Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 47 of 52
Found at i:7593472 original size:21 final size:21
Alignment explanation
Indices: 7593447--7593499 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
7593437 AAAGATAACG
*
7593447 ATAAAATTAATTAATATAA-T
1 ATAAAATTAAATAATATAATT
7593467 ATTAAAATTAAATAATATAATT
1 A-TAAAATTAAATAATATAATT
7593489 ATAAAATTAAA
1 ATAAAATTAAA
7593500 ATAACGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAATTAAATAATATAATT
Found at i:7593562 original size:20 final size:20
Alignment explanation
Indices: 7593539--7593593 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
7593529 ATTAATAAAT
* *
7593539 TATTTAAATAATTATTTTTA
1 TATTTAAATAATAATTATTA
*
7593559 TATTGAAATAATAATTATTA
1 TATTTAAATAATAATTATTA
*
7593579 TATTTAAAAAATAAT
1 TATTTAAATAATAAT
7593594 AATATATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTTAAATAATAATTATTA
Found at i:7593613 original size:23 final size:24
Alignment explanation
Indices: 7593545--7593613 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
7593535 AAATTATTTA
7593545 AATAATTATT-T-TTATATTGAAAT
1 AATAATTATTATATTATATT-AAAT
**
7593568 AATAATTATTATATT-TAAAAAAT
1 AATAATTATTATATTATATTAAAT
7593591 AATAA-TA-TATATGTATATTAAAT
1 AATAATTATTATAT-TATATTAAAT
7593614 TTAAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.13
22 3 0.08
23 25 0.66
24 3 0.08
25 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (24 bp):
AATAATTATTATATTATATTAAAT
Found at i:7593701 original size:19 final size:20
Alignment explanation
Indices: 7593669--7593707 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7593659 AAAATAATAA
7593669 TTATATAAATAACTATAAAT
1 TTATATAAATAACTATAAAT
* *
7593689 TTATTTAAA-AACTGTAAAT
1 TTATATAAATAACTATAAAT
7593708 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TTATATAAATAACTATAAAT
Found at i:7596249 original size:6 final size:6
Alignment explanation
Indices: 7596240--7596268 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7596230 TTTGCATTTA
7596240 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
7596269 CAAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:7598140 original size:17 final size:17
Alignment explanation
Indices: 7598120--7598160 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
7598110 TAATTATATT
* *
7598120 TAAATATTTATTAAATA
1 TAAATATATATTAAACA
7598137 TAAATATATATTAAACA
1 TAAATATATATTAAACA
7598154 TAAATAT
1 TAAATAT
7598161 CAAATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATATTAAACA
Found at i:7598167 original size:7 final size:6
Alignment explanation
Indices: 7598131--7598173 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
7598121 AAATATTTAT
* *
7598131 TAAATA TAAATA TATAT- TAAACA TAAATA TCAAATA TAAATA T
1 TAAATA TAAATA TAAATA TAAATA TAAATA T-AAATA TAAATA T
7598174 TTCAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 3 0.10
6 22 0.71
7 6 0.19
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:7598169 original size:13 final size:12
Alignment explanation
Indices: 7598131--7598173 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
7598121 AAATATTTAT
7598131 TAAATATAAATA
1 TAAATATAAATA
* *
7598143 TATAT-TAAACA
1 TAAATATAAATA
7598154 TAAATATCAAATA
1 TAAATAT-AAATA
7598167 TAAATAT
1 TAAATAT
7598174 TTCAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 9 0.36
12 5 0.20
13 11 0.44
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATATAAATA
Found at i:7601337 original size:2 final size:2
Alignment explanation
Indices: 7601330--7601360 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7601320 TCCCTATCAA
7601330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7601361 CAAAATCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7603069 original size:13 final size:14
Alignment explanation
Indices: 7603044--7603115 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
7603034 TTATTTTTGT
7603044 GTAATTAGTTTATA
1 GTAATTAGTTTATA
7603058 GTAATT-GTTTATTA
1 GTAATTAGTTTA-TA
**
7603072 CGTGGAATTAAGTTTAGC
1 -GT--AATT-AGTTTATA
**
7603090 GTAATTAGTTTAGG
1 GTAATTAGTTTATA
7603104 GTAATTAGTTTA
1 GTAATTAGTTTA
7603116 AAGCCTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
13 5 0.10
14 27 0.55
15 6 0.12
17 6 0.12
19 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (14 bp):
GTAATTAGTTTATA
Found at i:7608367 original size:17 final size:18
Alignment explanation
Indices: 7608321--7608367 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
7608311 AATAATATTA
*
7608321 TTATTGTTTTTTAAGATTT
1 TTATT-TTTTTTAACATTT
* *
7608340 ATAATTTTTTT-ACATTT
1 TTATTTTTTTTAACATTT
7608357 TTATTTTTTTT
1 TTATTTTTTTT
7608368 TGTTAATGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 6 0.26
19 3 0.13
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TTATTTTTTTTAACATTT
Found at i:7608591 original size:75 final size:75
Alignment explanation
Indices: 7608484--7608653 Score: 225
Period size: 75 Copynumber: 2.3 Consensus size: 75
7608474 AATGTGAAAT
* **
7608484 ATGCAGATTATCTCGGATTTGTTGTTGCTAGTAGCAATATGAAATATG-TAGAAACATTGGTTGA
1 ATGCAGATTATCTCGGATTAGTTGTTAATAGTAGCAATATGAAATATGCT-GAAACATTGGTTGA
* *
7608548 TTGTAGTTATT
65 TTGTAATTATC
* * * * *
7608559 GTGCAGATTATCTCGGATTAGTTGTTAATAGTAGTACTGTGAAATATGCTGAAACATTTGTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTAATAGTAGCAATATGAAATATGCTGAAACATTGGTTGAT
7608624 TGTAATTATC
66 TGTAATTATC
*
7608634 ATGCAGATTATCTCGAATTA
1 ATGCAGATTATCTCGGATTA
7608654 TCGTTTCATC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
75 81 0.99
76 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (75 bp):
ATGCAGATTATCTCGGATTAGTTGTTAATAGTAGCAATATGAAATATGCTGAAACATTGGTTGAT
TGTAATTATC
Found at i:7613258 original size:7 final size:7
Alignment explanation
Indices: 7613243--7613277 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
7613233 GACATGAGAA
7613243 AAATTAT
1 AAATTAT
*
7613250 AAATAAT
1 AAATTAT
7613257 AAATTAT
1 AAATTAT
*
7613264 AAATTTT
1 AAATTAT
7613271 AAATTAT
1 AAATTAT
7613278 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTAT
Found at i:7613587 original size:2 final size:2
Alignment explanation
Indices: 7613580--7613605 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7613570 ATTAAAAACT
7613580 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7613606 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7613610 original size:2 final size:2
Alignment explanation
Indices: 7613605--7613633 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7613595 ATATATATAT
7613605 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7613634 TAAGAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7614135 original size:6 final size:6
Alignment explanation
Indices: 7614115--7614284 Score: 54
Period size: 6 Copynumber: 28.7 Consensus size: 6
7614105 ATAATATCAT
* * * *
7614115 AATATA AAAAT- AATATA AATAT- ATTATT AATAAAA ATATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AAT-ATA A-ATATA AATATA
* * * * * *
7614163 AA-ATA AA-ATA AAT-TT TATGT- AATATA AATAATTGA TATATT AATATT
1 AATATA AATATA AATATA AATATA AATATA AAT-A-T-A AATATA AATATA
* * * * * *
7614210 TATAT- AAT-TA AATAATA TATTTA CATATA AATATA ATAAATA AAAAT-
1 AATATA AATATA AAT-ATA AATATA AATATA AATATA A-ATATA AATATA
7614257 AATATA AATAT- AATATA AATATTA AATA
