Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 30 of 290
Found at i:9591478 original size:18 final size:17
Alignment explanation
Indices: 9591450--9591484 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9591440 ATTATTAAGA
*
9591450 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9591467 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9591485 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9591749 original size:16 final size:16
Alignment explanation
Indices: 9591730--9591770 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
9591720 ACACAGCTTT
*
9591730 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
9591746 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
9591762 TCCAATACA
1 TCCAATACA
9591771 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:9593605 original size:18 final size:18
Alignment explanation
Indices: 9593582--9593628 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
9593572 TTTATGTTAT
9593582 ATATTTTTTAAAATTTTA
1 ATATTTTTTAAAATTTTA
*
9593600 ATATTTATATAAAATTTTA
1 ATATTT-TTTAAAATTTTA
* *
9593619 TTTTTTTTTA
1 ATATTTTTTA
9593629 TAATCACATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTTTTAAAATTTTA
Found at i:9593765 original size:30 final size:30
Alignment explanation
Indices: 9593729--9593788 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9593719 GATCACACAA
9593729 CATACTTGTTTATATGGCGAGCTATATGTT
1 CATACTTGTTTATATGGCGAGCTATATGTT
*
9593759 CATACTTGTTTATATGGTGAGCTATATGTT
1 CATACTTGTTTATATGGCGAGCTATATGTT
9593789 AACTTCTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (30 bp):
CATACTTGTTTATATGGCGAGCTATATGTT
Found at i:9594658 original size:21 final size:23
Alignment explanation
Indices: 9594628--9594682 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
9594618 TTAATGGTTC
9594628 AATATAAATATATATT-ATTATT-T
1 AATAT-AATATA-ATTAATTATTAT
*
9594651 AAT-TAATATAATTAATTTTTAT
1 AATATAATATAATTAATTATTAT
9594673 AATATAATAT
1 AATATAATAT
9594683 TTGAATTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.11
21 11 0.39
22 5 0.18
23 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATAATATAATTAATTATTAT
Found at i:9600439 original size:31 final size:30
Alignment explanation
Indices: 9600347--9600441 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 30
9600337 TATATTTATT
*
9600347 TTTTAAAATATATAATTAAATTAAAATAAAAA
1 TTTT-AAATATATAATTAAACT-AAATAAAAA
** * *
9600379 TTTTATGTATATATTTAAACCATAATAAAAA
1 TTTTAAATATATAATTAAACTA-AATAAAAA
* *
9600410 TTTTAAATATATAATTACACTAAATTAAAA
1 TTTTAAATATATAATTAAACTAAATAAAAA
9600440 TT
1 TT
9600442 CATTAATGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 10 0.20
31 37 0.73
32 4 0.08
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (30 bp):
TTTTAAATATATAATTAAACTAAATAAAAA
Found at i:9612725 original size:12 final size:12
Alignment explanation
Indices: 9612708--9612733 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9612698 ACACCTGCAA
9612708 CAAATTAAATGC
1 CAAATTAAATGC
9612720 CAAATTAAATGC
1 CAAATTAAATGC
9612732 CA
1 CA
9612734 CAAAAGCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (12 bp):
CAAATTAAATGC
Found at i:9614433 original size:21 final size:20
Alignment explanation
Indices: 9614409--9614447 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9614399 CCTATTTTAA
9614409 ATTTTCTTT-TACATATATTCT
1 ATTTT-TTTGTACAT-TATTCT
9614430 ATTTTTTTGTACATTATT
1 ATTTTTTTGTACATTATT
9614448 GATATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTTTGTACATTATTCT
Found at i:9614477 original size:24 final size:24
Alignment explanation
Indices: 9614422--9614477 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
9614412 TTCTTTTACA
*
9614422 TATATTCTATTTTTTTGTACATTAT
1 TATATTAT-TTTTTTTGTACATTAT
*
9614447 TGATATTATTTTTTTTTTCACATTAT
1 T-ATATTATTTTTTTTGT-ACATTAT
9614473 T-TATT
1 TATATT
9614478 TTAAATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 9 0.33
26 14 0.52
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (24 bp):
TATATTATTTTTTTTGTACATTAT
Found at i:9622197 original size:7 final size:7
Alignment explanation
Indices: 9622185--9622211 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9622175 ATTATTTTAT
9622185 TTTATTA
1 TTTATTA
9622192 TTTATTA
1 TTTATTA
9622199 TTTATTA
1 TTTATTA
9622206 TTTATT
1 TTTATT
