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 46 of 52
Found at i:7419366 original size:16 final size:16
Alignment explanation
Indices: 7419347--7419401 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
7419337 TCTGGACTTA
*
7419347 AAATGATCCGAACCTG
1 AAATGATCCGAATCTG
*
7419363 AAATGAAT-CGAATTTG
1 AAATG-ATCCGAATCTG
* *
7419379 AAATGATCCAAATCTT
1 AAATGATCCGAATCTG
7419395 AAATGAT
1 AAATGAT
7419402 TTGAACTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 2 0.06
16 28 0.88
17 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (16 bp):
AAATGATCCGAATCTG
Found at i:7419481 original size:21 final size:22
Alignment explanation
Indices: 7419440--7419481 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7419430 TAAAAAATAT
*
7419440 TAAGTTACTAAAATAATATTTA
1 TAAGTTACTAAAATAAAATTTA
*
7419462 TAAGTTA-TAATATAAAATTT
1 TAAGTTACTAAAATAAAATTT
7419482 TGAATTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
TAAGTTACTAAAATAAAATTTA
Found at i:7419517 original size:19 final size:18
Alignment explanation
Indices: 7419484--7419534 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
7419474 TAAAATTTTG
* *
7419484 AATTAGTTATATAATATGT
1 AATTA-TTATTTAATATAT
*
7419503 GATTATATATTTAATATAT
1 AATTAT-TATTTAATATAT
7419522 AATTATTATTTAA
1 AATTATTATTTAA
7419535 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTATTATTTAATATAT
Found at i:7419802 original size:21 final size:22
Alignment explanation
Indices: 7419759--7419802 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
7419749 CTAAAAATCA
*
7419759 ATTAGAAATATATTTATTTTTT
1 ATTAGAAATATATTTATTATTT
7419781 ATTA-AAATA-ATTTAATTATTT
1 ATTAGAAATATATTT-ATTATTT
7419802 A
1 A
7419803 AAATAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTAGAAATATATTTATTATTT
Found at i:7421361 original size:6 final size:6
Alignment explanation
Indices: 7421319--7421422 Score: 64
Period size: 6 Copynumber: 18.5 Consensus size: 6
7421309 ACAATTTATG
* *
7421319 TATTTA T-TTTA TAATTA TA--TA TTTTTA TATATTA TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TAT-TTA TATTTA TATTTA
* ** *
7421365 TA-TTA T-TATA TATTTA TATAAA T-TTTA -ATATA T-TTATA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATT-TA TATTTA
*
7421409 T-TTTA TTTTTA TAT
1 TATTTA TATTTA TAT
7421423 CATATTTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
4 3 0.04
5 23 0.31
6 41 0.55
7 8 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:7421375 original size:35 final size:34
Alignment explanation
Indices: 7421319--7421384 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
7421309 ACAATTTATG
*
7421319 TATTTATTTTATAATTATATATTTTTATATATTA
1 TATTTATTTTATAATTATATATATTTATATATTA
7421353 TATTTATATTTAT-ATTATTATATATTTATATA
1 TATTTAT-TTTATAATTA-TATATATTTATATA
7421385 AATTTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (34 bp):
TATTTATTTTATAATTATATATATTTATATATTA
Found at i:7421379 original size:22 final size:23
Alignment explanation
Indices: 7421327--7421437 Score: 76
Period size: 22 Copynumber: 5.1 Consensus size: 23
7421317 TGTATTTATT
*
7421327 TTATA-ATTATATATTTTTA-TA
1 TTATATATTATATATTTATATTA
7421348 -TATTATATT-TATATTTATATTA
1 TTA-TATATTATATATTTATATTA
** *
7421370 TTATATATT-TATATAAATTTTA
1 TTATATATTATATATTTATATTA
* *
7421392 ATATAT-TTATATATTTATTTTA
1 TTATATATTATATATTTATATTA
* *
7421414 TTTTTATATCATAT-TTTA-ATTA
1 -TTATATATTATATATTTATATTA
7421436 TT
1 TT
7421438 TTTTTAATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
20 2 0.03
21 15 0.21
22 40 0.56
23 10 0.14
24 5 0.07
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATATATTATATATTTATATTA
Found at i:7421403 original size:8 final size:8
Alignment explanation
Indices: 7421323--7421409 Score: 67
Period size: 8 Copynumber: 10.9 Consensus size: 8
7421313 TTTATGTATT
7421323 TATTT-TA
1 TATTTATA
*
7421330 TAATTATA
1 TATTTATA
*
7421338 TATTTTTA
1 TATTTATA
*
7421346 TATAT-TA
1 TATTTATA
7421353 TA-TT-TA
1 TATTTATA
7421359 TATTTATA
1 TATTTATA
7421367 T-TATTATA
1 TAT-TTATA
7421375 TATTTATA
1 TATTTATA
7421383 TAAATTTTAATA
1 T--A-TTT-ATA
7421395 TATTTATA
1 TATTTATA
7421403 TATTTAT
1 TATTTAT
7421410 TTTATTTTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
6 5 0.08
7 11 0.17
8 37 0.56
9 4 0.06
10 2 0.03
11 3 0.05
12 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTTATA
Found at i:7426863 original size:27 final size:27
Alignment explanation
Indices: 7426832--7426902 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
7426822 AAAAGTCACC
**
7426832 CTTTGTGTTTGTCAAAAACGATGGTTA
1 CTTTGTGTTTGTCAAAAACGATGAATA
* * * * *
7426859 CTTTGTATTTGTTAAAAATGGTGAATC
1 CTTTGTGTTTGTCAAAAACGATGAATA
7426886 CTTT-TGTTTGTCAAAAA
1 CTTTGTGTTTGTCAAAAA
7426903 TTGTGACTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 11 0.31
27 24 0.69
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAACGATGAATA
Found at i:7427804 original size:12 final size:11
Alignment explanation
Indices: 7427782--7427811 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
7427772 ATCTCGTATT
7427782 ATTATTTAAAA
1 ATTATTTAAAA
7427793 ATTATATTAAAA
1 ATTAT-TTAAAA
7427805 ATTATTT
1 ATTATTT
7427812 TATATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTATTTAAAA
Found at i:7427816 original size:17 final size:17
Alignment explanation
Indices: 7427791--7427840 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
7427781 TATTATTTAA
7427791 AAATTATATTAAAAATT
1 AAATTATATTAAAAATT
** *
7427808 ATTTTATATTAATAATT
1 AAATTATATTAAAAATT
*
7427825 AAATTAAATTAAAAAT
1 AAATTATATTAAAAAT
7427841 AACTTTTAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTATATTAAAAATT
Found at i:7427852 original size:30 final size:31
Alignment explanation
Indices: 7427816--7427878 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
7427806 TTATTTTATA
*
7427816 TTAATAATTAAATT-AAATTAAAAATAACTT
1 TTAATAATTAAATTAAAATAAAAAATAACTT
*
7427846 TTAATAATTAAATTAAAATAAAAAATAATTT
1 TTAATAATTAAATTAAAATAAAAAATAACTT
7427877 TT
1 TT
7427879 TTGATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
TTAATAATTAAATTAAAATAAAAAATAACTT
Found at i:7433312 original size:22 final size:21
Alignment explanation
Indices: 7433285--7433329 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
7433275 ACCAAAAAAA
*
7433285 TATTATATATATAATTAATTAT
1 TATTATATATAAAATTAA-TAT
*
7433307 TATTATTTATAAAATTAATAT
1 TATTATATATAAAATTAATAT
7433328 TA
1 TA
7433330 ATAATGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTATATATAAAATTAATAT
Found at i:7433626 original size:2 final size:2
Alignment explanation
Indices: 7433619--7433643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7433609 GCATGGAAGA
7433619 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 A
7433644 ATTCTAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7433688 original size:16 final size:17
Alignment explanation
Indices: 7433659--7433691 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7433649 AAAATTGAAT
*
7433659 AAAAAAGGCATGAAAAA
1 AAAAAAAGCATGAAAAA
7433676 AAAAAAAGC-TGAAAAA
1 AAAAAAAGCATGAAAAA
7433692 CACTGCTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
AAAAAAAGCATGAAAAA
Found at i:7434762 original size:2 final size:2
Alignment explanation
Indices: 7434755--7434787 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7434745 GCCAGCCATT
7434755 TA TA TA 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 T