1 AATATA AATATA AATATA AATA-TA AATA
7614285 ATCGTGTATT
Statistics
Matches: 124, Mismatches: 23, Indels: 33
0.69 0.13 0.18
Matches are distributed among these distances:
4 1 0.01
5 38 0.31
6 56 0.45
7 22 0.18
8 4 0.03
9 3 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:7614135 original size:17 final size:17
Alignment explanation
Indices: 7614103--7614174 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
7614093 CAATTAATGT
7614103 AAATAATATCATAATATAA
1 AAATAATAT-A-AATATAA
*
7614122 AAATAATATAAATATAT
1 AAATAATATAAATATAA
* * *
7614139 TATTAATAAAAATATATA
1 AAATAATATAAATATA-A
*
7614157 AATATAAAATAAA-ATAA
1 AA-ATAATATAAATATAA
7614174 A
1 A
7614175 TTTTATGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
17 21 0.50
18 5 0.12
19 16 0.38
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAATATAAATATAA
Found at i:7617326 original size:26 final size:25
Alignment explanation
Indices: 7617289--7617338 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
7617279 CAATTTTTTT
*
7617289 TAAAAAAATATATTAAAAATATTAA
1 TAAAAAAATATAATAAAAATATTAA
7617314 TAAATAAAATATAATAAAAATATTA
1 TAAA-AAAATATAATAAAAATATTA
7617339 TTTAAACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAAAATATAATAAAAATATTAA
Found at i:7625285 original size:1 final size:1
Alignment explanation
Indices: 7625281--7625314 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
7625271 CCCCCCTTTC
* *
7625281 AAAAAAAAAAAAAAAAAAAAAAAACAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7625315 CCCTAAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7629713 original size:2 final size:2
Alignment explanation
Indices: 7629708--7629739 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7629698 TTTAGATTCT
7629708 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7629740 AAGTGCCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7629855 original size:13 final size:13
Alignment explanation
Indices: 7629839--7629868 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7629829 GAGAAGGTAA
*
7629839 AAAAAAGAAAATG
1 AAAAAAGAAAAAG
7629852 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
7629865 AAAA
1 AAAA
7629869 TAAATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:7630423 original size:33 final size:35
Alignment explanation
Indices: 7630386--7630486 Score: 93
Period size: 35 Copynumber: 2.9 Consensus size: 35
7630376 GGTAAATAAA
7630386 TTTAATAATTTATTTTTATTATT-T-TAAAATTAT
1 TTTAATAATTTATTTTTATTATTATATAAAATTAT
* * **
7630419 TTTAAT-ATTAATATTTATATATTATATAATTTTAT
1 TTTAATAATTTATTTTTAT-TATTATATAAAATTAT
* * *
7630454 TTAAATAAATT-TTTTTATTATTAAATAATAATT
1 TTTAATAATTTATTTTTATTATTATATAA-AATT
7630487 TAAATTAAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
32 10 0.19
33 10 0.19
34 10 0.19
35 20 0.38
36 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTAATAATTTATTTTTATTATTATATAAAATTAT
Found at i:7630936 original size:19 final size:19
Alignment explanation
Indices: 7630882--7630937 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
7630872 ATAAAATATA
* *
7630882 TTAATATTAATATAAATTT
1 TTAATATTAAAATAATTTT
**
7630901 TTAATATTTTAAT-ATTTT
1 TTAATATTAAAATAATTTT
*
7630919 TTAATAATAAAATAATTTT
1 TTAATATTAAAATAATTTT
7630938 ACAAGGTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATATTAAAATAATTTT
Found at i:7633204 original size:3 final size:3
Alignment explanation
Indices: 7633196--7633242 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7633186 AACTTAAAAC
7633196 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7633243 ACAAGCCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7633430 original size:2 final size:2
Alignment explanation
Indices: 7633423--7633447 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7633413 AATTAAAATG
7633423 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7633448 GCATGCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7633719 original size:2 final size:2
Alignment explanation
Indices: 7633712--7633750 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
7633702 TGGCCAAAAT
7633712 TA TA TA TA TA TA TA TA -A TA TA -A TA T- TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7633750 T
1 T
7633751 GACATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7633727 original size:10 final size:10
Alignment explanation
Indices: 7633712--7633750 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
7633702 TGGCCAAAAT
7633712 TATATATATA
1 TATATATATA
7633722 TATATA-ATA
1 TATATATATA
7633731 TA-ATAT-TA
1 TATATATATA
7633739 TATA-ATATA
1 TATATATATA
7633748 TAT
1 TAT
7633751 GACATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 9 0.35
9 11 0.42
10 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATATATATA
Found at i:7633740 original size:15 final size:17
Alignment explanation
Indices: 7633712--7633763 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
7633702 TGGCCAAAAT
7633712 TATATATATATATATAA
1 TATATATATATATATAA
7633729 TATA-ATAT-TATATAA
1 TATATATATATATATAA
*
7633744 TATATATGACATATA-AA
1 TATATAT-ATATATATAA
7633761 TAT
1 TAT
7633764 TAATCCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 11 0.35
16 6 0.19
17 10 0.32
18 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:7634374 original size:24 final size:24
Alignment explanation
Indices: 7634350--7634397 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7634340 TTTGATGTAT
*
7634350 ATTTAAATATAAATATAAAAATATA
1 ATTT-AATAAAAATATAAAAATATA
**
7634375 ATTTTTTAAAAATATAAAAATAT
1 ATTTAATAAAAATATAAAAATAT
7634398 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTAATAAAAATATAAAAATATA
Found at i:7634862 original size:2 final size:2
Alignment explanation
Indices: 7634855--7634893 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7634845 TTCAAATCTC
*
7634855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7634894 GTGATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7635794 original size:2 final size:2
Alignment explanation
Indices: 7635776--7635814 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
7635766 TTTAAGCTTC
* *
7635776 TA TA TG TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7635815 TAAGATGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7637199 original size:16 final size:17
Alignment explanation
Indices: 7637164--7637203 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7637154 AAATAACAAA
* *
7637164 AAATTTTATTTAAATCT
1 AAATTTAATATAAATCT
7637181 AAATTTAATATAAAT-T
1 AAATTTAATATAAATCT
7637197 AAATTTA
1 AAATTTA
7637204 TCAGATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTAATATAAATCT
Found at i:7638408 original size:2 final size:2
Alignment explanation
Indices: 7638401--7638454 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
7638391 GTTGACTAGA
7638401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7638443 AT AT AT AT AT AT
1 AT AT AT AT AT AT
7638455 GACTTAGCCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7638748 original size:2 final size:2
Alignment explanation
Indices: 7638741--7638770 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7638731 ACACCAACAT
*
7638741 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7638771 ATCAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7640200 original size:16 final size:16
Alignment explanation