9622212 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:9627315 original size:26 final size:26
Alignment explanation
Indices: 9627286--9627352 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
9627276 GGCCCTAAAC
9627286 GAACTGCGCATAAAGTACTTGAATGT
1 GAACTGCGCATAAAGTACTTGAATGT
*
9627312 GAACTGCGCATAAAGTATTTGAATGT
1 GAACTGCGCATAAAGTACTTGAATGT
*
9627338 GAACTGCGCAAAAAG
1 GAACTGCGCATAAAG
9627353 ACAAGACCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (26 bp):
GAACTGCGCATAAAGTACTTGAATGT
Found at i:9628721 original size:36 final size:36
Alignment explanation
Indices: 9628674--9628748 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
9628664 TGTTTCAGGG
*
9628674 TTTGGCTACTCTGACCCCTGTGTACTACGAATTAAA
1 TTTGGCTACTCTGACCCCTGTGTACTACGAATCAAA
9628710 TTTGGCTACTCTGACCCCTGTGTACTACGAATCAAA
1 TTTGGCTACTCTGACCCCTGTGTACTACGAATCAAA
9628746 TTT
1 TTT
9628749 CTTCCTGTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (36 bp):
TTTGGCTACTCTGACCCCTGTGTACTACGAATCAAA
Found at i:9649517 original size:40 final size:38
Alignment explanation
Indices: 9649415--9649578 Score: 157
Period size: 35 Copynumber: 4.5 Consensus size: 38
9649405 GGCAAAGTGC
*
9649415 GAAATGTAGATATGG---TATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTATCATCCATACTGAGTTGT
* *
9649450 GAAATGTTGGTATGGTATTATC-T--ATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCATCCATACTGAGTTGT
**
9649485 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATC--ATCCATACTGAGTTGT
** * *
9649525 GAAATGTAGGTATGACATT-TC--CCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCATCCATACTGAGTTGT
*
9649560 AAAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
9649579 TCAATGAGGA
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
35 73 0.68
37 1 0.01
38 5 0.05
39 2 0.02
40 26 0.24
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.34
Consensus pattern (38 bp):
GAAATGTAGGTATGGTATTATCATCCATACTGAGTTGT
Found at i:9649537 original size:75 final size:74
Alignment explanation
Indices: 9649434--9649582 Score: 183
Period size: 75 Copynumber: 2.0 Consensus size: 74
9649424 ATATGGTATC
** * ** * * **
9649434 ATCCATACTGAGTTGTGAAATGTTGGTATGGTATTAT-CTATACTGAGCTGTGAAATGTAGGTAT
1 ATCCATACTGAGTTAAGAAATGTAGGTATGACATT-TCCCATACCGAGCTGAAAAATGTAGGTAT
9649498 GGTATTATCAA
65 GGTATT-TCAA
*
9649509 ATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCCCATACCGAGTTGAAAAATGTAGGTATG
1 ATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCCCATACCGAGCTGAAAAATGTAGGTATG
9649574 GTATTTCAA
66 GTATTTCAA
9649583 TGAGGAAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
74 5 0.08
75 58 0.92
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.34
Consensus pattern (74 bp):
ATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCCCATACCGAGCTGAAAAATGTAGGTATG
GTATTTCAA
Found at i:9653436 original size:44 final size:45
Alignment explanation
Indices: 9653371--9653625 Score: 245
Period size: 44 Copynumber: 5.8 Consensus size: 45
9653361 TCATGGCGAA
9653371 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* *
9653416 T-TTATCTCCCTAAAGTTGCAGTGGAGCATATTGAAGCCACAAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* * ** *
9653460 -C-T-TCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* * * * *
9653501 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATAGAAACCAC-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* ** * **
9653545 TCTCATCTCCCTGAAGTTGCAGTGGAGTGGACTGAAGATAGCAAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAAC
* * * * *
9653590 TCTTATTTTCCTGAAGTTGCAGAGAAGAAGATTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
9653626 AATACGAGTC
Statistics
Matches: 168, Mismatches: 35, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
42 33 0.20
43 3 0.02
44 101 0.60
45 30 0.18
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
Found at i:9653524 original size:86 final size:88
Alignment explanation
Indices: 9653375--9653571 Score: 247
Period size: 86 Copynumber: 2.3 Consensus size: 88
9653365 GGCGAATCTT
*
9653375 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACTTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACTTTATCTCCCTAAAGTTACAGTGG
* * *
9653440 AGCATATTGAAGCCAC-AAAC-C
66 AGCAGATAGAAACCACTAAACTC
* * * ** * *