7434788 TATTCTACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7436642 original size:22 final size:21
Alignment explanation
Indices: 7436611--7436653 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7436601 ATTTTTTTTT
* *
7436611 AAATTTATTCATATCTTTAAA
1 AAATTTATTCACATATTTAAA
7436632 AAATTATATTCACATATTTAAA
1 AAATT-TATTCACATATTTAAA
7436654 TTCAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTTATTCACATATTTAAA
Found at i:7438045 original size:16 final size:16
Alignment explanation
Indices: 7438019--7438058 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7438009 AATTATATTT
7438019 TATTT-AATTTTATTAA
1 TATTTAAATTTTA-TAA
7438035 T-TTTAAATTTTATAA
1 TATTTAAATTTTATAA
7438050 TATTTAAAT
1 TATTTAAAT
7438059 GAATATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTAAATTTTATAA
Found at i:7438127 original size:22 final size:23
Alignment explanation
Indices: 7438042--7438127 Score: 72
Period size: 22 Copynumber: 3.8 Consensus size: 23
7438032 TAATTTTAAA
* **
7438042 TTTTATAATATTTAAATGAATATT
1 TTTTAAAATATTTAAAAAAATA-T
* *
7438066 TTTTATAA-ATTTATAAAAATA-
1 TTTTAAAATATTTAAAAAAATAT
*
7438087 -TTTAAAATATTCTATAAAAATAT
1 TTTTAAAATATT-TAAAAAAATAT
7438110 TTTTAAAAT-TTTAAAAAA
1 TTTTAAAATATTTAAAAAA
7438128 TTAATAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 6 0.11
21 3 0.06
22 16 0.30
23 12 0.23
24 16 0.30
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
TTTTAAAATATTTAAAAAAATAT
Found at i:7438415 original size:14 final size:14
Alignment explanation
Indices: 7438377--7438418 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
7438367 ATCTAAAATG
7438377 ATATA-ATTTAATT
1 ATATATATTTAATT
* *
7438390 TTAATTTATTTAATT
1 AT-ATATATTTAATT
7438405 ATATATATTTAATT
1 ATATATATTTAATT
7438419 TAAATTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 1 0.04
14 13 0.57
15 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATATATTTAATT
Found at i:7439252 original size:12 final size:12
Alignment explanation
Indices: 7439237--7439293 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
7439227 TAAAAAATAT
7439237 AATTAATAAAAA
1 AATTAATAAAAA
7439249 AATTAATATAAAA
1 AATTAATA-AAAA
*
7439262 ATATTATTAAATAA
1 A-ATTAATAAA-AA
7439276 TAATT-A-AAAAA
1 -AATTAATAAAAA
7439287 AATTAAT
1 AATTAAT
7439294 CAATATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
10 4 0.11
11 3 0.08
12 11 0.30
13 7 0.19
14 11 0.30
15 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATTAATAAAAA
Found at i:7439306 original size:23 final size:23
Alignment explanation
Indices: 7439280--7439342 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
7439270 AAATAATAAT
*
7439280 TAAA-AAAAATTAATCAATATTTA
1 TAAACAAATATTAATCAA-ATTTA
** *
7439303 TAAACATCTATTAATTAAATTTA
1 TAAACAAATATTAATCAAATTTA
*
7439326 TAAATAAATATTAATCA
1 TAAACAAATATTAATCA
7439343 TCCCTCTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 22 0.71
24 9 0.29
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAACAAATATTAATCAAATTTA
Found at i:7439469 original size:14 final size:14
Alignment explanation
Indices: 7439450--7439482 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7439440 AATTGGCTTA
7439450 ATTAATAATTTAA-T
1 ATTAATAA-TTAATT
7439464 ATTAATAATTAATT
1 ATTAATAATTAATT
7439478 ATTAA
1 ATTAA
7439483 ACGATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATAATTAATT
Found at i:7439557 original size:20 final size:21
Alignment explanation
Indices: 7439532--7439570 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7439522 AGTTTAATTT
7439532 AAATAAT-TATTTATAAAATA
1 AAATAATATATTTATAAAATA
7439552 AAATAATATATTTATAAAA
1 AAATAATATATTTATAAAA
7439571 ATATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAATATATTTATAAAATA
Found at i:7441417 original size:17 final size:16
Alignment explanation
Indices: 7441391--7441422 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7441381 ACATATTTCA
7441391 TTTTATTATATTTTAT
1 TTTTATTATATTTTAT
7441407 TTTTAATTATATTTTA
1 TTTT-ATTATATTTTA
7441423 AATATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTATATTTTAT
Found at i:7441463 original size:21 final size:22
Alignment explanation
Indices: 7441439--7441490 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
7441429 CATATAATTT
7441439 TAAAAATTTA-ACTC-ATAAAAA
1 TAAAAATTTATA-TCAATAAAAA
* *
7441460 TAAAAAATTATATCAATAAATA
1 TAAAAATTTATATCAATAAAAA
7441482 TAAAAATTT
1 TAAAAATTT
7441491 CTCGTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAATTTATATCAATAAAAA
Found at i:7442225 original size:22 final size:22
Alignment explanation
Indices: 7442200--7442241 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7442190 AATATGAATT
*
7442200 CATAAATAATTTAACTTTTAAA
1 CATAAATAATTTAAATTTTAAA
*
7442222 CATATATAATTTAAATTTTA
1 CATAAATAATTTAAATTTTA
7442242 TTTTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
CATAAATAATTTAAATTTTAAA
Found at i:7450069 original size:19 final size:18
Alignment explanation
Indices: 7450045--7450082 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7450035 AATTGTATAA
7450045 TTATATTAATATTTTGTAT
1 TTATATTAATATTTT-TAT
*
7450064 TTATATTATTATTTTTAT
1 TTATATTAATATTTTTAT
7450082 T
1 T
7450083 ATTATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATATTAATATTTTTAT
Found at i:7450752 original size:33 final size:33
Alignment explanation
Indices: 7450726--7450787 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
7450716 TTTTAAAATT
* *
7450726 TAAAAA-AATTAA-AAGTTTATAAATTTTACCAA
1 TAAAAATAATTAATAA-TTCATAAATTTTACAAA
7450758 TAAAAATAATTAATAATTCATAAATTTTAC
1 TAAAAATAATTAATAATTCATAAATTTTAC
7450788 TCTATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.22
33 19 0.70
34 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (33 bp):
TAAAAATAATTAATAATTCATAAATTTTACAAA
Found at i:7451361 original size:29 final size:28
Alignment explanation
Indices: 7451208--7451361 Score: 86
Period size: 29 Copynumber: 5.2 Consensus size: 28
7451198 TATTCGTATA
*
7451208 TTTTATTATATAATAATTTTATTTAA-AATAT
1 TTTTATT-TAT-ATAA-TATATTTAATAAT-T
7451239 TTTATATTTATATAA-AT-TTTAATATATT
1 TTT-TATTTATATAATATATTTAATA-ATT
* * * *
7451267 AATTAATATTATATAA-AT-TTAAAGATATT
1 -TTTTAT-TTATATAATATATTTAATA-ATT
*
7451296 TTTATATTTATATTATATATTTAAT-ATGT
1 TTT-TATTTATATAATATATTTAATAAT-T
*
7451325 GTTATATTTATATAATTATATTTAATAATT
1 -TTTTATTTATATAA-TATATTTAATAATT
7451355 TTTTATT
1 TTTTATT
7451362 AACAAAGATA
Statistics
Matches: 98, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
27 5 0.05
28 16 0.16
29 44 0.45
30 21 0.21
31 8 0.08
32 4 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTATTTATATAATATATTTAATAATT
Found at i:7452153 original size:11 final size:12
Alignment explanation
Indices: 7452116--7452156 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
7452106 TATTTAAATT
7452116 TAATATTAAAAA
1 TAATATTAAAAA
* *
7452128 T-ATATTAATAT
1 TAATATTAAAAA
7452139 TAATA-TAAAAA
1 TAATATTAAAAA
7452150 TAATATT
1 TAATATT
7452157 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATATTAAAAA
Found at i:7452313 original size:32 final size:32
Alignment explanation
Indices: 7452258--7452319 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
7452248 ATTCTTAAAC
7452258 TTTCTTTTCAATGGGTTAGTTTATTTTTAATT
1 TTTCTTTTCAATGGGTTAGTTTATTTTTAATT
* *
7452290 TTTCTTTTGAATGAGTTTA-TTTATTTTTAA
1 TTTCTTTTCAATG-GGTTAGTTTATTTTTAA