Indices: 7640176--7640206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7640166 TAACAATGTT
*
7640176 TATACATAATATGAAA
1 TATAAATAATATGAAA
7640192 TATAAATAATATGAA
1 TATAAATAATATGAA
7640207 TTTTATTGGG
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:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
TATAAATAATATGAAA
Found at i:7640505 original size:3 final size:3
Alignment explanation
Indices: 7640497--7640521 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7640487 ATCTCTCCAA
7640497 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7640522 TGTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7640563 original size:13 final size:14
Alignment explanation
Indices: 7640542--7640630 Score: 56
Period size: 12 Copynumber: 6.9 Consensus size: 14
7640532 AGCCTAACAT
7640542 AAAAA-ATAAT-TA
1 AAAAATATAATATA
7640554 AAAAATATAATAT-
1 AAAAATATAATATA
7640567 AAAAA-ATAATAT-
1 AAAAATATAATATA
7640579 --AAATATAATAT-
1 AAAAATATAATATA
*
7640590 AAATATATAATTATA
1 AAAAATATAA-TATA
*
7640605 TTAAAAT-T--TATA
1 -AAAAATATAATATA
7640617 AAAATATATAATAT
1 AAAA-ATATAATAT
7640631 TTTAAATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
10 3 0.05
11 10 0.16
12 18 0.30
13 18 0.30
14 4 0.07
15 4 0.07
16 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAATATAATATA
Found at i:7640585 original size:23 final size:25
Alignment explanation
Indices: 7640540--7640602 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 25
7640530 TAAGCCTAAC
7640540 ATAAAAAATAATTAAAAAATATAAT
1 ATAAAAAATAATTAAAAAATATAAT
*
7640565 ATAAAAAATAA-T-ATAAATATAAT
1 ATAAAAAATAATTAAAAAATATAAT
*
7640588 ATAAATATATAATTA
1 ATAAA-AAATAATTA
7640603 TATTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 15 0.45
24 6 0.18
25 12 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAAAAAATAATTAAAAAATATAAT
Found at i:7640588 original size:11 final size:11
Alignment explanation
Indices: 7640556--7640596 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
7640546 AATAATTAAA
7640556 AAATATAATAT
1 AAATATAATAT
*
7640567 AAAAAATAATAT
1 -AAATATAATAT
7640579 AAATATAATAT
1 AAATATAATAT
7640590 AAATATA
1 AAATATA
7640597 TAATTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATAATAT
Found at i:7640609 original size:28 final size:28
Alignment explanation
Indices: 7640556--7640643 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 28
7640546 AATAATTAAA
*
7640556 AAATATAATAT-AA-A-A-AATAATA-T
1 AAATATAATATAAATATATAATTATATT
7640579 AAATATAATATAAATATATAATTATATT
1 AAATATAATATAAATATATAATTATATT
* * *
7640607 AAA-ATTTATAAAAATATATAA-TATTTT
1 AAATA-TAATATAAATATATAATTATATT
7640634 AAATATAATA
1 AAATATAATA
7640644 CGTGAAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
23 11 0.21
24 2 0.04
25 1 0.02
26 1 0.02
27 19 0.36
28 19 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATATAATATAAATATATAATTATATT
Found at i:7640616 original size:18 final size:19
Alignment explanation
Indices: 7640558--7640643 Score: 67
Period size: 18 Copynumber: 4.7 Consensus size: 19
7640548 TAATTAAAAA
7640558 ATAT-AATATAA-A-AAAT
1 ATATAAATATAATATAAAT
7640574 AATATAAATATAATATAAAT
1 -ATATAAATATAATATAAAT
* *
7640594 ATATAATTATATTA-AAAT
1 ATATAAATATAATATAAAT
* *
7640612 TTATAAAAAT-ATAT-AAT
1 ATATAAATATAATATAAAT
*
7640629 ATTTTAAATATAATA
1 A-TATAAATATAATA
7640644 CGTGAAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 9 0.17
18 25 0.46
19 16 0.30
20 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATAAATATAATATAAAT
Found at i:7640620 original size:10 final size:10
Alignment explanation
Indices: 7640562--7640627 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
7640552 TAAAAAATAT
7640562 AATATA-AAA
1 AATATATAAA
*
7640571 AATA-ATATA
1 AATATATAAA
*
7640580 AATATAATATA
1 AATAT-ATAAA
7640591 AATATAT--A
1 AATATATAAA
* *
7640599 ATTATATTAA
1 AATATATAAA
*
7640609 AATTTATAAA
1 AATATATAAA
7640619 AATATATAA
1 AATATATAA
7640628 TATTTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 8 0.17
9 10 0.22
10 18 0.39
11 10 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AATATATAAA
Found at i:7641700 original size:2 final size:2
Alignment explanation
Indices: 7641688--7641737 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
7641678 AAGAAAGAGC
*
7641688 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7641730 AT AT AT AT
1 AT AT AT AT
7641738 GCAATCTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7642552 original size:21 final size:21
Alignment explanation
Indices: 7642526--7642570 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7642516 TAATTCAATC
7642526 AATTCTTATAATTATTTTTAA
1 AATTCTTATAATTATTTTTAA
7642547 AATTCTTATAATTATTTTTAA
1 AATTCTTATAATTATTTTTAA
7642568 AAT
1 AAT
7642571 GTATTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTCTTATAATTATTTTTAA
Found at i:7644380 original size:2 final size:2
Alignment explanation
Indices: 7644373--7644400 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7644363 AACCATAAGA
7644373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7644401 TTCAGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7644895 original size:26 final size:25
Alignment explanation
Indices: 7644840--7644897 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
7644830 TTTAATCGAT
* *
7644840 TTAATTTTAAAATTTTAAAAATTAA
1 TTAAATTTAAAATTTTAAAAAGTAA
*
7644865 ATAAATTTATAAA-TTTATAAAAGTAA
1 TTAAATTTA-AAATTTTA-AAAAGTAA
7644891 TTAAATT
1 TTAAATT
7644898 AATTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAATTTAAAATTTTAAAAAGTAA
Found at i:7644934 original size:17 final size:19
Alignment explanation
Indices: 7644898--7644936 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
7644888 TAATTAAATT
*
7644898 AATTAAAATATAAGTAAAA
1 AATTAAAATATAAATAAAA
7644917 AATT-AAAT-TAAATAAAA
1 AATTAAAATATAAATAAAA
7644934 AAT
1 AAT
7644937 AATTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AATTAAAATATAAATAAAA
Found at i:7644944 original size:19 final size:22
Alignment explanation
Indices: 7644893--7644944 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
7644883 AAAAGTAATT
7644893 AAATTAATTAAAATATAAGTAAA
1 AAATTAATTAAAATATAAG-AAA
7644916 AAATTAAATT-AAATA-AA-AAA
1 AAATT-AATTAAAATATAAGAAA
*
7644936 TAATTAATT
1 AAATTAATT
7644945 TAATTCAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
22 2 0.07
23 10 0.37
24 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTAATTAAAATATAAGAAA
Found at i:7645753 original size:16 final size:16
Alignment explanation
Indices: 7645723--7645765 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
7645713 ACTTCCAAAC
* *
7645723 TCATGCTTCAACTACTT
1 TCAT-CTTCATCTACCT
7645740 TCATCTTCATCTACCT
1 TCATCTTCATCTACCT
7645756 TCAT-TTCATC
1 TCATCTTCATC
7645766 AATGGCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 14 0.58
17 4 0.17
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.44
Consensus pattern (16 bp):
TCATCTTCATCTACCT
Found at i:7655940 original size:78 final size:78
Alignment explanation
Indices: 7655811--7655967 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
7655801 AAAATACTGC
*
7655811 CCATTTTGAACTTTTAAATATGTCTAGATGGAGTATAATGAAAATTAAATACCATCTCAAAATAA
1 CCATTTTGAACTTTTAAATATGTCTAGATGGAGTATAATGAAAATTAAATACCATCCCAAAATAA
7655876 CTTTACACAAATT
66 CTTTACACAAATT