9653461 TTCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAA-TCTTATCTCCCTGAAGTTACAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACT-TTATCTCCCTAAAGTTACAGTG
**
9653525 GAGCAGATAGAAACCACTAGTCTC
65 GAGCAGATAGAAACCACTAAACTC
9653549 ATCTCCCTGAAGTTGCAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
9653572 TGGACTGAAG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 68 0.73
87 2 0.02
88 22 0.24
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACTTTATCTCCCTAAAGTTACAGTGG
AGCAGATAGAAACCACTAAACTC
Found at i:9653640 original size:89 final size:87
Alignment explanation
Indices: 9653462--9653661 Score: 222
Period size: 89 Copynumber: 2.3 Consensus size: 87
9653452 CCACAAACCT
* * * * * * *
9653462 TCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAATCTTATCTCCCTGAAGTTACAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAG-TGGCTGAAGATACAAATCTTATCTCCCTGAAGTTACAGAGAA
* * *
9653527 GCAGATAGAAACCACTAGTCTCA
65 GAAGATAGAAAACACGAGTCTCA
* * *
9653550 TCTCCCTGAAGTTGCAGTGGAGTGGACTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGTGG-CTGAAGATA-CAAATCTTATCTCCCTGAAGTTACAGAGA
* *
9653615 AGAAGATTGAAAATACGAGTCTCA
64 AGAAGATAGAAAACACGAGTCTCA
9653639 TC-CCACTGAAGTTGCAGTGGAGT
1 TCTCC-CTGAAGTTGCAGTGGAGT
9653662 AGATCGAAGC
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
87 2 0.02
88 30 0.32
89 62 0.66
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (87 bp):
TCTCCCTGAAGTTGCAGTGGAGTGGCTGAAGATACAAATCTTATCTCCCTGAAGTTACAGAGAAG
AAGATAGAAAACACGAGTCTCA
Found at i:9654799 original size:13 final size:13
Alignment explanation
Indices: 9654766--9654808 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9654756 TCTTTGAGTT
*
9654766 TTTAAAAAAAAAC
1 TTTAAAAAAAAAA
*
9654779 TTGGTAAAAAAGAAA
1 TT--TAAAAAAAAAA
9654794 TTTAAAAAAAAAA
1 TTTAAAAAAAAAA
9654807 TT
1 TT
9654809 GACTTAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 14 0.56
15 11 0.44
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (13 bp):
TTTAAAAAAAAAA
Found at i:9655509 original size:28 final size:27
Alignment explanation
Indices: 9655477--9655548 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
9655467 ATTTAGACAG
*
9655477 TTTTTATACATTATTTATTTC-AAATT
1 TTTTTATACATTATTTATTTCTAAATA
* *
9655503 TCTTTTTTCATATTATTTA-TTCTAAATA
1 T-TTTTAT-ACATTATTTATTTCTAAATA
*
9655531 TTTTTATACGTTATTTAT
1 TTTTTATACATTATTTAT
9655549 GTTAAACCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
26 9 0.25
27 13 0.36
28 14 0.39
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTTATACATTATTTATTTCTAAATA
Found at i:9655758 original size:15 final size:16
Alignment explanation
Indices: 9655716--9655766 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
9655706 TTTATATATT
*
9655716 TTTTATATATTATTTA
1 TTTTAAATATTATTTA
*
9655732 CTTTAAAT-TTATTT-
1 TTTTAAATATTATTTA
*
9655746 TTTTACATATTATTTA
1 TTTTAAATATTATTTA
9655762 TTTTA
1 TTTTA
9655767 GCCTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 6 0.21
15 12 0.41
16 11 0.38
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:9658220 original size:2 final size:2
Alignment explanation
Indices: 9658213--9658239 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9658203 ATTTTATACG
9658213 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 T
9658240 GTTGTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9658458 original size:22 final size:22
Alignment explanation
Indices: 9658430--9658473 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9658420 TTAGTCAAAT
* **
9658430 TTTTAAATTTTTATTTTAATTA
1 TTTTAAATATTTAAATTAATTA
9658452 TTTTAAATATTTAAATTAATTA
1 TTTTAAATATTTAAATTAATTA
9658474 AATTTTCATA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAAATATTTAAATTAATTA
Found at i:9658489 original size:17 final size:19
Alignment explanation
Indices: 9658469--9658505 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9658459 TATTTAAATT
9658469 AATTA-AATTTTC-ATAAA
1 AATTATAATTTTCTATAAA
9658486 AATTATAATTTTCTATAAA
1 AATTATAATTTTCTATAAA
9658505 A
1 A
9658506 TATTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTATAATTTTCTATAAA
Found at i:9664877 original size:17 final size:17
Alignment explanation
Indices: 9664855--9664891 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
9664845 TGTAAAAGTT
9664855 GCTAAAAGGATTAAATA
1 GCTAAAAGGATTAAATA
9664872 GCTAAAAGGATTAAATA