7452320 ATGATCCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTCTTTTCAATGGGTTAGTTTATTTTTAATT
Found at i:7453641 original size:2 final size:2
Alignment explanation
Indices: 7453634--7453664 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7453624 TTTGTTTCGT
*
7453634 TC TC TC TC TC TC TC TC TC TC TC TC GC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7453665 TTCATTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.03, T:0.48
Consensus pattern (2 bp):
TC
Found at i:7456183 original size:57 final size:57
Alignment explanation
Indices: 7456106--7456256 Score: 167
Period size: 57 Copynumber: 2.6 Consensus size: 57
7456096 GATCGGAGGG
* *
7456106 TGAGAGATGATTACCGCTCCCCCAGGCGATCTAGATCAATTTCACAGGATCATGGCT
1 TGAGAGATGATTATCGCTCCCCCAGGCGATCTAGATCAATTTCACAGGATCATGGCA
* * * * * ** * *
7456163 TGAGAGATGACTATCGCTCCCCCAGTCGATCCAGATCTATTTTAGGGGATCGTGGGA
1 TGAGAGATGATTATCGCTCCCCCAGGCGATCTAGATCAATTTCACAGGATCATGGCA
** * *
7456220 CAAAAGATGATTATCGCTCTCCCAGGCGATCTAGATC
1 TGAGAGATGATTATCGCTCCCCCAGGCGATCTAGATC
7456257 TGTTTCACGG
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
57 76 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (57 bp):
TGAGAGATGATTATCGCTCCCCCAGGCGATCTAGATCAATTTCACAGGATCATGGCA
Found at i:7459837 original size:3 final size:3
Alignment explanation
Indices: 7459829--7459854 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7459819 CAATTCAGTA
7459829 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7459855 AGAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7461221 original size:2 final size:2
Alignment explanation
Indices: 7461216--7461240 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7461206 TGTTTTGTTT
7461216 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7461241 TGGGGGGGGG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7462616 original size:2 final size:2
Alignment explanation
Indices: 7462609--7462640 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7462599 TGTCCACGCT
7462609 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
7462641 ATGTTGAGCA
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:7465015 original size:23 final size:23
Alignment explanation
Indices: 7464971--7465032 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
7464961 ATATTTTTAT
* *
7464971 TTTAAAATTTAATTATAAAAAAA
1 TTTAAAATTAAAATATAAAAAAA
7464994 TTTAAAATTAAAATA-AATAAAAA
1 TTTAAAATTAAAATATAA-AAAAA
*
7465017 TATAAAAAATTAAAAT
1 T-T-TAAAATTAAAAT
7465033 TTAATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.06
23 19 0.58
24 1 0.03
25 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
TTTAAAATTAAAATATAAAAAAA
Found at i:7465486 original size:2 final size:2
Alignment explanation
Indices: 7465479--7465519 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
7465469 TTACTCATTG
* * *
7465479 TA TA TA TA TC TA TA TA TA TA TA TA TA TG TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7465520 TCTACATAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7469818 original size:12 final size:12
Alignment explanation
Indices: 7469792--7469821 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
7469782 AGTTACTTTA
7469792 TTTTTTTTAATT
1 TTTTTTTTAATT
7469804 TTTTTCTTTAATT
1 TTTTT-TTTAATT
7469817 TTTTT
1 TTTTT
7469822 AACATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTAATT
Found at i:7469829 original size:22 final size:22
Alignment explanation
Indices: 7469787--7469829 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7469777 ATTCAAGTTA
* **
7469787 CTTTATTTTTTTTAATTTTTTT
1 CTTTAATTTTTTTAACATTTTT
7469809 CTTTAATTTTTTTAACATTTT
1 CTTTAATTTTTTTAACATTTT
7469830 CAATAATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
CTTTAATTTTTTTAACATTTTT
Found at i:7471151 original size:18 final size:19
Alignment explanation
Indices: 7471130--7471169 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
7471120 ATTTTTATTT
7471130 AAATTTAAATTA-ATTTAA
1 AAATTTAAATTACATTTAA
*
7471148 AAATTTATATTATCATTTAA
1 AAATTTAAATTA-CATTTAA
7471168 AA
1 AA
7471170 TAATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTAAATTACATTTAA
Found at i:7471196 original size:23 final size:25
Alignment explanation
Indices: 7471163--7471217 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
7471153 TATATTATCA
*
7471163 TTTAAAATAATA-TTAAAATTT-AT
1 TTTAAATTAATATTTAAAATTTAAT
*
7471186 TTTAAATTAATATTTATAATTTAAT
1 TTTAAATTAATATTTAAAATTTAAT
7471211 TTTAAAT
1 TTTAAAT
7471218 AAAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 11 0.39
24 8 0.29
25 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAAATTAATATTTAAAATTTAAT
Found at i:7471201 original size:12 final size:12
Alignment explanation
Indices: 7471114--7471217 Score: 56
Period size: 12 Copynumber: 8.7 Consensus size: 12
7471104 TTAGATTATA
**
7471114 ATTTAAATTTTT
1 ATTTAAATTAAT
7471126 ATTTAAATTTAA-
1 ATTTAAA-TTAAT
* *
7471138 A-TTAATTTAAAA
1 ATTTAAATT-AAT
*
7471150 ATTTATATT-AT
1 ATTTAAATTAAT
*
7471161 CATTTAAAATAAT
1 -ATTTAAATTAAT
* *
7471174 ATTAAAATTTAT
1 ATTTAAATTAAT
7471186 -TTTAAATTAAT
1 ATTTAAATTAAT
7471197 ATTTATAATTTAAT
1 ATTTA-AA-TTAAT
7471211 -TTTAAAT
1 ATTTAAAT
7471218 AAAAAATTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 19
0.69 0.13 0.19
Matches are distributed among these distances:
10 2 0.03
11 17 0.24
12 31 0.44
13 15 0.21
14 5 0.07
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTAAATTAAT
Found at i:7472907 original size:3 final size:3
Alignment explanation
Indices: 7472899--7472937 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7472889 CCTTGAACCA
7472899 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7472938 CATCTTAATT
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):
TAT
Found at i:7478279 original size:12 final size:12
Alignment explanation
Indices: 7478262--7478288 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7478252 TTATTGAATT
7478262 AAATAAATTTTA
1 AAATAAATTTTA
7478274 AAATAAATTTTA
1 AAATAAATTTTA
7478286 AAA
1 AAA
7478289 ATTATAAAAG
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATAAATTTTA
Found at i:7478776 original size:3 final size:3
Alignment explanation
Indices: 7478768--7478794 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7478758 ATCTGATTCT
7478768 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7478795 AAAATGGAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7479077 original size:18 final size:18
Alignment explanation
Indices: 7479034--7479080 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
7479024 AAATAGTTAA
*
7479034 AATATAAT-TTAAAATAT
1 AATATAATATGAAAATAT
7479051 AATATAATATGAAAA-AT
1 AATATAATATGAAAATAT
7479068 AATATAAATATGA
1 AATAT-AATATGA
7479081 TATTTTTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (18 bp):
AATATAATATGAAAATAT
Found at i:7479439 original size:15 final size:16
Alignment explanation
Indices: 7479414--7479457 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
7479404 GAATTATAAA
*
7479414 AATATTAATATTTATTT
1 AATA-TAATATATATTT
7479431 AA-ATAATATATATTT
1 AATATAATATATATTT
7479446 AATATAAT-TATA
1 AATATAATATATA
7479458 AAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 17 0.68
16 6 0.24
17 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATAATATATATTT
Found at i:7481497 original size:16 final size:16
Alignment explanation
