: 21025432--21025526 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 43
21025422 AATATCCATG
* ***
21025432 TATAAAAAAAACTTAACAAAAAAATGTCAACATATGTTTTATA
1 TATAAAAAAAACTTAACAAAAAAATGTCAACATATATGACATA
* *
21025475 TATACAAAAAA-TTAACAAAAAAA-GTCAATATATATGACATA
1 TATAAAAAAAACTTAACAAAAAAATGTCAACATATATGACATA
21025516 TATAAAAAAAA
1 TATAAAAAAAA
21025527 AGTCAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 23 0.51
42 12 0.27
43 10 0.22
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (43 bp):
TATAAAAAAAACTTAACAAAAAAATGTCAACATATATGACATA
Found at i:21025518 original size:43 final size:43
Alignment explanation
Indices: 21025432--21025527 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
21025422 AATATCCATG
***
21025432 TATAAAAAAAACTTAACAAAAAAATGTCAACATATGTTTTATA
1 TATAAAAAAAACTTAACAAAAAAATGTCAACATATGACATATA
* *
21025475 TATACAAAAAA-TTAACAAAAAAA-GTCAATATATATGACATATA
1 TATAAAAAAAACTTAACAAAAAAATGTC-A-ACATATGACATATA
21025518 TA-AAAAAAAA
1 TATAAAAAAAA
21025528 GTCAAAATAG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.07
42 20 0.44
43 22 0.49
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (43 bp):
TATAAAAAAAACTTAACAAAAAAATGTCAACATATGACATATA
Found at i:21029004 original size:6 final size:6
Alignment explanation
Indices: 21028993--21029019 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21028983 AAATTAAGCC
21028993 GAGGGA GAGGGA GAGGGA GAGGGA GAG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAG
21029020 AAGTTAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:21036287 original size:90 final size:90
Alignment explanation
Indices: 21036131--21036323 Score: 282
Period size: 90 Copynumber: 2.2 Consensus size: 90
21036121 ATTTGCTTTG
* * * *
21036131 CCAAAATAGAATTCGACTCTCCCGCTCTTCCCCACTATCCCTTTTCCTCTGTTAATAATTTTTTG
1 CCAAAAAAGAATTCGACTCTCCCGCTCTCCCCCACTATCCCTTTCCCTCTGTTAATAATTTCTTG
*
21036196 TTTCTAGATCACCAAAAAAAGCAAC
66 TTTCTAGATAACCAAAAAAAGCAAC
* *
21036221 CCAAAAAAGAATTCGGCTCTCTCC-CTCTCCCCCACTATCCCTTTCCCTCTGTTAATCATTTCTT
1 CCAAAAAAGAATTCGACTCTC-CCGCTCTCCCCCACTATCCCTTTCCCTCTGTTAATAATTTCTT
* *
21036285 GTTTCTAGATAATCGAAAAAAGCAAC
65 GTTTCTAGATAACCAAAAAAAGCAAC
21036311 CCAAAAAA-AATTC
1 CCAAAAAAGAATTC
21036324 AATTTTTTGG
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
89 5 0.05
90 86 0.92
91 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (90 bp):
CCAAAAAAGAATTCGACTCTCCCGCTCTCCCCCACTATCCCTTTCCCTCTGTTAATAATTTCTTG
TTTCTAGATAACCAAAAAAAGCAAC
Found at i:21041495 original size:16 final size:16
Alignment explanation
Indices: 21041476--21041509 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21041466 TCGGGTTTGG
21041476 ATTTTTTTAATATATT
1 ATTTTTTTAATATATT
* *
21041492 ATTTTTTTTATGTATT
1 ATTTTTTTAATATATT
21041508 AT
1 AT
21041510 AAATATACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTTAATATATT
Found at i:21042082 original size:27 final size:28
Alignment explanation
Indices: 21042023--21042082 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
21042013 ATTGATTCTA
*
21042023 TATTTTTTGTTTTGAGCAATTTATTTTT
1 TATTTTTTGTTTTGAACAATTTATTTTT
21042051 T-TTTTGTT-TTTTGAAC-ATTT-TTTTT
1 TATTTT-TTGTTTTGAACAATTTATTTTT
21042076 CTATTTT
1 -TATTTT
21042083 CATTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 5 0.18
26 5 0.18
27 15 0.54
28 3 0.11
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (28 bp):
TATTTTTTGTTTTGAACAATTTATTTTT
Found at i:21053409 original size:46 final size:46
Alignment explanation
Indices: 21053357--21053532 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
21053347 TGGTTGAGCA
21053357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
21053403 TTCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
21053448 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTAATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21053496 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21053533 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.58
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21053513 original size:93 final size:93
Alignment explanation
Indices: 21053354--21053524 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
21053344 GGATGGTTGA
* * **
21053354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
21053419 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
21053447 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTAATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21053512 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
21053525 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21053710 original size:24 final size:24
Alignment explanation
Indices: 21053680--21053729 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
21053670 ATAAATGTTG
21053680 TGAAATGGATACTTTGAACAGGTA
1 TGAAATGGATACTTTGAACAGGTA
21053704 TGAAATGGATACTTTGAACAGGTA
1 TGAAATGGATACTTTGAACAGGTA
21053728 TG
1 TG
21053730 TACTTAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (24 bp):
TGAAATGGATACTTTGAACAGGTA
Found at i:21056210 original size:17 final size:16
Alignment explanation
Indices: 21056186--21056221 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
21056176 TTCAATATCA
*
21056186 GTTTTAGTTTATTTTT
1 GTTTTAGTTCATTTTT
21056202 GTTTCTAGTTCATTTTT
1 GTTT-TAGTTCATTTTT
21056219 GTT
1 GTT
21056222 AATTGTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (16 bp):