1 GCTAAAAGGATTAAATA
9664889 GCT
1 GCT
9664892 TAATTGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (17 bp):
GCTAAAAGGATTAAATA
Found at i:9666333 original size:25 final size:25
Alignment explanation
Indices: 9666304--9666355 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
9666294 AAGAATAATT
**
9666304 TGAATATTTGATATTGCCTAATAAA
1 TGAATATACGATATTGCCTAATAAA
* *
9666329 TGAATATACGATATTGCTTAGTAAA
1 TGAATATACGATATTGCCTAATAAA
9666354 TG
1 TG
9666356 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATACGATATTGCCTAATAAA
Found at i:9669877 original size:21 final size:21
Alignment explanation
Indices: 9669851--9669894 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9669841 TTAAATAAAG
9669851 TATGGGTCAAATATGTGTAGA
1 TATGGGTCAAATATGTGTAGA
9669872 TATGGGTCAAATATGTGTAGA
1 TATGGGTCAAATATGTGTAGA
9669893 TA
1 TA
9669895 CTTTAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (21 bp):
TATGGGTCAAATATGTGTAGA
Found at i:9679216 original size:29 final size:29
Alignment explanation
Indices: 9679174--9679229 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
9679164 TTTCTATCTC
9679174 TTTACATTTTTATAATGTTACTAATTAGT
1 TTTACATTTTTATAATGTTACTAATTAGT
* *
9679203 TTTATATTTTTATAATGTTATTAATTA
1 TTTACATTTTTATAATGTTACTAATTA
9679230 ATTGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTACATTTTTATAATGTTACTAATTAGT
Found at i:9681827 original size:1 final size:1
Alignment explanation
Indices: 9681821--9681849 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9681811 AAGAAAACAG
9681821 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9681850 CAACTAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9684629 original size:19 final size:19
Alignment explanation
Indices: 9684593--9684629 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9684583 TAATTAGGCT
* *
9684593 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
9684612 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
9684630 GAAAAAGGGT
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:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:9685302 original size:14 final size:15
Alignment explanation
Indices: 9685285--9685313 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9685275 GAAATGAAAT
9685285 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
9685299 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
9685314 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:9685802 original size:13 final size:14
Alignment explanation
Indices: 9685781--9685820 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
9685771 ATTTAATTGG
9685781 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
9685794 AATATGAATTAAAT
1 AAAATGAATTAAAT
9685808 AAAAGTGAATTAA
1 AAAA-TGAATTAA
9685821 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:9686588 original size:26 final size:25
Alignment explanation
Indices: 9686531--9686589 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
9686521 AAGTATGAGA
**
9686531 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTATGAATTGAAATACG
*
9686556 AATTGAAATTGA-GATATTGAAATACG
1 AAGTGAAATT-ATGA-ATTGAAATACG
9686582 AAGTGAAA
1 AAGTGAAA
9686590 ATAGAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (25 bp):
AAGTGAAATTATGAATTGAAATACG
Found at i:9688110 original size:16 final size:17
Alignment explanation
Indices: 9688086--9688125 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9688076 ATATATATAT
* *
9688086 AAAGTAAAAGAA-ATAA
1 AAAGAAAAAGAATAGAA
9688102 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
9688119 AAAGAAA
1 AAAGAAA
9688126 GGAAGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:9688188 original size:16 final size:16
Alignment explanation
Indices: 9688154--9688192 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9688144 AGAGAGCAGG
* * *
9688154 GGAAAGAAAGAAGGGA
1 GGAAAAAAAGAAAGAA
9688170 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
9688186 GGAAAAA
1 GGAAAAA
9688193 GGGCAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:9690326 original size:46 final size:46
Alignment explanation
Indices: 9690274--9690501 Score: 377
Period size: 46 Copynumber: 5.0 Consensus size: 46
9690264 GTGTGCTCTC
**
9690274 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
9690320 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