7655889 CCATTTTGAACTTTTAAATATGTCTAGATGGAGTATAATGAAAATTAAATACCATCCCAAAATAA
1 CCATTTTGAACTTTTAAATATGTCTAGATGGAGTATAATGAAAATTAAATACCATCCCAAAATAA
7655954 CTTTACACAAATT
66 CTTTACACAAATT
7655967 C
1 C
7655968 AAAGACATCA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (78 bp):
CCATTTTGAACTTTTAAATATGTCTAGATGGAGTATAATGAAAATTAAATACCATCCCAAAATAA
CTTTACACAAATT
Found at i:7658363 original size:12 final size:12
Alignment explanation
Indices: 7658332--7658373 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7658322 TTTAACTTAA
7658332 ATTTTAAATATT
1 ATTTTAAATATT
* *
7658344 AATATAAATTATT
1 ATTTTAAA-TATT
7658357 -TTTTAAATATT
1 ATTTTAAATATT
7658368 ATTTTA
1 ATTTTA
7658374 TATAATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTTAAATATT
Found at i:7658469 original size:14 final size:15
Alignment explanation
Indices: 7658445--7658487 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7658435 TAGCTTTTTA
7658445 AATATATATTAAATAT
1 AATA-ATATTAAATAT
*
7658461 AA-AATATTAAATTT
1 AATAATATTAAATAT
*
7658475 AATAATTTTAAAT
1 AATAATATTAAAT
7658488 GTTATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 10 0.42
16 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAATATTAAATAT
Found at i:7659138 original size:14 final size:14
Alignment explanation
Indices: 7659116--7659153 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
7659106 AAGTATTATA
7659116 AAAATAATATTTTCT-
1 AAAA-AATATTTT-TG
7659131 AAAAAATATTTTTG
1 AAAAAATATTTTTG
7659145 AAAAAATAT
1 AAAAAATAT
7659154 ACATATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 17 0.77
15 4 0.18
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
AAAAAATATTTTTG
Found at i:7659210 original size:10 final size:10
Alignment explanation
Indices: 7659158--7659222 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
7659148 AAATATACAT
*
7659158 ATAAATCTAA
1 ATAAATTTAA
7659168 ATAAATTTAA
1 ATAAATTTAA
* *
7659178 GATATTTATTTAT
1 -ATA--AATTTAA
*
7659191 A-AAATATAA
1 ATAAATTTAA
7659200 ATAAATTTAA
1 ATAAATTTAA
7659210 ATAAAATTTAA
1 AT-AAATTTAA
7659221 AT
1 AT
7659223 TTTATATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 5 0.12
10 18 0.42
11 14 0.33
12 1 0.02
13 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
ATAAATTTAA
Found at i:7659213 original size:42 final size:43
Alignment explanation
Indices: 7659147--7659227 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
7659137 TATTTTTGAA
7659147 AAAATATACATATAAATCTAAAT-AAATTTAAGATATTTATTTAT
1 AAAATATACATATAAATCTAAATAAAATTTAA-AT-TTTATTTAT
*
7659191 AAAATATA-A-ATAAATTTAAATAAAATTTAAATTTTAT
1 AAAATATACATATAAATCTAAATAAAATTTAAATTTTAT
7659228 ATTTTTTACG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
41 5 0.14
42 13 0.37
43 9 0.26
44 8 0.23
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (43 bp):
AAAATATACATATAAATCTAAATAAAATTTAAATTTTATTTAT
Found at i:7659216 original size:11 final size:11
Alignment explanation
Indices: 7659189--7659222 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7659179 ATATTTATTT
*
7659189 ATAAAATATAA
1 ATAAAATTTAA
7659200 AT-AAATTTAA
1 ATAAAATTTAA
7659210 ATAAAATTTAA
1 ATAAAATTTAA
7659221 AT
1 AT
7659223 TTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAAAATTTAA
Found at i:7668357 original size:3 final size:3
Alignment explanation
Indices: 7668349--7668385 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7668339 TCATGATTTG
7668349 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7668386 GTAATGATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7668744 original size:23 final size:22
Alignment explanation
Indices: 7668719--7668762 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
7668709 AATATTTAGA
7668719 TTTCAATATTTATAATTTTTTTAT
1 TTTCAA-A-TTATAATTTTTTTAT
*
7668743 TTTTAAATTATAATTTTTTT
1 TTTCAAATTATAATTTTTTT
7668763 TGTTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 1 0.05
24 5 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCAAATTATAATTTTTTTAT
Found at i:7668763 original size:23 final size:22
Alignment explanation
Indices: 7668728--7668772 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
7668718 ATTTCAATAT
*
7668728 TTATAATTTTTTTATTTTTAAA
1 TTATAATTTTTTTATTTATAAA
*
7668750 TTATAATTTTTTTTGTTTATAAA
1 TTATAA-TTTTTTTATTTATAAA
7668773 AATAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATAATTTTTTTATTTATAAA
Found at i:7669920 original size:209 final size:210
Alignment explanation
Indices: 7669386--7669983 Score: 556
Period size: 209 Copynumber: 2.8 Consensus size: 210
7669376 TTCAAATCCA
* * * * *
7669386 AATCCGAGTAATATAAGTTTAGATATATACCTAGATTCGACATTTA-TTCTGAGAGTTCAAATAA
1 AATCCGAATAATATAAGTTTAGACATATACCTAAATTCGATATTTACTTTTG-GAGTTCAAATAA
* * *
7669450 CATAAGTTTAGGTTTGGTTTGTAAAGGTTCATTTTAGCGAAGAAAAATAAGGAAAAGTGTTATAG
65 CAT-AGTTTAGGTTTGGTTTGTTAAGGTTCATTTTAGCGAAGAAAAACAAGGAAAAGAGTTATAG
* * *** *
7669515 CAAAGAATAAGATCCTTC-AAGGATA-CTTC-AAATGCGTAGGTAAACTTAGAAAAAATTAAATA
129 CAAA-AATAAGAT-CTTCTAAAGATACCCTCTAAATATATAGATAAACTTAG---AAATT-AATA
*
7669577 ATCTTATATACGACACTCACATTT
188 ATCTTATATAC-ACACTCACATTG
* * * * * ** *
7669601 AAGTCTGAATAATATAGGTTTGGACATATACCCAAAATCGATATTTACCCTTGGAGTTCAAATAC
1 AA-TCCGAATAATATAAGTTTAGACATATACCTAAATTCGATATTTACTTTTGGAGTTCAAATAA
** * *
7669666 CATAGGTTTAGGTTTGACTTGTTATGGTTCATTTTAGTGAAGAAAAACAAGGAAAAGAGTTATAG
65 CATA-GTTTAGGTTTGGTTTGTTAAGGTTCATTTTAGCGAAGAAAAACAAGGAAAAGAGTTATAG
*
7669731 CAAATAATAAGATCTTCTAAAGATACCCTCTAAATATATAGATAAACTTTG-AA-T-A-AATCTG
129 CAAA-AATAAGATCTTCTAAAGATACCCTCTAAATATATAGATAAACTTAGAAATTAATAATCT-
* * *
7669792 TATATA-ATATTTACATCTG
192 TATATACACACTCACAT-TG
* * * *
7669811 AATCCGAACAATATAAATTTAAACATGTACCTAAATTCGATATTTACTTTTGGAGTTCAAATAAC
1 AATCCGAATAATATAAGTTTAGACATATACCTAAATTCGATATTTACTTTTGGAGTTCAAATAAC
* * * * * *
7669876 ATAGCTTTAGGTTTGGTTTGTTAGGGTTCATTTTAGCAAAGAAAAAGAAAGAAAATAGTTATAAC
66 ATAG-TTTAGGTTTGGTTTGTTAAGGTTCATTTTAGCGAAGAAAAACAAGGAAAAGAGTTATAGC
* *
7669941 AGAAAATAA-AGTCGTT-TAAAG--ACACTCTAAATATAAAGATAAA
130 A-AAAATAAGA-TC-TTCTAAAGATACCCTCTAAATATATAGATAAA
7669984 TTTAAAAAAA
Statistics
Matches: 316, Mismatches: 55, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
207 20 0.06
208 2 0.01
209 125 0.40
210 12 0.04
211 7 0.02
213 1 0.00
214 2 0.01
215 7 0.02
216 120 0.38
217 5 0.02
218 15 0.05
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (210 bp):
AATCCGAATAATATAAGTTTAGACATATACCTAAATTCGATATTTACTTTTGGAGTTCAAATAAC
ATAGTTTAGGTTTGGTTTGTTAAGGTTCATTTTAGCGAAGAAAAACAAGGAAAAGAGTTATAGCA
AAAATAAGATCTTCTAAAGATACCCTCTAAATATATAGATAAACTTAGAAATTAATAATCTTATA
TACACACTCACATTG
Found at i:7670373 original size:20 final size:22
Alignment explanation
Indices: 7670341--7670410 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
7670331 TTATAATATG
* *
7670341 TATTTTATTATATTATA-ATTA
1 TATTTAATAATATTATATATTA
*
7670362 TATTTAA-AATATTTTATATT-
1 TATTTAATAATATTATATATTA
*
7670382 TATATTAATAATTTTATATATGTA
1 TAT-TTAATAATATTATATAT-TA
7670406 TATTT
1 TATTT
7670411 GTGAAATCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
20 10 0.26
21 13 0.33
22 10 0.26
23 3 0.08
24 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TATTTAATAATATTATATATTA
Found at i:7670378 original size:22 final size:21
Alignment explanation
Indices: 7670353--7670410 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