GTTTTAGTTCATTTTT
Found at i:21063595 original size:12 final size:12
Alignment explanation
Indices: 21063578--21063604 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21063568 TCCGTCGAAG
21063578 CCCGAGAAACAC
1 CCCGAGAAACAC
21063590 CCCGAGAAACAC
1 CCCGAGAAACAC
21063602 CCC
1 CCC
21063605 ATTTTCTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.48, G:0.15, T:0.00
Consensus pattern (12 bp):
CCCGAGAAACAC
Found at i:21066072 original size:74 final size:74
Alignment explanation
Indices: 21065961--21066102 Score: 250
Period size: 74 Copynumber: 1.9 Consensus size: 74
21065951 ACCAAAAATT
* *
21065961 AAAGAAACATTTTAAGTCAAAAGAAAGGTTTGGCTTAGAGATCAAAAATCAAAATAAATATAACA
1 AAAGAAACATTTTAAGTCAAAAGAAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAACA
21066026 CTGCCAAAA
66 CTGCCAAAA
21066035 AAAGAAAACATTTTAAGTCAAAA-AAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAAC
1 AAAG-AAACATTTTAAGTCAAAAGAAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAAC
21066099 ACTG
65 ACTG
21066103 AAGATAATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
74 47 0.72
75 18 0.28
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.23
Consensus pattern (74 bp):
AAAGAAACATTTTAAGTCAAAAGAAAGGTTTGACTTAGAGATAAAAAATCAAAATAAATATAACA
CTGCCAAAA
Found at i:21069188 original size:29 final size:29
Alignment explanation
Indices: 21069155--21069211 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
21069145 AGCTCACAAT
*
21069155 TTCAGAGATAAATTATTAAGCATATCTGA
1 TTCAGAGATAAATTATTAAGCAAATCTGA
21069184 TTCAGAGATAAATTATTAAGCAAATCTG
1 TTCAGAGATAAATTATTAAGCAAATCTG
21069212 GTAAGACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TTCAGAGATAAATTATTAAGCAAATCTGA
Found at i:21081216 original size:13 final size:13
Alignment explanation
Indices: 21081198--21081228 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
21081188 CCTTGAATGA
21081198 GAAACGATTTTAT
1 GAAACGATTTTAT
21081211 GAAACGATTTTAT
1 GAAACGATTTTAT
21081224 GAAAC
1 GAAAC
21081229 AGTGATGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (13 bp):
GAAACGATTTTAT
Found at i:21082053 original size:14 final size:13
Alignment explanation
Indices: 21082030--21082083 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
21082020 GTTTGTCAGT
*
21082030 AAAATAATTTTTGA
1 AAAATGATTTTT-A
21082044 AAAATGATTTTTA
1 AAAATGATTTTTA
*
21082057 GAAAATGGTTTTTA
1 -AAAATGATTTTTA
21082071 AAAGATGATTTTT
1 AAA-ATGATTTTT
21082084 TCCTGGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.11
14 31 0.89
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (13 bp):
AAAATGATTTTTA
Found at i:21082307 original size:14 final size:15
Alignment explanation
Indices: 21082288--21082316 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21082278 ATTTATTTAT
21082288 AAATAAATAA-AATA
1 AAATAAATAATAATA
21082302 AAATAAATAATAATA
1 AAATAAATAATAATA
21082317 CTCAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAATA
Found at i:21084339 original size:21 final size:21
Alignment explanation
Indices: 21084315--21084355 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
21084305 TCAACCTATG
21084315 GCGAGAAATTTATGCTCTAAA
1 GCGAGAAATTTATGCTCTAAA
21084336 GCGAGAAATTTATGCTCTAA
1 GCGAGAAATTTATGCTCTAA
21084356 GTATCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
GCGAGAAATTTATGCTCTAAA
Found at i:21093274 original size:11 final size:11
Alignment explanation
Indices: 21093258--21093284 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21093248 TAGAAATTAG
21093258 TTTGTGAAACT
1 TTTGTGAAACT
21093269 TTTGTGAAACT
1 TTTGTGAAACT
21093280 TTTGT
1 TTTGT
21093285 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:21094822 original size:92 final size:92
Alignment explanation
Indices: 21094686--21094879 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
21094676 TTGATTTTAG
* *
21094686 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
21094750 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
21094777 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
21094842 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
21094870 CAAATTCATA
1 TAAATTCATA
21094880 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:21094927 original size:48 final size:52
Alignment explanation
Indices: 21094857--21094955 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
21094847 AATAATTATT
21094857 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
21094905 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
21094956 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:21094937 original size:17 final size:17
Alignment explanation
Indices: 21094912--21094945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21094902 ATAATTTTAA
*
21094912 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
21094929 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
21094946 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:21094962 original size:17 final size:16
Alignment explanation
Indices: 21094917--21094964 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
21094907 TTTAAATTTT
21094917 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
21094934 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
21094948 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