Indices: 7481469--7481505 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7481459 ATTTTAAATT
7481469 AATA-AAAAAATATAA
1 AATATAAAAAATATAA
*
7481484 AATATAAAACATATAA
1 AATATAAAAAATATAA
7481500 AATATA
1 AATATA
7481506 TTTATATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AATATAAAAAATATAA
Found at i:7483524 original size:30 final size:30
Alignment explanation
Indices: 7483490--7483551 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7483480 GCTTTGCTCC
*
7483490 TTGAGTCAACTTATAATCAAATTAACCTTA
1 TTGAGACAACTTATAATCAAATTAACCTTA
7483520 TTGAGACAACTTATAATCAAATTAACCTTA
1 TTGAGACAACTTATAATCAAATTAACCTTA
7483550 TT
1 TT
7483552 ATGTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (30 bp):
TTGAGACAACTTATAATCAAATTAACCTTA
Found at i:7484988 original size:18 final size:18
Alignment explanation
Indices: 7484973--7485042 Score: 62
Period size: 15 Copynumber: 4.2 Consensus size: 18
7484963 ATTAAAATTA
7484973 ATAAATATAATAAAATAT
1 ATAAATATAATAAAATAT
*
7484991 AT-AAT-T-ATAATATAT
1 ATAAATATAATAAAATAT
* * *
7485006 ATATATAT-GTATAA-AT
1 ATAAATATAATAAAATAT
7485022 AT-AATATAATAAAATAT
1 ATAAATATAATAAAATAT
7485039 ATAA
1 ATAA
7485043 TTATTAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
15 14 0.36
16 11 0.28
17 11 0.28
18 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
ATAAATATAATAAAATAT
Found at i:7485005 original size:25 final size:24
Alignment explanation
Indices: 7484968--7485046 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 24
7484958 TTATTATTAA
7484968 AATTAATAAATATAATAAAATATAT
1 AATT-ATAAATATAATAAAATATAT
* *
7484993 AATTAT-AATATATATATATATGTAT
1 AATTATAAATATA-ATA-AAATATAT
*
7485018 AAATAT-AATATAATAAAATATAT
1 AATTATAAATATAATAAAATATAT
7485041 AATTAT
1 AATTAT
7485047 TAATTTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
23 17 0.37
24 8 0.17
25 21 0.46
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
AATTATAAATATAATAAAATATAT
Found at i:7486457 original size:2 final size:2
Alignment explanation
Indices: 7486450--7486479 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7486440 ATGACTAGCA
7486450 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
7486480 TTGGGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7502617 original size:146 final size:137
Alignment explanation
Indices: 7502249--7502676 Score: 463
Period size: 139 Copynumber: 3.0 Consensus size: 137
7502239 CCCCCCCCCC
* *
7502249 CAAAAAAA-AAAAA-ACCAACGTTTACTAAAACAAAAATAAACTAATTTCATAAGATCCATTAGC
1 CAAAAAAATAAAAACACCAACGTTTACT-AAACAAAAATAAAC-AATTCCATAAGACCCATTAGC
* * *
7502312 AAACATAAATGAAGAGACATAAATATAAACATGTCAATGAAGTAAAACCCAGAATAATGCTAGC-
64 AAACATAAATGAAGAAACATAAATATAAGCATTTCAATGAAGTAAAACCCAGAATAATGCTA-CT
*
7502376 TGGATTAAGT
128 TAGATTAAGT
*
7502386 CAAAAAAATAAAAACACCAACGTTTACTAAAGCAAAAATAAAACAATTCCATAAGACCAATTAGC
1 CAAAAAAATAAAAACACCAACGTTTACTAAA-CAAAAAT-AAACAATTCCATAAGACCCATTAGC
* * * **
7502451 AAACATAAGTGAAGCAACATAAATATAAGCATTTCAATGAAGTAAAAACTTGAATAATGCTACTT
64 AAACATAAATGAAGAAACATAAATATAAGCATTTCAATGAAGTAAAACCCAGAATAATGCTACTT
*
7502516 CGATTAAGT
129 AGATTAAGT
* * * *
7502525 CAAAATTTGTAAA-AAGAAAGCCCCCAATGTTTA-TCACAACAAAAATAAACGAATTGCATAAAA
1 CAAAA-----AAATAA-AAA--CACCAACGTTTACT-A-AACAAAAATAAAC-AATTCCATAAGA
* * * * *
7502588 CCCAGTATCAAACATAAACGAAGAAACATAACTATAAGCATTTCGATGAAG-ACAAACCCAGAAT
55 CCCATTAGCAAACATAAATGAAGAAACATAAATATAAGCATTTCAATGAAGTA-AAACCCAGAAT
7502652 AATGCTACTTAGATTAAGT
119 AATGCTACTTAGATTAAGT
7502671 CAAAAA
1 CAAAAA
7502677 GAGTTAAAAA
Statistics
Matches: 246, Mismatches: 28, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
137 8 0.03
138 9 0.04
139 106 0.43
140 4 0.02
141 1 0.00
143 2 0.01
144 6 0.02
145 6 0.02
146 102 0.41
147 2 0.01
ACGTcount: A:0.52, C:0.16, G:0.11, T:0.21
Consensus pattern (137 bp):
CAAAAAAATAAAAACACCAACGTTTACTAAACAAAAATAAACAATTCCATAAGACCCATTAGCAA
ACATAAATGAAGAAACATAAATATAAGCATTTCAATGAAGTAAAACCCAGAATAATGCTACTTAG
ATTAAGT
Found at i:7506174 original size:28 final size:28
Alignment explanation
Indices: 7506142--7506196 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
7506132 CATCAGAATG
7506142 CAAAAGTTATGGCATAGATCACTAAGCA
1 CAAAAGTTATGGCATAGATCACTAAGCA
* *
7506170 CAAAAGTTTTGGCATAGATTACTAAGC
1 CAAAAGTTATGGCATAGATCACTAAGC
7506197 GCTTTACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (28 bp):
CAAAAGTTATGGCATAGATCACTAAGCA
Found at i:7508008 original size:22 final size:22
Alignment explanation
Indices: 7507980--7508022 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7507970 GACCTTCTTT
* *
7507980 TTATTATTTTTATTTTTTTTTA
1 TTATTATTATTATTTATTTTTA
7508002 TTATTATTATTATTTATTTTT
1 TTATTATTATTATTTATTTTT
7508023 CTGAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (22 bp):
TTATTATTATTATTTATTTTTA
Found at i:7509495 original size:171 final size:171
Alignment explanation
Indices: 7509209--7509531 Score: 416
Period size: 171 Copynumber: 1.9 Consensus size: 171
7509199 TTGTGTAAGC
* * * * *
7509209 TCAGGATTGGTACATTCATCAGAGATGAGTTGTAATGAGGATGGTGCTTCTGTGGGATTTGATTC
1 TCAGGATTGGTACATTCATCAGAGATGAGTTGTAACGAGCATGGTCCTTCAGTGGAATTTGATTC
* * * * * ** *
7509274 CATATTGCAGGTCTCAATAAGATCAACCTCGGACCTTTGAACTTGCTCTTTCTCATCAGAATCAC
66 CACATTGCAGGCCTCAACAAGATCAACCTCAGACCTCTGAACAAGCTCTTTATCATCAGAATCAC
7509339 CAGATTGCAGTGAAGATGCCTGTGTAAGCTCTGGATTATTA
131 CAGATTGCAGTGAAGATGCCTGTGTAAGCTCTGGATTATTA
* *
7509380 TCAGGATTGGTAGATTCA-CTAGAGATG-GCTTGTGACGAGCATGGTCCTTCAGTGGAATTTGAT
1 TCAGGATTGGTACATTCATC-AGAGATGAG-TTGTAACGAGCATGGTCCTTCAGTGGAATTTGAT
* * ** *
7509443 TCCACATTGCAGGCCTCAACAAGATCAACTTCAGACGTCTGAACAAGCTCTTTATTGTCAGAATT
64 TCCACATTGCAGGCCTCAACAAGATCAACCTCAGACCTCTGAACAAGCTCTTTATCATCAGAATC
* *
7509508 GCTAGATTGCAGTGAAGATGCCTG
129 ACCAGATTGCAGTGAAGATGCCTG
7509532 ATTTTCTGAG
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
170 2 0.02
171 126 0.98
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (171 bp):
TCAGGATTGGTACATTCATCAGAGATGAGTTGTAACGAGCATGGTCCTTCAGTGGAATTTGATTC
CACATTGCAGGCCTCAACAAGATCAACCTCAGACCTCTGAACAAGCTCTTTATCATCAGAATCAC
CAGATTGCAGTGAAGATGCCTGTGTAAGCTCTGGATTATTA
Found at i:7510789 original size:72 final size:72
Alignment explanation
Indices: 7510593--7510803 Score: 237
Period size: 72 Copynumber: 2.9 Consensus size: 72
7510583 GATTCCAAAG
* ** ** **
7510593 AAGGCTCT-ACTTCACATTCAGAATTATTCTCAACCATAGCAGGTGCCTCCACCAGGCCCAACTT
1 AAGGCTCTGA-TTCACATTCAGAATTGTTCTCAACCATAGCAGGTGTGTCCACTGGGCCTGACTT
*
7510657 ATCTGGAC
65 ATCAGGAC
* ** * *
7510665 AAGGC-CTTGATTCACATTCAGATTTGTTCTCAAGTATAGCAGCTGTGCCCACTGGGCCTGACTT
1 AAGGCTC-TGATTCACATTCAGAATTGTTCTCAACCATAGCAGGTGTGTCCACTGGGCCTGACTT
*
7510729 ATCAGGAT
65 ATCAGGAC
* **
7510737 AAGGCTCTGATTGACATTCAGAATTGTTCTCAACCATAGCAGGTGTGTCCACTGTACCTGACTTA
1 AAGGCTCTGATTCACATTCAGAATTGTTCTCAACCATAGCAGGTGTGTCCACTGGGCCTGACTTA
7510802 TC
66 TC
7510804 TGGAGATGCA
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
71 1 0.01
72 111 0.97
73 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (72 bp):
AAGGCTCTGATTCACATTCAGAATTGTTCTCAACCATAGCAGGTGTGTCCACTGGGCCTGACTTA
TCAGGAC
Found at i:7514954 original size:6 final size:6
Alignment explanation
Indices: 7514945--7514999 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
7514935 TGGTAGTGGG
* * * * *
7514945 GGAGGT GGAGCT GGAGCT GGAGCT GGGGCT GGGGCT GGGGCT GGGGCT
1 GGAGCT GGAGCT GGAGCT GGAGCT GGAGCT GGAGCT GGAGCT GGAGCT
*
7514993 GGGGCT G