7670343 TTTTATTATA
7670353 TTATAATTATATTTAAAATATT
1 TTATAATTATATTTAAAA-ATT
* *
7670375 TTATATTTATA-TTAATAATT
1 TTATAATTATATTTAAAAATT
7670395 TTATATATGTATATTT
1 TTATA-AT-TATATTT
7670411 GTGAAATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 14 0.47
23 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATAATTATATTTAAAAATT
Found at i:7671445 original size:17 final size:17
Alignment explanation
Indices: 7671419--7671451 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7671409 ATATATTTTG
*
7671419 AAATATATATTTATATA
1 AAATAGATATTTATATA
7671436 AAATAGATATTTATAT
1 AAATAGATATTTATAT
7671452 TTAACACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATAGATATTTATATA
Found at i:7677459 original size:6 final size:6
Alignment explanation
Indices: 7677450--7677481 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
7677440 AATTTTTAAA
*
7677450 AAATTT AAATTT AAATTT AAAATT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AA
7677482 CTCGACCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:7678660 original size:3 final size:3
Alignment explanation
Indices: 7678654--7678680 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7678644 GCTCCTCCGC
7678654 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
7678681 TAGGTGCCCA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:7684300 original size:25 final size:26
Alignment explanation
Indices: 7684237--7684309 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
7684227 CAATTAGAGC
* *
7684237 AATAA-ATTTAATTAAAATAATTAATA
1 AATAATATGTAATT-AAATAATTAAAA
7684263 AATAATATGTAA-TAAATAATTAAAA
1 AATAATATGTAATTAAATAATTAAAA
* * * *
7684288 AATTATGTTTAATTATATAATT
1 AATAATATGTAATTAAATAATT
7684310 TTTAATATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 20 0.51
26 14 0.36
27 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
AATAATATGTAATTAAATAATTAAAA
Found at i:7684936 original size:14 final size:14
Alignment explanation
Indices: 7684912--7684963 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
7684902 TTAACAACTA
7684912 ATATA-ATAAAATT
1 ATATATATAAAATT
*
7684925 ATA-ATCATAAAAAT
1 ATATAT-ATAAAATT
*
7684939 ATATATATATAATT
1 ATATATATAAAATT
7684953 ATAT-TATAAAA
1 ATATATATAAAA
7684964 AAATATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 1 0.03
13 9 0.28
14 20 0.62
15 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATATATAAAATT
Found at i:7684961 original size:27 final size:27
Alignment explanation
Indices: 7684911--7684969 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
7684901 ATTAACAACT
7684911 AATATAATAAAATTATAATCATAAAAA
1 AATATAATAAAATTATAATCATAAAAA
* * *
7684938 TATATATATATAATTAT-ATTATAAAAA
1 AATATA-ATAAAATTATAATCATAAAAA
7684965 AATAT
1 AATAT
7684970 TATTTGGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AATATAATAAAATTATAATCATAAAAA
Found at i:7685295 original size:21 final size:18
Alignment explanation
Indices: 7685269--7685324 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
7685259 TTTAAAAGTG
7685269 ATATAATTATTTAATGCAAA
1 ATATAATTATTTAAT--AAA
* *
7685289 CATATAACATATTAAATAAA
1 -ATATAA-TTATTTAATAAA
7685309 ATATAATTATTTAATA
1 ATATAATTATTTAATA
7685325 TAAAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 3 0.10
21 6 0.20
22 7 0.23
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (18 bp):
ATATAATTATTTAATAAA
Found at i:7685354 original size:18 final size:17
Alignment explanation
Indices: 7685320--7685359 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7685310 TATAATTATT
* *
7685320 TAATATAAAAATTAATA
1 TAATACAAAAATAAATA
7685337 TAATACAAAAATAAAATA
1 TAATACAAAAAT-AAATA
7685355 TAATA
1 TAATA
7685360 ATATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TAATACAAAAATAAATA
Found at i:7685505 original size:3 final size:3
Alignment explanation
Indices: 7685497--7685535 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7685487 AAGGAGCTTG
7685497 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7685536 TTGTTTCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7686402 original size:3 final size:3
Alignment explanation
Indices: 7686394--7686422 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7686384 TTATCATGAC
7686394 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7686423 CTACTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7692019 original size:18 final size:18
Alignment explanation
Indices: 7691983--7692025 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7691973 CATGCACCCC
* **
7691983 GGTGCTGGTGCTGGTGCT
1 GGTGCTGGTGCCGCCGCT
7692001 GGTGCTGGTGCCGCCGCT
1 GGTGCTGGTGCCGCCGCT
*
7692019 GCTGCTG
1 GGTGCTG
7692026 CCACCACTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.47, T:0.28
Consensus pattern (18 bp):
GGTGCTGGTGCCGCCGCT
Found at i:7692026 original size:6 final size:6
Alignment explanation
Indices: 7691983--7692011 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7691973 CATGCACCCC
7691983 GGTGCT GGTGCT GGTGCT GGTGCT GGTGC
1 GGTGCT GGTGCT GGTGCT GGTGCT GGTGC
7692012 CGCCGCTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTGCT
Found at i:7697614 original size:17 final size:19
Alignment explanation
Indices: 7697587--7697621 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7697577 TATTATTATT
7697587 TTTATAATTAAA-TAATAA
1 TTTATAATTAAATTAATAA
7697605 TTTA-AATTAAATTAATA
1 TTTATAATTAAATTAATA
7697622 TATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTATAATTAAATTAATAA
Found at i:7697650 original size:12 final size:13
Alignment explanation
Indices: 7697618--7697668 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
7697608 AAATTAAATT
*
7697618 AATATATATTTAA
1 AATATTTATTTAA
*
7697631 AATTTTTATTT-A
1 AATATTTATTTAA
* *
7697643 AATATTTAATCAA
1 AATATTTATTTAA
7697656 AAGTATTTATTTA
1 AA-TATTTATTTA
7697669 TGAACTATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
12 9 0.31
13 12 0.41
14 8 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (13 bp):
AATATTTATTTAA
Found at i:7697976 original size:20 final size:19
Alignment explanation
Indices: 7697931--7697977 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
7697921 TTTATTAAAT
*
7697931 TAAAAATAATATTTAATTA
1 TAAAAATAATATTTAATAA
7697950 TACAAAAT-ATATTTAGAATAA
1 TA-AAAATAATATTT--AATAA
7697971 TAAAAAT
1 TAAAAAT
7697978 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAAATAATATTTAATAA
Found at i:7697989 original size:16 final size:16
Alignment explanation
Indices: 7697960--7698005 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
7697950 TACAAAATAT
* *
7697960 ATTTAGAATAATAAAA
1 ATTTAAAATTATAAAA
7697976 ATTTAAAATTATAAAA
1 ATTTAAAATTATAAAA
*
7697992 ATAATAAAATTATA
1 AT-TTAAAATTATA
7698006 TTATCTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTTAAAATTATAAAA
Found at i:7697999 original size:17 final size:16
Alignment explanation
Indices: 7697970--7698005 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
7697960 ATTTAGAATA
*
7697970 ATAAAAATTTAAAATT
1 ATAAAAATATAAAATT
7697986 ATAAAAATAATAAAATT
1 ATAAAAAT-ATAAAATT
7698003 ATA
1 ATA
7698006 TTATCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAATATAAAATT
Found at i:7698732 original size:164 final size:164
Alignment explanation
Indices: 7698461--7698785 Score: 614