21094965 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:21095052 original size:16 final size:17
Alignment explanation
Indices: 21095014--21095053 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
21095004 AATTTTATTA
21095014 AATAA-TATATTTTAAT
1 AATAATTATATTTTAAT
*
21095030 TAT-ATTATA-TTTAAT
1 AATAATTATATTTTAAT
21095045 AATAATTAT
1 AATAATTAT
21095054 GTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTATATTTTAAT
Found at i:21095158 original size:18 final size:17
Alignment explanation
Indices: 21095130--21095164 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21095120 ATTATTAAGA
*
21095130 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21095147 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21095165 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21095164 original size:16 final size:17
Alignment explanation
Indices: 21095130--21095171 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21095120 ATTATTAAGA
21095130 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
21095147 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
21095163 ATTTATAAT
1 ATTT-TAAT
21095172 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:21095273 original size:143 final size:147
Alignment explanation
Indices: 21095118--21095388 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
21095108 ATAAGAATAT
*
21095118 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
21095182 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
21095244 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
21095261 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
21095326 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
21095389 CAATAATCAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 48 0.40
144 42 0.35
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:21095301 original size:18 final size:17
Alignment explanation
Indices: 21095273--21095307 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21095263 ATTATTAAGA
*
21095273 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21095290 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21095308 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21095518 original size:44 final size:45
Alignment explanation
Indices: 21095469--21095563 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
21095459 TTACACCTCT
* *
21095469 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
21095513 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
21095558 ATTACA
1 ATTACA
21095564 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:21095563 original size:16 final size:16
Alignment explanation
Indices: 21095542--21095574 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21095532 TTGATTTGCT
*
21095542 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
21095558 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
21095574 A
1 A
21095575 ACCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:21095717 original size:16 final size:16
Alignment explanation
Indices: 21095693--21095725 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21095683 TGTATTGGGT
*
21095693 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
21095709 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
21095725 T
1 T
21095726 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:21095770 original size:45 final size:44
Alignment explanation
Indices: 21095704--21095798 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
21095694 GGATTAGAGG
* *
21095704 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
21095749 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
21095793 TGTAAT
1 TGTAAT
21095799 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:21095981 original size:18 final size:17
Alignment explanation
Indices: 21095960--21095994 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21095950 TTATTATTTA
*
21095960 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21095978 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21095995 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21095988 original size:28 final size:27
Alignment explanation
Indices: 21095918--21095990 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
21095908 TTTATTATCA
*
21095918 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
21095946 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
21095973 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
21095991 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:21096122 original size:16 final size:17
Alignment explanation
Indices: 21096096--21096137 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21096086 AAACATAATT
21096096 ATTATAAATATAT-TTTA
1 ATTA-AAATATATATTTA
21096113 ATTAAAATATATAATTTA
1 ATTAAAATATAT-ATTTA
21096131 A-TAAAAT
1 ATTAAAAT
21096138 TCTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATATATATTTA
Found at i:21096130 original size:18 final size:17
Alignment explanation
Indices: 21096103--21096137 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21096093 ATTATTATAA
*
21096103 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21096121 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21096138 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21096143 original size:143 final size:147
Alignment explanation