1 GGAGCT G
7515000 AGGCTGAGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.07, C:0.15, G:0.62, T:0.16
Consensus pattern (6 bp):
GGAGCT
Found at i:7514965 original size:12 final size:12
Alignment explanation
Indices: 7514950--7515015 Score: 80
Period size: 12 Copynumber: 5.5 Consensus size: 12
7514940 GTGGGGGAGG
*
7514950 TGGAGCTGGAGC
1 TGGAGCTGGGGC
7514962 TGGAGCTGGGGC
1 TGGAGCTGGGGC
*
7514974 TGGGGCTGGGGC
1 TGGAGCTGGGGC
*
7514986 TGGGGCTGGGGC
1 TGGAGCTGGGGC
*
7514998 T-GAGGCTGAGGC
1 TGGA-GCTGGGGC
7515010 TGGAGC
1 TGGAGC
7515016 ATGAGGTTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
11 1 0.02
12 45 0.94
13 2 0.04
ACGTcount: A:0.09, C:0.17, G:0.58, T:0.17
Consensus pattern (12 bp):
TGGAGCTGGGGC
Found at i:7515004 original size:6 final size:6
Alignment explanation
Indices: 7514954--7515012 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
7514944 GGGAGGTGGA
* * *
7514954 GCTGGA GCTGGA GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGAG
1 GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG
*
7515002 GCTGAG GCTGG
1 GCTGGG GCTGG
7515013 AGCATGAGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.07, C:0.17, G:0.59, T:0.17
Consensus pattern (6 bp):
GCTGGG
Found at i:7528231 original size:15 final size:15
Alignment explanation
Indices: 7528211--7528239 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7528201 TTGACCTATT
7528211 TATTATAAATTTAAA
1 TATTATAAATTTAAA
7528226 TATTATAAATTTAA
1 TATTATAAATTTAA
7528240 TAATATAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTATAAATTTAAA
Found at i:7528246 original size:14 final size:15
Alignment explanation
Indices: 7528214--7528247 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7528204 ACCTATTTAT
*
7528214 TATAAATTTAAATAT
1 TATAAATTTAAATAA
7528229 TATAAATTT-AATAA
1 TATAAATTTAAATAA
7528243 TATAA
1 TATAA
7528248 TAATTATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAAATTTAAATAA
Found at i:7528804 original size:85 final size:85
Alignment explanation
Indices: 7528708--7528885 Score: 347
Period size: 85 Copynumber: 2.1 Consensus size: 85
7528698 TTTAATTAAA
7528708 TAATTAATTTCTTAATTTGTTTTAATGAATAAGTGTCAATGTTTTAAACCCATTCATAAAATTAT
1 TAATTAATTTCTTAATTTGTTTTAATGAATAAGTGTCAATGTTTTAAACCCATTCATAAAATTAT
7528773 AAATTCTAATATTATTGTCT
66 AAATTCTAATATTATTGTCT
7528793 TAATTAATTTCTTAATTTGTTTTAATGAATAAGTGTCAATGTTTTAAACCCATTCATAAAATTAT
1 TAATTAATTTCTTAATTTGTTTTAATGAATAAGTGTCAATGTTTTAAACCCATTCATAAAATTAT
7528858 AAATTCTAATATTATTGTCT
66 AAATTCTAATATTATTGTCT
*
7528878 TAAATAAT
1 TAATTAAT
7528886 AATTAGTTTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (85 bp):
TAATTAATTTCTTAATTTGTTTTAATGAATAAGTGTCAATGTTTTAAACCCATTCATAAAATTAT
AAATTCTAATATTATTGTCT
Found at i:7529384 original size:19 final size:19
Alignment explanation
Indices: 7529360--7529396 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7529350 GCTAAATATA
*
7529360 TATTTTTATTAATTATTTT
1 TATTTTTAATAATTATTTT
*
7529379 TATTTTTAATATTTATTT
1 TATTTTTAATAATTATTT
7529397 AACATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TATTTTTAATAATTATTTT
Found at i:7537862 original size:14 final size:16
Alignment explanation
Indices: 7537843--7537877 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
7537833 TGTTGTATTC
7537843 ATATTA-ATTTTTAT-
1 ATATTATATTTTTATA
7537857 ATATTATATTTTTATA
1 ATATTATATTTTTATA
7537873 ATATT
1 ATATT
7537878 TTAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTATATTTTTATA
Found at i:7537890 original size:22 final size:23
Alignment explanation
Indices: 7537859--7537901 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7537849 ATTTTTATAT
*
7537859 ATTATATTTT-TATAATATTTTA
1 ATTATATTTTATATAAGATTTTA
*
7537881 ATTATTTTTTATATAAGATTT
1 ATTATATTTTATATAAGATTT
7537902 ATATCAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTATATTTTATATAAGATTTTA
Found at i:7538589 original size:21 final size:23
Alignment explanation
Indices: 7538551--7538592 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
7538541 TATATTTTAT
*
7538551 TTATTATTTATTTAAAATTAAAA
1 TTATTATTAATTTAAAATTAAAA
7538574 TTATT-TTAATTT-AAATTAA
1 TTATTATTAATTTAAAATTAA
7538593 TGATAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATTATTAATTTAAAATTAAAA
Found at i:7539093 original size:31 final size:31
Alignment explanation
Indices: 7539031--7539093 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
7539021 AATTAATAAT
*** *
7539031 TTATATAAATATATTATATTTTTTATGTTAA
1 TTATATAAATATATTATATTAAATATATTAA
7539062 TTATATAAATATAATT-TATTAAATATATTAA
1 TTATATAAATAT-ATTATATTAAATATATTAA
7539093 T
1 T
7539094 AGTTTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
TTATATAAATATATTATATTAAATATATTAA
Found at i:7539094 original size:22 final size:22
Alignment explanation
Indices: 7539026--7539094 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
7539016 CCTCAAATTA
7539026 ATAATTTATATAAATATATT-AT
1 ATAATTTAT-TAAATATATTAAT
** * *
7539048 ATTTTTTATGTTAATTATATAAAT
1 ATAATTTA--TTAAATATATTAAT
7539072 ATAATTTATTAAATATATTAAT
1 ATAATTTATTAAATATATTAAT
7539094 A
1 A
7539095 GTTTAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
22 19 0.53
23 8 0.22
24 9 0.25
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
ATAATTTATTAAATATATTAAT
Found at i:7540747 original size:28 final size:28
Alignment explanation
Indices: 7540694--7540760 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
7540684 ATATTTATAT
*
7540694 ATTTTATTATATTTATAATATATTAAAA
1 ATTTTATTATATTTATAAAATATTAAAA
* * **
7540722 ATTTATATTA-ATTTTTAAAATTTTAATT
1 ATTT-TATTATATTTATAAAATATTAAAA
7540750 ATTTT-TTATAT
1 ATTTTATTATAT
7540761 CTGTGATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
28 21 0.66
29 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTTTATTATATTTATAAAATATTAAAA
Found at i:7540755 original size:18 final size:20
Alignment explanation
Indices: 7540716--7540757 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
7540706 TTATAATATA
7540716 TTAAAAATTTATATTAATTT
1 TTAAAAATTTATATTAATTT
* *
7540736 TTAAAATTTTA-ATTATTTT
1 TTAAAAATTTATATTAATTT
7540755 TTA
1 TTA
7540758 TATCTGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTAAAAATTTATATTAATTT
Found at i:7540970 original size:27 final size:27
Alignment explanation
Indices: 7540918--7540988 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
7540908 GGATAAGATA
* *
7540918 AATAGATATATAAAATTTCATAA-TTTT
1 AATAGATATA-AAAATATAATAATTTTT
7540945 ATATATGATATAAAAATATAAT-ATTTTT
1 A-ATA-GATATAAAAATATAATAATTTTT
*
7540973 AATAAATATAAAAATA
1 AATAGATATAAAAATA
7540989 ATATAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 11 0.29
27 5 0.13
28 16 0.42
29 6 0.16
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (27 bp):
AATAGATATAAAAATATAATAATTTTT
Found at i:7540985 original size:25 final size:25
Alignment explanation
Indices: 7540925--7541019 Score: 68
Period size: 25 Copynumber: 3.7 Consensus size: 25
7540915 ATAAATAGAT
* * * *
7540925 ATATAAAATTTCATAATTTTATATATG
1 ATATAAAATATAATATTTTTA-ATA-A
7540952 ATATAAAAATATAATATTTTTAATAA
1 ATAT-AAAATATAATATTTTTAATAA
* * *
7540978 ATATAAAA-ATAATATAATATATTAA
1 ATATAAAATATAATAT-TTTTAATAA
*
7541003 ATAT-AAATATTATATTT
1 ATATAAAATATAATATTT
7541020 AAAATTTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
24 11 0.20
25 20 0.36
26 4 0.07
27 7 0.12
28 14 0.25
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