Period size: 164 Copynumber: 2.0 Consensus size: 164
7698451 AGCGAACCGA
*
7698461 AAAATGAGCGTAGTAGCAGTAGGTAAGATTTATATAAATGCACGATTACATTGTACTACCAAGAA
1 AAAATGAGCGTAGTAGCAGTAGGTAAGATTTATATAAATGCACAATTACATTGTACTACCAAGAA
*
7698526 AACAGTGACCGGATGTAGGCGGTGGAAGAGAGGGGACCATTGGGAAAGGAGGTGACCGGAGCAAG
66 AACAATGACCGGATGTAGGCGGTGGAAGAGAGGGGACCATTGGGAAAGGAGGTGACCGGAGCAAG
7698591 CGGTGATCTAAAATTTGGCTTGACTTGGACATCT
131 CGGTGATCTAAAATTTGGCTTGACTTGGACATCT
*
7698625 AAAATGAGCGTAGTAGCAGTAGGTAAGATTTATATAAATGCACAATTACGTTGTACTACCAAGAA
1 AAAATGAGCGTAGTAGCAGTAGGTAAGATTTATATAAATGCACAATTACATTGTACTACCAAGAA
7698690 AACAATGACCGGATGTAGGCGGTGGAAGAGAGGGGACCATTGGGAAAGGAGGTGACCGGAGCAAG
66 AACAATGACCGGATGTAGGCGGTGGAAGAGAGGGGACCATTGGGAAAGGAGGTGACCGGAGCAAG
*
7698755 CGGTGATCTAAAATTTGGTTTGACTTGGACA
131 CGGTGATCTAAAATTTGGCTTGACTTGGACA
7698786 AGTTTTGGCC
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 157 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (164 bp):
AAAATGAGCGTAGTAGCAGTAGGTAAGATTTATATAAATGCACAATTACATTGTACTACCAAGAA
AACAATGACCGGATGTAGGCGGTGGAAGAGAGGGGACCATTGGGAAAGGAGGTGACCGGAGCAAG
CGGTGATCTAAAATTTGGCTTGACTTGGACATCT
Found at i:7698959 original size:13 final size:13
Alignment explanation
Indices: 7698931--7698975 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
7698921 AATATAATAT
7698931 TTTATATTTTATAA
1 TTTATATTTTA-AA
*
7698945 TTTATTTTTTAAA
1 TTTATATTTTAAA
* *
7698958 TTTAAATGTTAAA
1 TTTATATTTTAAA
7698971 TTTAT
1 TTTAT
7698976 TGTTGAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTATATTTTAAA
Found at i:7699134 original size:17 final size:18
Alignment explanation
Indices: 7699098--7699136 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7699088 TTATATATTT
7699098 TTTAAATGATATAATAAA
1 TTTAAATGATATAATAAA
* *
7699116 TTTAAAT-ATTTAATGAA
1 TTTAAATGATATAATAAA
7699133 TTTA
1 TTTA
7699137 TGTAGCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TTTAAATGATATAATAAA
Found at i:7699683 original size:33 final size:32
Alignment explanation
Indices: 7699614--7699727 Score: 83
Period size: 32 Copynumber: 3.6 Consensus size: 32
7699604 ATTATATATT
* * *
7699614 TTATATAAATTTTATTATGTTAAT-AATTAA-A
1 TTATATTAATTTTATTATGTT-TTGTATTAATA
7699645 GTTATATTAATTTTATTATGTTTGTGTATTAATA
1 -TTATATTAATTTTATTATGTTT-TGTATTAATA
** * *
7699679 TTATATTTGTATTATTA--TTTTGTATTATATT
1 TTATATTAATTTTATTATGTTTTGTATTA-ATA
* *
7699710 TTATTTTAATTTTTTTAT
1 TTATATTAATTTTATTAT
7699728 TATATTCATA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
30 7 0.11
31 17 0.26
32 21 0.32
33 19 0.29
34 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (32 bp):
TTATATTAATTTTATTATGTTTTGTATTAATA
Found at i:7699691 original size:17 final size:16
Alignment explanation
Indices: 7699669--7699715 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
7699659 ATTATGTTTG
7699669 TGTATTAATATTATATT
1 TGTATT-ATATTATATT
7699686 TGTA-T-TATTAT-TT
1 TGTATTATATTATATT
*
7699699 TGTATTATATTTTATT
1 TGTATTATATTATATT
7699715 T
1 T
7699716 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 6 0.23
14 7 0.27
15 5 0.19
16 4 0.15
17 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TGTATTATATTATATT
Found at i:7699702 original size:13 final size:13
Alignment explanation
Indices: 7699677--7699711 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7699667 TGTGTATTAA
7699677 TATTATATTTGTAT
1 TATTAT-TTTGTAT
7699691 TATTATTTTGTAT
1 TATTATTTTGTAT
7699704 TA-TATTTT
1 TATTATTTT
7699712 ATTTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TATTATTTTGTAT
Found at i:7699703 original size:30 final size:28
Alignment explanation
Indices: 7699646--7699717 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
7699636 ATAATTAAAG
7699646 TTATATTA-ATTTTATTATGTTTGTGTA
1 TTATATTATATTTTATTATGTTTGTGTA
*
7699673 TTAATATTATATTTGTATTAT-TATTTTGTA
1 TT-ATATTATATTT-TATTATGT-TTGTGTA
*
7699703 TTATATTTTATTTTA
1 TTATATTATATTTTA
7699718 ATTTTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 2 0.05
28 8 0.21
29 15 0.38
30 14 0.36
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (28 bp):
TTATATTATATTTTATTATGTTTGTGTA
Found at i:7699704 original size:24 final size:24
Alignment explanation
Indices: 7699677--7699733 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
7699667 TGTGTATTAA
7699677 TATTATATTTGTATTATT-A-TTTTG
1 TATTATATTT-TATT-TTAATTTTTG
*
7699701 TATTATATTTTATTTTAATTTTTT
1 TATTATATTTTATTTTAATTTTTG
7699725 TATTATATT
1 TATTATATT
7699734 CATATCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 2 0.07
23 5 0.17
24 23 0.77
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (24 bp):
TATTATATTTTATTTTAATTTTTG
Found at i:7699973 original size:26 final size:25
Alignment explanation
Indices: 7699903--7699979 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 25
7699893 ATTTAACGTA
7699903 TTAATAATTTATGT-TA-TATAAATT
1 TTAATAATTTAT-TATATTATAAATT
7699927 TTAATATATTTA-TATATTTATCAAATT
1 TTAATA-ATTTATTATA-TTAT-AAATT
*
7699954 TTATTAATTTATTATATTATATAATT
1 TTAATAATTTATTATATTATA-AATT
7699980 ATATCGTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
23 1 0.02
24 8 0.18
25 6 0.13
26 16 0.36
27 14 0.31
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
TTAATAATTTATTATATTATAAATT
Found at i:7700298 original size:25 final size:25
Alignment explanation
Indices: 7700263--7700392 Score: 79
Period size: 25 Copynumber: 5.0 Consensus size: 25
7700253 TATTAAACAT
*
7700263 AATTATAAAAATATAATACATATAA
1 AATTATTAAAATATAATACATATAA
* *
7700288 AATTATTAAAATAAAATATAATATTAATA
1 AATTATTAAAATATAATA-CATA-T-A-A
* *
7700317 AATATTTTAAAATTTATATA-ATAT-A
1 AAT-TATTAAAATATA-ATACATATAA
* *
7700342 AATTATTAATATATTAATATATAT-A
1 AATTATTAAAATA-TAATACATATAA
**
7700367 AA-TATATAAAATATTTTACATATAA
1 AATTAT-TAAAATATAATACATATAA
7700392 A
1 A
7700393 TATATATTCT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
24 20 0.24
25 37 0.45
26 3 0.04
27 1 0.01
28 2 0.02
29 7 0.09
30 9 0.11
31 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTATTAAAATATAATACATATAA
Found at i:7700318 original size:30 final size:30
Alignment explanation
Indices: 7700270--7700329 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
7700260 CATAATTATA
7700270 AAAATATAATACATATAAA-ATTATTAAAAT
1 AAAATATAATACATATAAATATT-TTAAAAT
*
7700300 AAAATATAATA-TTAATAAATATTTTAAAAT
1 AAAATATAATACAT-ATAAATATTTTAAAAT
7700330 TTATATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 1 0.04
30 23 0.85
31 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATATAATACATATAAATATTTTAAAAT
Found at i:7700370 original size:18 final size:18
Alignment explanation
Indices: 7700332--7700397 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 18
7700322 TTTAAAATTT
7700332 ATATAATATAAAT-TATTA
1 ATAT-ATATAAATATATTA
7700350 ATATAT-T-AATATATATA
1 ATATATATAAATATAT-TA
7700367 A-ATATATAAA-ATATT-
1 ATATATATAAATATATTA
* *
7700382 TTACATATAAATATAT
1 ATATATATAAATATAT
7700398 ATTCTAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
15 3 0.08
16 17 0.43
17 14 0.35
18 6 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATATAAATATATTA
Found at i:7700775 original size:22 final size:20
Alignment explanation
Indices: 7700732--7700775 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
7700722 TTTTATTTTT
*
7700732 AATTAATTTTTATAATATAA
1 AATTAATATTTATAATATAA
*