Indices: 21095879--21096149 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
21095869 ATGATTATTG
21095879 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
21095944 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
21096009 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
21096028 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
21096090 ATAATTATTA-TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
21096150 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 49 0.41
144 42 0.35
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:21096325 original size:17 final size:16
Alignment explanation
Indices: 21096303--21096349 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
21096293 ACTCAAATCA
21096303 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
21096320 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
21096334 TAAATATATGATTTAA
1 T-AATATATGATTTAA
21096350 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:21096350 original size:17 final size:17
Alignment explanation
Indices: 21096322--21096355 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21096312 ATTATAACTA
*
21096322 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
21096339 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
21096356 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:21096498 original size:93 final size:91
Alignment explanation
Indices: 21096388--21096581 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
21096378 GATTATAGTT
* *
21096388 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
21096451 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
21096481 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
21096546 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
21096572 TATGAATTTA
1 TATGAATTTA
21096582 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:21097996 original size:11 final size:11
Alignment explanation
Indices: 21097982--21098008 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21097972 AAAAATAAAT
21097982 ACAAAAGTTTC
1 ACAAAAGTTTC
21097993 ACAAAAGTTTC
1 ACAAAAGTTTC
21098004 ACAAA
1 ACAAA
21098009 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:21114638 original size:6 final size:5
Alignment explanation
Indices: 21114608--21114637 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
21114598 ATTTGTTAAA
21114608 AAAAG AAAAG AAAAG AAAAG AAAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAA
21114638 AAGCATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21116890 original size:7 final size:7
Alignment explanation
Indices: 21116880--21116929 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
21116870 TTTTTAGGTT
21116880 TTTTTCA
1 TTTTTCA
21116887 TTTTTCA
1 TTTTTCA
21116894 TTTTTCA
1 TTTTTCA
21116901 TTTTTCA
1 TTTTTCA
21116908 TTTTT-A
1 TTTTTCA
21116914 TTTTT-A
1 TTTTTCA
21116920 TTTTT-A
1 TTTTTCA
21116926 TTTT
1 TTTT
21116930 GGAGAAAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 17 0.40
7 26 0.60
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:21118905 original size:46 final size:47
Alignment explanation
Indices: 21118845--21119153 Score: 348
Period size: 46 Copynumber: 7.0 Consensus size: 47
21118835 TTTGACATGA
* * * *
21118845 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * *
21118891 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
21118937 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* ** *
21118983 TGCCATGGTACCTTTCAATTATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
21119029 TGCCATGGTAGCTTTCAACCATGG------TC----T--TATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* *
21119064 TGCCATGGTATCTTTCAACCATGGTCGTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
21119110 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAG
21119154 AGAGCACACT
Statistics
Matches: 229, Mismatches: 20, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
35 31 0.14
37 1 0.00
40 1 0.00
41 1 0.00
44 1 0.00
45 8 0.03
46 182 0.79
47 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
Found at i:21119067 original size:35 final size:35
Alignment explanation
Indices: 21119021--21119089 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
21119011 ACACATTTCA
21119021 TATCAGGTTGCCATGGTAGCTTTCAACCATGGTCT
1 TATCAGGTTGCCATGGTAGCTTTCAACCATGGTCT
*
21119056 TATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TATCAGGTTGCCATGGTAGCTTTCAACCATGGTC
21119090 GTACACATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (35 bp):
TATCAGGTTGCCATGGTAGCTTTCAACCATGGTCT
Found at i:21119110 original size:81 final size:81
Alignment explanation
Indices: 21118975--21119138 Score: 283
Period size: 81 Copynumber: 2.0 Consensus size: 81
21118965 ATTCATTTTA
** *
21118975 TATCAGGTTGCCATGGTACCTTTCAATTATGGTCTTACACATTTCATATCAGGTTGCCATGGTAG
1 TATCAGGTTGCCATGGTACCTTTCAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAG
21119040 CTTTCAACCATGGTCT
66 CTTTCAACCATGGTCT
* *
21119056 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAT
1 TATCAGGTTGCCATGGTACCTTTCAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAG
21119121 CTTTCAACCATGGTCT
66 CTTTCAACCATGGTCT
21119137 TA
1 TA
21119139 CACATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (81 bp):
TATCAGGTTGCCATGGTACCTTTCAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAG
CTTTCAACCATGGTCT
Done.