ATATAAAATATAATATTTTTAATAA
Found at i:7540999 original size:18 final size:19
Alignment explanation
Indices: 7540974--7541023 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
7540964 AATATTTTTA
7540974 ATAA-ATATAAAAAT-AAT
1 ATAATATATAAAAATAAAT
*
7540991 ATAATATATTAAATATAAAT
1 ATAATATA-TAAAAATAAAT
* *
7541011 ATTATATTTAAAA
1 ATAATATATAAAA
7541024 TTTTAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.15
18 3 0.12
19 10 0.38
20 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATATATAAAAATAAAT
Found at i:7541224 original size:2 final size:2
Alignment explanation
Indices: 7541217--7541241 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7541207 GTAACATTAC
7541217 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 A
7541242 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7541246 original size:2 final size:2
Alignment explanation
Indices: 7541241--7541271 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7541231 ATATATATAT
7541241 AG 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 AG A
7541272 AAGAAGCTTA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7541383 original size:14 final size:14
Alignment explanation
Indices: 7541364--7541394 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7541354 CATGAAAATC
*
7541364 AAAATTTCAATTTA
1 AAAATTTAAATTTA
7541378 AAAATTTAAATTTA
1 AAAATTTAAATTTA
7541392 AAA
1 AAA
7541395 CAATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATTTAAATTTA
Found at i:7541491 original size:30 final size:29
Alignment explanation
Indices: 7541411--7541492 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 29
7541401 AAATAACTTA
* * *
7541411 ATTATATAAAATTTTAAATTAAAATAATAT
1 ATTATATTAAATTTT-AATTATATTAATAT
* *
7541441 -TTTTATATAAA-TTTGA-TATATTAATTAT
1 ATTATAT-TAAATTTTAATTATATTAA-TAT
7541469 ATTATATTAAATTTTAATTATATT
1 ATTATATTAAATTTTAATTATATT
7541493 TTTTTTAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
27 6 0.15
28 8 0.20
29 17 0.43
30 9 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
ATTATATTAAATTTTAATTATATTAATAT
Found at i:7541896 original size:20 final size:21
Alignment explanation
Indices: 7541871--7541910 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7541861 AATTAAATTG
7541871 AATTAAATTAAA-ATTTTTTA
1 AATTAAATTAAATATTTTTTA
*
7541891 AATTAATTTAAATATTTTTT
1 AATTAAATTAAATATTTTTT
7541911 TAAGTTACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTAAATTAAATATTTTTTA
Found at i:7543952 original size:2 final size:2
Alignment explanation
Indices: 7543947--7543976 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7543937 TTTTTTATTT
7543947 TA TA 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 TA TA
7543977 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7545171 original size:21 final size:19
Alignment explanation
Indices: 7545147--7545186 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
7545137 CAAATCATGA
7545147 AATTAATTTTAAAATATATAT
1 AATTAA-TTTAAAATA-ATAT
*
7545168 AATTTATTTAAAATAATAT
1 AATTAATTTAAAATAATAT
7545187 TTATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTAATTTAAAATAATAT
Found at i:7545209 original size:13 final size:14
Alignment explanation
Indices: 7545185--7545217 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7545175 TTAAAATAAT
7545185 ATTTATAATTTACA
1 ATTTATAATTTACA
7545199 ATTTA-AATTTACA
1 ATTTATAATTTACA
*
7545212 ACTTAT
1 ATTTAT
7545218 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTATAATTTACA
Found at i:7545427 original size:3 final size:3
Alignment explanation
Indices: 7545419--7545451 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7545409 TAAAGCACAT
*
7545419 ATG ATG ATG ATG ATG ATG ATG AT- ATA ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
7545452 GAGATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:7545478 original size:18 final size:18
Alignment explanation
Indices: 7545455--7545506 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
7545445 ATGATGAGAG
7545455 ATATATTTAATTAATTTT
1 ATATATTTAATTAATTTT
7545473 ATATATTATATATT--TTTT
1 ATATATT-TA-ATTAATTTT
*
7545491 ATATAATTAA-TAATTT
1 ATATATTTAATTAATTT
7545507 AAAGAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 1 0.03
16 1 0.03
17 5 0.17
18 17 0.59
19 2 0.07
20 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATATTTAATTAATTTT
Found at i:7546915 original size:38 final size:41
Alignment explanation
Indices: 7546865--7546954 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
7546855 ATAAAAAATA
* *
7546865 TTTAATATAATTAA-TAA-ATCTTATA-TTTATATTTATAT
1 TTTAATAAAATTAATTAATATCTTATATTTTATATTTACAT
* *
7546903 TTTAATAAAATTAATTAATTTTTTATATTTTATATTTACAT
1 TTTAATAAAATTAATTAATATCTTATATTTTATATTTACAT
*
7546944 ATTAATTAAAA
1 TTTAA-TAAAA
7546955 AAATGTAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 13 0.30
39 3 0.07
40 6 0.14
41 16 0.37
42 5 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (41 bp):
TTTAATAAAATTAATTAATATCTTATATTTTATATTTACAT
Found at i:7551929 original size:16 final size:16
Alignment explanation
Indices: 7551905--7551936 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7551895 TAATTATACT
*
7551905 TTAATAATATTTATAA
1 TTAAAAATATTTATAA
7551921 TTAAAAATATTTATAA
1 TTAAAAATATTTATAA
7551937 ATCTTGTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAAATATTTATAA
Found at i:7553796 original size:27 final size:27
Alignment explanation
Indices: 7553745--7553799 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
7553735 TTTAAAAGAA
*
7553745 AAAATATTATAAACAAATTACATTAAT
1 AAAATATTATAAACAAATTAAATTAAT
7553772 AAAATA-TA-AAACAAATAATAAATTAAT
1 AAAATATTATAAACAAAT--TAAATTAAT
7553799 A
1 A
7553800 TTAATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 8 0.32
26 2 0.08
27 15 0.60
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAATATTATAAACAAATTAAATTAAT
Found at i:7554328 original size:35 final size:33
Alignment explanation
Indices: 7554287--7554366 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 33
7554277 TATATTTTTA
*
7554287 TTATATTTATAT-AATATAATTATATTTAAAATATT
1 TTATATTTATATAAATATAA-AATATTT-AAATA-T
* *
7554322 TTATATTTATATAAATTTAAAATATTTATATAT
1 TTATATTTATATAAATATAAAATATTTAAATAT
7554355 TTATATTTATAT
1 TTATATTTATAT
7554367 TATTTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 13 0.32
34 4 0.10
35 18 0.44
36 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TTATATTTATATAAATATAAAATATTTAAATAT
Found at i:7554345 original size:26 final size:27
Alignment explanation
Indices: 7554310--7554360 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
7554300 ATATAATTAT
7554310 ATTTAAAATATTT-TATATTTATATAA
1 ATTTAAAATATTTATATATTTATATAA
7554336 ATTTAAAATATTTATATATTTATAT
1 ATTTAAAATATTTATATATTTATAT
7554361 TTATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTAAAATATTTATATATTTATATAA
Found at i:7562737 original size:23 final size:23
Alignment explanation
Indices: 7562707--7562753 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7562697 TGGATAATAC
7562707 AAGGATGCTTTAATGTTAGATGA
1 AAGGATGCTTTAATGTTAGATGA
7562730 AAGGATGCTTTAATGTTAGATGA
1 AAGGATGCTTTAATGTTAGATGA
7562753 A
1 A
7562754 GTGATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (23 bp):
AAGGATGCTTTAATGTTAGATGA
Found at i:7563462 original size:22 final size:23
Alignment explanation