7700752 AATTATATATTTATCAATTTAA
1 AATTA-ATATTTAT-AATATAA
7700774 AA
1 AA
7700776 AAAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTAATATTTATAATATAA
Found at i:7701200 original size:2 final size:2
Alignment explanation
Indices: 7701193--7701226 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7701183 ATAATATGCG
7701193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7701227 TTGTGGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7701538 original size:23 final size:22
Alignment explanation
Indices: 7701486--7701541 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
7701476 ATAATATTTT
7701486 TATTTAAATTTAATTATTAAAA
1 TATTTAAATTTAATTATTAAAA
*
7701508 TATATAAATATTAATT-TTAAAA
1 TATTTAAAT-TTAATTATTAAAA
7701530 TATTTTAAATTT
1 TA-TTTAAATTT
7701542 TTTATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTAAATTTAATTATTAAAA
Found at i:7703456 original size:24 final size:22
Alignment explanation
Indices: 7703427--7703478 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 22
7703417 AAATTATAAT
7703427 TTAAAATAAAAATAATAATAATTA
1 TTAAAATAAAAATAA-AA-AATTA
*
7703451 TTAAAATAAAAATAAAAATTTA
1 TTAAAATAAAAATAAAAAATTA
7703473 TTAAAA
1 TTAAAA
7703479 ATTATGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.37
23 2 0.07
24 15 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAATAAAAATAAAAAATTA
Found at i:7703807 original size:21 final size:23
Alignment explanation
Indices: 7703762--7703812 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
7703752 AATTGATTTA
*
7703762 TATAAAATTTTAAAATAAAATAAT
1 TATAAAA-ATTAAAATAAAATAAT
*
7703786 TTTAAAAATTAAAA-AAAA-AAT
1 TATAAAAATTAAAATAAAATAAT
7703807 TATAAA
1 TATAAA
7703813 TATCCATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.33
22 4 0.17
23 6 0.25
24 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAATTAAAATAAAATAAT
Found at i:7704097 original size:19 final size:19
Alignment explanation
Indices: 7704057--7704150 Score: 84
Period size: 19 Copynumber: 4.8 Consensus size: 19
7704047 TTAATAATTT
*
7704057 TTATTTT-ATA-AATTTTA
1 TTATTTTAATATATTTTTA
*
7704074 ATATTTTAATATATTTTTA
1 TTATTTTAATATATTTTTA
7704093 TTATTTTAATATTATTTTTTA
1 TTATTTTAATA-TA-TTTTTA
* * *
7704114 GTATTATATTATATTTTTA
1 TTATTTTAATATATTTTTA
*
7704133 TTTTTTTATATCATATTT
1 TTATTTTA-AT-ATATTT
7704151 AAACTTATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.10
18 3 0.05
19 27 0.44
20 5 0.08
21 20 0.33
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (19 bp):
TTATTTTAATATATTTTTA
Found at i:7704105 original size:11 final size:11
Alignment explanation
Indices: 7704075--7704110 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7704065 TAAATTTTAA
7704075 TATTTTAATA-
1 TATTTTAATAT
7704085 TATTTT--TAT
1 TATTTTAATAT
7704094 TATTTTAATAT
1 TATTTTAATAT
7704105 TATTTT
1 TATTTT
7704111 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
8 2 0.09
9 6 0.26
10 6 0.26
11 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTTTAATAT
Found at i:7704136 original size:24 final size:24
Alignment explanation
Indices: 7704091--7704138 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
7704081 AATATATTTT
*
7704091 TATTATTTTAATATTATTTTTTAG
1 TATTATATTAATATTATTTTTTAG
*
7704115 TATTATATTATATTTTTATTTTTT
1 TATTATATTA-A-TATTATTTTTT
7704139 TATATCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 1 0.05
26 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTATATTAATATTATTTTTTAG
Found at i:7704141 original size:21 final size:21
Alignment explanation
Indices: 7704083--7704150 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
7704073 AATATTTTAA
*
7704083 TATATTTTTATTATTTTAATAT
1 TATATTTTTATT-TTTTTATAT
* *
7704105 TAT-TTTTTA--GTATTATAT
1 TATATTTTTATTTTTTTATAT
7704123 TATATTTTTATTTTTTTATAT
1 TATATTTTTATTTTTTTATAT
*
7704144 CATATTT
1 TATATTT
7704151 AAACTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
21 19 0.51
22 3 0.08
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (21 bp):
TATATTTTTATTTTTTTATAT
Found at i:7704424 original size:29 final size:29
Alignment explanation
Indices: 7704377--7704432 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
7704367 ACTTTTATAG
* *
7704377 TATTGAATAAAAATTATTATATTAATAAAT
1 TATTGAATAAAAAATATTA-AATAATAAAT
7704407 TATT-AATAAAAAATATTAAATAATAA
1 TATTGAATAAAAAATATTAAATAATAA
7704433 TATGAGATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 13 0.54
30 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
TATTGAATAAAAAATATTAAATAATAAAT
Found at i:7704428 original size:14 final size:14
Alignment explanation
Indices: 7704377--7704429 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
7704367 ACTTTTATAG
*
7704377 TATTGAATAAAAAT
1 TATTAAATAAAAAT
*
7704391 TATTATATTAATAAAT
1 TATTA-AATAA-AAAT
*
7704407 TATT-AATAAAAAA
1 TATTAAATAAAAAT
7704420 TATTAAATAA
1 TATTAAATAA
7704430 TAATATGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.22
14 13 0.41
15 4 0.12
16 8 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TATTAAATAAAAAT
Found at i:7704695 original size:136 final size:137
Alignment explanation
Indices: 7704552--7704810 Score: 369
Period size: 136 Copynumber: 1.9 Consensus size: 137
7704542 AGAATAATAT
* *
7704552 TTTTTTAATTGAAATAATATATTTTATTTAATTTTAATTATAAAATATATAAAAATTAATAT-AA
1 TTTTTTAATTAAAATAATATATTTTATTTAATTTTAATTATAAAAAATATAAAAATTAATATAAA
* ** * * *
7704616 TTTTTTTTTTAATAATAATGAACATT-ATTCAAGTCTACGAGTTGGGTACGGACTTGAGTTTATA
66 ATAATTTTTTAATAATAATAAACATTGATTCAAGTCTACAAGCTGGGT-CGGACTTGAGTTTATA
7704680 ATGCAAAA
130 ATGCAAAA
* *
7704688 TTTTTTAATTAAAATAATATATTTTGTTTAATTTTAATTATAAAAAATATAAATATTAATATAAA
1 TTTTTTAATTAAAATAATATATTTTATTTAATTTTAATTATAAAAAATATAAAAATTAATAT-AA
** *
7704753 AATAATTTTTTAATAATAATAAACATTGATTTGAGTCTACAAGCTGGGTTGGACTTGA
65 AATAATTTTTTAATAATAATAAACATTGATTCAAGTCTACAAGCTGGGTCGGACTTGA
7704811 TTTGAACTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
136 58 0.54
138 32 0.30
139 17 0.16
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (137 bp):
TTTTTTAATTAAAATAATATATTTTATTTAATTTTAATTATAAAAAATATAAAAATTAATATAAA
ATAATTTTTTAATAATAATAAACATTGATTCAAGTCTACAAGCTGGGTCGGACTTGAGTTTATAA
TGCAAAA
Found at i:7706092 original size:25 final size:27
Alignment explanation
Indices: 7706044--7706100 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
7706034 TTAGATAAAT
* *
7706044 TTAAGTTAACTTTTAATTGTATATTTA
1 TTAATTTAACTTTAAATTGTATATTTA
7706071 TTAATTTAA-TTTAAATTG-ATATTTA
1 TTAATTTAACTTTAAATTGTATATTTA
*
7706096 ATAAT
1 TTAAT
7706101 AAAAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 11 0.41
26 8 0.30
27 8 0.30
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (27 bp):
TTAATTTAACTTTAAATTGTATATTTA
Found at i:7706096 original size:37 final size:37
Alignment explanation
Indices: 7706009--7706097 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 37
7705999 AAATTTTTTT
7706009 ATTAACTCAATTTAATTGTTATTTATTAGATAAATTTAA
1 ATTAACT--ATTTAATTGTTATTTATTAGATAAATTTAA
* *
7706048 GTTAACT-TTTAATTGTATATTTATTA-ATTTAATTTAA
1 ATTAACTATTTAATTGT-TATTTATTAGA-TAAATTTAA
*
7706085 ATTGA-TATTTAAT
1 ATTAACTATTTAAT
7706098 AATAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
36 11 0.26
37 26 0.60
39 6 0.14
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (37 bp):
ATTAACTATTTAATTGTTATTTATTAGATAAATTTAA