Indices: 7563429--7563498 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
7563419 TTTTAATTAT
*
7563429 TTAA-AATAAAAAATTATTAA-A
1 TTAATAATAAAAAATTATAAATA
*
7563450 TTAATTAT-AAAAATATATAAATA
1 TTAATAATAAAAAAT-TATAAATA
*
7563473 TTAATAATAAAAATATTAAAAATA
1 TTAATAATAAAAA-ATTATAAATA
7563497 TT
1 TT
7563499 TATTAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.25
22 7 0.17
23 8 0.20
24 13 0.32
25 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAATAATAAAAAATTATAAATA
Found at i:7563471 original size:29 final size:28
Alignment explanation
Indices: 7563421--7563476 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
7563411 AGATAAATTT
*
7563421 TTAATTATTTAAAATAAAAAATTATTAAA
1 TTAATTATTAAAAATAAAAAA-TATTAAA
*
7563450 TTAATTA-TAAAAATATATAAATATTAA
1 TTAATTATTAAAAATA-AAAAATATTAA
7563477 TAATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TTAATTATTAAAAATAAAAAATATTAAA
Found at i:7563475 original size:23 final size:23
Alignment explanation
Indices: 7563437--7563503 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
7563427 ATTTAAAATA
*
7563437 AAAAAT-TATTAA-ATTAATTAT
1 AAAAATATATAAATATTAATTAT
*
7563458 AAAAATATATAAATATTAATAAT
1 AAAAATATATAAATATTAATTAT
* *
7563481 AAAAATATTAAAAATATTTATTA
1 AAAAATA-TATAAATATTAATTA
7563504 ATTTATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 6 0.16
22 5 0.13
23 15 0.39
24 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAATATATAAATATTAATTAT
Found at i:7563488 original size:15 final size:15
Alignment explanation
Indices: 7563457--7563496 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
7563447 AAATTAATTA
7563457 TAAAAATATATAAATAT
1 TAAAAATA-A-AAATAT
*
7563474 TAATAATAAAAATAT
1 TAAAAATAAAAATAT
7563489 TAAAAATA
1 TAAAAATA
7563497 TTTATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATAAAAATAT
Found at i:7564031 original size:30 final size:30
Alignment explanation
Indices: 7563990--7564066 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
7563980 TAATTTTAAA
7563990 TTAAAT-TAAATTAAATTTTAAAAATATAT
1 TTAAATGTAAATTAAATTTTAAAAATATAT
* ** *
7564019 TTATATGTAAATTAAAAATTAAAAATTTAT
1 TTAAATGTAAATTAAATTTTAAAAATATAT
7564049 TTAAATGT-AA-TAAATTTT
1 TTAAATGTAAATTAAATTTT
7564067 TTTTTTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 6 0.15
29 7 0.17
30 27 0.68
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (30 bp):
TTAAATGTAAATTAAATTTTAAAAATATAT
Found at i:7564355 original size:22 final size:22
Alignment explanation
Indices: 7564330--7564467 Score: 60
Period size: 20 Copynumber: 6.5 Consensus size: 22
7564320 AAATAATTAA
7564330 AATATAAATATAATATAAATAT
1 AATATAAATATAATATAAATAT
** * *
7564352 AATATTTATA-AATAT-ATTTT
1 AATATAAATATAATATAAATAT
* ** *
7564372 AAAATTTATATAATATTAATTATT
1 AATATAAATATAATA-TAAATA-T
*
7564396 AATATATAA-A-AATTTAAATA-
1 AATATA-AATATAATATAAATAT
* **
7564416 AATAT--ATAAAATAT-TTTAT
1 AATATAAATATAATATAAATAT
*
7564435 AA-ATAATTATAATATAAATAT
1 AATATAAATATAATATAAATAT
*
7564456 AACATAAATATA
1 AATATAAATATA
7564468 TGAATTATGA
Statistics
Matches: 85, Mismatches: 19, Indels: 24
0.66 0.15 0.19
Matches are distributed among these distances:
17 1 0.01
18 5 0.06
19 6 0.07
20 24 0.28
21 14 0.16
22 22 0.26
23 6 0.07
24 6 0.07
25 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATAAATATAATATAAATAT
Found at i:7564376 original size:12 final size:15
Alignment explanation
Indices: 7564329--7564367 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7564319 AAAATAATTA
*
7564329 AAATATAAATATAATAT
1 AAATAT-AATAT-TTAT
7564346 AAATATAATATTTAT
1 AAATATAATATTTAT
7564361 AAATATA
1 AAATATA
7564368 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 5 0.24
17 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATAATATTTAT
Found at i:7564419 original size:20 final size:20
Alignment explanation
Indices: 7564396--7564468 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
7564386 ATTAATTATT
7564396 AATATATAAAAATTTAAATA
1 AATATATAAAAATTTAAATA
7564416 AATATATAAAATATTTTATAAATA
1 AATATATAAAA-A--TT-TAAATA
* * *
7564440 ATTATAATATAAATATAACATA
1 AATAT-ATAAAAATTTAA-ATA
7564462 AATATAT
1 AATATAT
7564469 GAATTATGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.26
21 6 0.14
22 8 0.19
23 2 0.05
24 11 0.26
25 5 0.12
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATATAAAAATTTAAATA
Found at i:7564451 original size:11 final size:11
Alignment explanation
Indices: 7564322--7564483 Score: 53
Period size: 11 Copynumber: 15.5 Consensus size: 11
7564312 ATGATAAAAA
*
7564322 ATAATTAAAAT
1 ATAATTATAAT
*
7564333 ATAAATATAAT
1 ATAATTATAAT
*
7564344 ATAAATATAAT
1 ATAATTATAAT
7564355 AT--TTATAA-
1 ATAATTATAAT
* *
7564363 ATATATTTTAAA
1 ATA-ATTATAAT
*
7564375 AT-TTATATAAT
1 ATAAT-TATAAT
7564386 ATTAATTATTAAT
1 A-TAATTA-TAAT
* *
7564399 AT-ATAAAAAT
1 ATAATTATAAT
* *
7564409 TTAAATA-AAT
1 ATAATTATAAT
*
7564419 AT-A-TAAAAT
1 ATAATTATAAT
*
7564428 AT-TTTATAA-
1 ATAATTATAAT
7564437 ATAATTATAAT
1 ATAATTATAAT
* *
7564448 ATAAATATAAC
1 ATAATTATAAT
7564459 ATAA--AT-AT
1 ATAATTATAAT
*
7564467 ATGAATTATGAT
1 AT-AATTATAAT
7564479 ATAAT
1 ATAAT
7564484 ACTCAATCAT
Statistics
Matches: 114, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
8 7 0.06
9 17 0.15
10 19 0.17
11 55 0.48
12 10 0.09
13 6 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
ATAATTATAAT
Found at i:7565515 original size:9 final size:9
Alignment explanation
Indices: 7565487--7565546 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
7565477 TTTAAAAATA
*
7565487 AAAAATATT
1 AAAATTATT
7565496 ATAAATT-TT
1 A-AAATTATT
7565505 AAAATTATT
1 AAAATTATT
7565514 AATAATTATT
1 AA-AATTATT
7565524 AATAATTATGT
1 AA-AATTAT-T
7565535 -AAATTAATT
1 AAAATT-ATT
7565544 AAA
1 AAA
7565547 TTAAATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
8 5 0.11
9 13 0.30
10 25 0.57
11 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
AAAATTATT
Found at i:7565522 original size:10 final size:10
Alignment explanation
Indices: 7565499--7565532 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7565489 AAATATTATA
7565499 AATT-TTAA-
1 AATTATTAAT
7565507 AATTATTAAT
1 AATTATTAAT
7565517 AATTATTAAT
1 AATTATTAAT
7565527 AATTAT
1 AATTAT
7565533 GTAAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 4 0.17
9 4 0.17
10 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTATTAAT
Found at i:7567320 original size:150 final size:149
Alignment explanation
Indices: 7567049--7567345 Score: 452
Period size: 150 Copynumber: 2.0 Consensus size: 149
7567039 ATTTTTAACC
* *
7567049 ATAACCTGAAAATGACTCAATTTCAAACTCTAAATGGCTGAGATTATCTATCCCTAAACCCTGGG
1 ATAACCTGAAAATGACTCAATTTCAAACTCTAAATGGCTGAGAATACCTATCCCTAAACCCTGGG
*
7567114 ATAACTAACGAGGTGGTCCTGGAGGGCCACCAGGAAGATACCAAGCAACCCTCCTGGTCGAGTTG
66 ATAACTAACGAGGTGGTCCTGGAGGGCCACCAGGAAGATACCAAGCAACCCTCCTGGTCGAGTAG
7567179 AACCCCAGTCAGGTCCACCA
131 AACCCCA-TCAGGTCCACCA
** * *
7567199 ATAACCTGAAAATGACTCCCTTTCAAAGTCTAAATGGTTGAGAATACCTATCCCTAAACCCTGGG
1 ATAACCTGAAAATGACTCAATTTCAAACTCTAAATGGCTGAGAATACCTATCCCTAAACCCTGGG
* * * ** *
7567264 ATAACTAAGGAGGTGGTCCTTGAGGGCCACCA-GAAGGGTGGCAAGCAACCTTCCTGGTCGAGTA
66 ATAACTAACGAGGTGGTCCTGGAGGGCCACCAGGAA-GATACCAAGCAACCCTCCTGGTCGAGTA
7567328 GAACCCCATCAGGTCCAC
130 GAACCCCATCAGGTCCAC
7567346 AACGGTCCTG
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
149 13 0.10
150 120 0.90
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (149 bp):
ATAACCTGAAAATGACTCAATTTCAAACTCTAAATGGCTGAGAATACCTATCCCTAAACCCTGGG
ATAACTAACGAGGTGGTCCTGGAGGGCCACCAGGAAGATACCAAGCAACCCTCCTGGTCGAGTAG
AACCCCATCAGGTCCACCA
Found at i:7567375 original size:25 final size:25
Alignment explanation
Indices: 7567337--7567394 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
7567327 AGAACCCCAT
7567337 CAGGTCCACAACGGTCCTGGTCCTC
1 CAGGTCCACAACGGTCCTGGTCCTC
*
7567362 CAGGTCCACCACGGTCCTGGTCCTC
1 CAGGTCCACAACGGTCCTGGTCCTC
7567387 CAGGTCCA
1 CAGGTCCA
7567395 GGTGGTCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.16, C:0.41, G:0.24, T:0.19
Consensus pattern (25 bp):
CAGGTCCACAACGGTCCTGGTCCTC
Found at i:7573602 original size:23 final size:23
Alignment explanation
Indices: 7573536--7573603 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
7573526 CACATTCATA
* *
7573536 TATTCATATCATATTTATATTATT
1 TATTTATATCATATTTTTATT-TT
*
7573560 T-TTTATAT--T-TTAATTA-TTT
1 TATTTATATCATATT-TTTATTTT
7573579 TATTTATATCATATTTTTATTTT
1 TATTTATATCATATTTTTATTTT
7573602 TA
1 TA
7573604 CGATGTCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 3 0.09
22 4 0.12
23 13 0.38
24 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTATATCATATTTTTATTTT
Found at i:7574074 original size:27 final size:27
Alignment explanation
Indices: 7574043--7574094 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
7574033 ATAACCATTA
*
7574043 ATAATTAATATAGAATATTGATTTAGC
1 ATAATTAATATAGAATACTGATTTAGC
*
7574070 ATAATTAATTTAGAATACTGATTTA
1 ATAATTAATATAGAATACTGATTTA
7574095 ACACACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (27 bp):
ATAATTAATATAGAATACTGATTTAGC
Found at i:7574082 original size:14 final size:14
Alignment explanation
Indices: 7574042--7574086 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
7574032 TATAACCATT
*
7574042 AATAATTAATATAG
1 AATAATTAATTTAG
*
7574056 AAT-ATTGATTTAG
1 AATAATTAATTTAG
*
7574069 CATAATTAATTTAG
1 AATAATTAATTTAG
7574083 AATA
1 AATA
7574087 CTGATTTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (14 bp):
AATAATTAATTTAG
Found at i:7580615 original size:57 final size:54
Alignment explanation
Indices: 7580515--7580625 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 54
7580505 AACATGTTTT
* * *
7580515 TAATCTGATTCATTGTTATTTATTGTTCTTGCTCATGAGTTCTTATGTCAAACC
1 TAATCAGATTCATTGTTATTTATTGCTCTTGCTCATGAGTTCTTACGTCAAACC
* *
7580569 TAATCAGATTCATTGTTATTTATTATTGCTCTTGCTTATGAGTTCTTACGTCTAACC
1 TAATCAGATTCATTGTTA--T-TTATTGCTCTTGCTCATGAGTTCTTACGTCAAACC
7580626 ATTTGAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 17 0.35
56 1 0.02
57 31 0.63
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.48
Consensus pattern (54 bp):
TAATCAGATTCATTGTTATTTATTGCTCTTGCTCATGAGTTCTTACGTCAAACC
Found at i:7581181 original size:16 final size:16
Alignment explanation
Indices: 7581150--7581191 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7581140 AAATATTTAC
* *
7581150 TTAATACATGAAAAAAC
1 TTAA-ACATAAAAAAAA
7581167 TTAAA-ATAAAAAAAA
1 TTAAACATAAAAAAAA
7581182 TTAAACATAA
1 TTAAACATAA
7581192 TTGTATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (16 bp):
TTAAACATAAAAAAAA
Found at i:7586305 original size:27 final size:26
Alignment explanation
Indices: 7586267--7586321 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
7586257 TTCTTCTCTA
*
7586267 TTTTAACTTTTTAAGTTTTTGTTGACT
1 TTTTAACTTTTTAA-CTTTTGTTGACT
7586294 TTTTAAGCTTTTTAACTTTTGTTGACT
1 TTTTAA-CTTTTTAACTTTTGTTGACT
7586321 T
1 T
7586322 ATCAGGTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.62
Consensus pattern (26 bp):
TTTTAACTTTTTAACTTTTGTTGACT
Found at i:7586965 original size:16 final size:15
Alignment explanation
Indices: 7586934--7586979 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
7586924 ACGAAATACA
*
7586934 TATTT-TTTATAAAT
1 TATTTATTTATATAT
7586948 TATTTATTATATATAT
1 TATTTATT-TATATAT
7586964 TATTTATTTA-ATAT
1 TATTTATTTATATAT
7586978 TA
1 TA
7586980 AAATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 11 0.38
15 4 0.14
16 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTTATATAT
Found at i:7587094 original size:14 final size:16
Alignment explanation
Indices: 7587062--7587094 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7587052 TTGTTGAATC
7587062 AAATATTTAAAAATAT
1 AAATATTTAAAAATAT
7587078 AAAT-TTTAAAAAT-T
1 AAATATTTAAAAATAT
7587092 AAA
1 AAA
7587095 CAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 9 0.53
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATTTAAAAATAT
Found at i:7588169 original size:14 final size:17
Alignment explanation
Indices: 7588130--7588173 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7588120 CACGATATAA
*
7588130 AAATAATAATATATTAT
1 AAATATTAATATATTAT
7588147 AAATATTAATAT-TTA-
1 AAATATTAATATATTAT
7588162 AAAT-TTAA-ATAT
1 AAATATTAATATAT
7588174 GTTAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 5 0.20
15 4 0.16
16 3 0.12
17 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATTAATATATTAT
Found at i:7588605 original size:21 final size:21
Alignment explanation
Indices: 7588580--7588636 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
7588570 TATAACGAGA
*
7588580 TAATTTTATCATTTTAAT-AT
1 TAATTTTATCATTATAATAAT
*
7588600 TAAATTTTATTATTATAATAAT
1 T-AATTTTATCATTATAATAAT
7588622 TAATTTTATCATTAT
1 TAATTTTATCATTAT
7588637 CATTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATTTTATCATTATAATAAT
Found at i:7588621 original size:24 final size:22
Alignment explanation
Indices: 7588580--7588655 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
7588570 TATAACGAGA
*
7588580 TAATTTTATCATTTTAATAT-T
1 TAATTTTATCATTATAATATAT
* *
7588601 AAATTTTATTATTATAATA-AT
1 TAATTTTATCATTATAATATAT
* *
7588622 TAATTTTATCATTATCATTATTTT
1 TAATTTTATCATTAT-AATA-TAT
7588646 TAATTTTATC
1 TAATTTTATC
7588656 GATGTGGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 30 0.68
22 3 0.07
24 11 0.25
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTTATCATTATAATATAT
Found at i:7589215 original size:2 final size:2
Alignment explanation
Indices: 7589202--7589244 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
7589192 TAATCTTGGC
*
7589202 AT AT AC 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
7589244 A
1 A
7589245 AACAAAGCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7590239 original size:23 final size:22
Alignment explanation
Indices: 7590202--7590244 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7590192 TCCATGTTTA
* *
7590202 AAATTATTTACTATTTAAATATT
1 AAATTATTAAATA-TTAAATATT
7590225 AAATTATTAAATATTAAATA
1 AAATTATTAAATATTAAATA
7590245 AAAAACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTATTAAATATTAAATATT
Found at i:7590867 original size:17 final size:18
Alignment explanation
Indices: 7590836--7590869 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7590826 AAAAAATATG
*
7590836 TAAAAAATATTTTTAAAA
1 TAAAAAATATATTTAAAA
7590854 TAAAAAATA-ATTTAAA
1 TAAAAAATATATTTAAA
7590870 TGCAAGTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAATATATTTAAAA
Found at i:7591113 original size:3 final size:3
Alignment explanation
Indices: 7591107--7591141 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7591097 AATAATAATA
*
7591107 ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
7591142 GTGGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Done.