Found at i:7706108 original size:22 final size:22
Alignment explanation
Indices: 7706083--7706126 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7706073 AATTTAATTT
*
7706083 AAATTGATATTTAATAATAAAA
1 AAATTGAAATTTAATAATAAAA
* *
7706105 AAATTTAAATTTAATTATAAAA
1 AAATTGAAATTTAATAATAAAA
7706127 TATATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTGAAATTTAATAATAAAA
Found at i:7706134 original size:21 final size:21
Alignment explanation
Indices: 7706091--7706146 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
7706081 TTAAATTGAT
* *
7706091 ATTTAATAATAAAAAAATTTAA
1 ATTTAATTAT-AAAAAATATAA
*
7706113 ATTTAATTATAAAATATATAA
1 ATTTAATTATAAAAAATATAA
7706134 ATATTAA-TATAAA
1 AT-TTAATTATAAA
7706147 TTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTAATTATAAAAAATATAA
Found at i:7717735 original size:2 final size:2
Alignment explanation
Indices: 7717728--7717766 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7717718 TTTTAGCAAA
*
7717728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7717767 AGAACTAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7723817 original size:36 final size:36
Alignment explanation
Indices: 7723777--7723879 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
7723767 GAGTATGATT
7723777 ATTGATTCATTGCCATCATTACATGGAATAATGGTC
1 ATTGATTCATTGCCATCATTACATGGAATAATGGTC
7723813 ATTGATTCATTGCCATCATTACATGGAATAATGGTC
1 ATTGATTCATTGCCATCATTACATGGAATAATGGTC
* *
7723849 ATCGATTCATTGCCATCATTACATAGAATAA
1 ATTGATTCATTGCCATCATTACATGGAATAA
7723880 GGTTACCTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (36 bp):
ATTGATTCATTGCCATCATTACATGGAATAATGGTC
Found at i:7724375 original size:34 final size:34
Alignment explanation
Indices: 7724335--7724403 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
7724325 AACAGAAAAC
7724335 ACAAATGCACATGCATAAAAATAAAATCTTTCTT
1 ACAAATGCACATGCATAAAAATAAAATCTTTCTT
*
7724369 ACAAATGCACATGCATAAAAATAAAATTTTTCTT
1 ACAAATGCACATGCATAAAAATAAAATCTTTCTT
7724403 A
1 A
7724404 AGTTCCAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (34 bp):
ACAAATGCACATGCATAAAAATAAAATCTTTCTT
Found at i:7729118 original size:19 final size:19
Alignment explanation
Indices: 7729069--7729109 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7729059 CATCATTTTC
* *
7729069 AATAATTATTAATTTAAAA
1 AATAATTATTTACTTAAAA
7729088 AATAATTATTTACTTAAAA
1 AATAATTATTTACTTAAAA
7729107 AAT
1 AAT
7729110 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAATTATTTACTTAAAA
Found at i:7729304 original size:14 final size:14
Alignment explanation
Indices: 7729229--7729304 Score: 55
Period size: 14 Copynumber: 5.2 Consensus size: 14
7729219 TGATATATAA
7729229 TATATACAT-AAAAT
1 TATATA-ATAAAAAT
*
7729243 TATTAAAATATAAAAT
1 TA-TATAATA-AAAAT
* * *
7729259 AATATGATATAAAT
1 TATATAATAAAAAT
* *
7729273 ATATATAGTAAAATT
1 -TATATAATAAAAAT
7729288 TATATAATAAAAAT
1 TATATAATAAAAAT
7729302 TAT
1 TAT
7729305 TAACGTATCA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 23 0.50
15 17 0.37
16 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (14 bp):
TATATAATAAAAAT
Found at i:7729683 original size:19 final size:20
Alignment explanation
Indices: 7729648--7729689 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7729638 TTTTTTTAAT
7729648 TATATAAAAAATAATATGTA
1 TATATAAAAAATAATATGTA
* *
7729668 TATATCAAAAAT-ATATTTA
1 TATATAAAAAATAATATGTA
7729687 TAT
1 TAT
7729690 TTTTCATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TATATAAAAAATAATATGTA
Found at i:7736891 original size:2 final size:2
Alignment explanation
Indices: 7736881--7736927 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7736871 GTTCTCTCCG
*
7736881 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7736923 TC TC T
1 TC TC T
7736928 TTCTTTCCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:7748671 original size:48 final size:47
Alignment explanation
Indices: 7748554--7748671 Score: 116
Period size: 48 Copynumber: 2.4 Consensus size: 47
7748544 GAGTTGAATT
* *
7748554 TAAAATTATATTTTAATGATTTAAGTTTATTGAATAACTATTTATTTAATA
1 TAAAA-TAT-TTTTAAT-ATTTAAGTTTATTG-ATAAATATTAATTTAATA
*
7748605 TAATAATAATTTTT--TATTTAATTTTAATTG-TAAATATTAATATTAATA
1 TAA-AAT-ATTTTTAATATTTAAGTTT-ATTGATAAATATTAAT-TTAATA
7748653 TAAAATATTTTTAATATTT
1 TAAAATATTTTTAATATTT
7748672 TAATATTTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
46 6 0.10
47 12 0.21
48 23 0.40
49 5 0.09
51 8 0.14
52 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (47 bp):
TAAAATATTTTTAATATTTAAGTTTATTGATAAATATTAATTTAATA
Found at i:7750201 original size:27 final size:26
Alignment explanation
Indices: 7750139--7750214 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
7750129 TTTTAAATTA
* * *
7750139 TTTAAAATAAATTAAATTCAATAAAT
1 TTTAAAATCAATTAAATTAAAAAAAT
*
7750165 TTATAAAATCAATTGAATTGAAAAAAAT
1 TT-TAAAATCAATTAAATT-AAAAAAAT
*
7750193 TTTAAAATCGAAAT-AATTAAAA
1 TTTAAAATC-AATTAAATTAAAA
7750215 GTAAAATTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 6 0.14
27 25 0.60
28 11 0.26
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
TTTAAAATCAATTAAATTAAAAAAAT
Found at i:7750705 original size:32 final size:34
Alignment explanation
Indices: 7750633--7750695 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
7750623 TATTTAAAAT
*
7750633 ATTTTATATTTATATAAATTTTAATACATTACTG
1 ATTTTATATTTATATAAATTTTAAAACATTACTG
7750667 A-TTTATA-TTATATAAATTTTAAAACATTA
1 ATTTTATATTTATATAAATTTTAAAACATTA
7750696 TATTTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 21 0.75
33 6 0.21
34 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (34 bp):
ATTTTATATTTATATAAATTTTAAAACATTACTG
Found at i:7750738 original size:29 final size:31
Alignment explanation
Indices: 7750703--7750790 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
7750693 TTATATTTTT
7750703 ATAATATTTTTATTATTTTCTTA-TATCA-A
1 ATAATATTTTTATTATTTTCTTATTATCATA
* * * *
7750732 ATAATATTTTACATTATTTTTTTATTATGATT
1 ATAATATTTT-TATTATTTTCTTATTATCATA
*
7750764 ATATATATTTTTATTATATT-TTATTAT
1 ATA-ATATTTTTATTATTTTCTTATTAT
7750791 TTTTATATCG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 10 0.20
30 11 0.22
31 11 0.22
32 10 0.20
33 7 0.14
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (31 bp):
ATAATATTTTTATTATTTTCTTATTATCATA
Found at i:7750776 original size:21 final size:19
Alignment explanation
Indices: 7750746--7750822 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 19
7750736 TATTTTACAT
7750746 TATT-TTTTTATTATGATTA
1 TATTATTTTTATTAT-ATTA
*
7750765 TATATATTTTTATTATATTT
1 TAT-TATTTTTATTATATTA
**
7750785 TATTATTTTTA-TATCGTA
1 TATTATTTTTATTATATTA
* *
7750803 TTTTAATTTT-TTATATTA
1 TATTATTTTTATTATATTA
7750821 TA
1 TA
7750823 ATTGTTATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 18 0.39
19 11 0.24
20 7 0.15
21 10 0.22
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTATTTTTATTATATTA
Found at i:7750787 original size:10 final size:10
Alignment explanation
Indices: 7750751--7750796 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
7750741 TACATTATTT
7750751 TTTTATTATGA
1 TTTTATTAT-A
*
7750762 TTATA-TATA
1 TTTTATTATA
7750771 TTTTTATTATA
1 -TTTTATTATA
7750782 TTTTATTAT-
1 TTTTATTATA
7750791 TTTTAT
1 TTTTAT
7750797 ATCGTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTATTATA
Done.