9690366 TGACATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
**
9690411 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
9690457 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
9690502 ATGACAGGAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 43 0.25
46 126 0.75
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:9690443 original size:91 final size:92
Alignment explanation
Indices: 9690288--9690501 Score: 394
Period size: 91 Copynumber: 2.3 Consensus size: 92
9690278 ATGAAATGTG
*
9690288 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
9690353 TACCATGGCAACGTGACATG-AAAGAA
66 TACCATGGCAACGTGACATGAAAAGAA
**
9690379 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
9690444 TACCATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAACGTGACATGAAAAGAA
9690471 TAAGACCATGGTTGAAAGATACCATGGCAAC
1 TAAGACCATGGTTGAAAGATACCATGGCAAC
9690502 ATGACAGGAA
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 82 0.69
92 37 0.31
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAA
Found at i:9690507 original size:46 final size:46
Alignment explanation
Indices: 9690288--9690549 Score: 364
Period size: 46 Copynumber: 5.6 Consensus size: 46
9690278 ATGAAATGTG
* *
9690288 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
9690334 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * **
9690379 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
9690425 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
9690471 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAGTGAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA---AA-GAA
* * *
9690521 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
9690550 TCATGTCAAA
Statistics
Matches: 193, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 42 0.22
46 121 0.63
49 2 0.01
50 28 0.15
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:9706388 original size:123 final size:126
Alignment explanation
Indices: 9706033--9706435 Score: 370
Period size: 123 Copynumber: 3.2 Consensus size: 126
9706023 TCAATAAATT
* * ** * * * * *
9706033 GTGCCAAATCTTGCTGGGTTTTAATTTTTTCGTTCAACTAAAGTACGTAATAT-CCTTTGGAAAT
1 GTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACTAAAATACGAAATATCCCTTT-GTAAT
*
9706097 TTCGTCCATGCT-TT-TTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTTGAGAGATC
65 TTCATCCATG-TGTTCTT-AAATTAAAATGAGGCAATATTTCGTATTT-GGGAGTTTGAGAGATC
* * * *
9706160 GTCCCCAATCGTGTTGGGTTTCGATTTTTTTTTCATTCGACTAAAATATGGAATATCCCTTTTTT
1 GTGCCCAATCGTGCTGGGTTTCGA---TTTTTTCATTCGACTAAAATACGAAATATCCC----TT
* * * * ** * *
9706225 TTTAATTTTATCCATGTTTTCTTAAACTAAAGCGATGCAATATTTCGTGTTT-GGAGGTTTGAGA
59 TGTAATTTCATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGGA-GTTTGAGA
9706289 GATC
123 GATC
* *
9706293 GTGCCCAATCGTGCTGGGTTTCGA-TTTTTCATTCGACTAAGATACGAAATAT-CC-TTGTCATT
1 GTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACTAAAATACGAAATATCCCTTTGTAATT
* * * * * *
9706355 TCATCCATGTGTTCTTAAATTAAAATGAGGCAATGTTTCGCATTTGGGAATTCGATAAATC
66 TCATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGGAGTTTGAGAGATC
*
9706416 GTGCCCAATTGTGCTGGGTT
1 GTGCCCAATCGTGCTGGGTT
9706436 GCTATTTAAC
Statistics
Matches: 223, Mismatches: 41, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
123 69 0.31
124 3 0.01
127 18 0.08
128 2 0.01
129 25 0.11
130 24 0.11
131 2 0.01
132 3 0.01
133 35 0.16
134 37 0.17
135 5 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (126 bp):
GTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACTAAAATACGAAATATCCCTTTGTAATT
TCATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGGAGTTTGAGAGATC
Found at i:9707737 original size:24 final size:26
Alignment explanation
Indices: 9707686--9707738 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 26
9707676 TTGAAAAATA
9707686 TTTAAATATATTAAATGAATTAAATAAT
1 TTTAAATATA-TAAAT-AATTAAATAAT
*
9707714 TTTAAATATA-AAAT-ATTAATTAAT
1 TTTAAATATATAAATAATTAAATAAT
9707738 T
1 T
9707739 ATATAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.42
26 4 0.17
28 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTAAATATATAAATAATTAAATAAT
Found at i:9708981 original size:38 final size:39
Alignment explanation
Indices: 9708927--9709015 Score: 110
Period size: 38 Copynumber: 2.3 Consensus size: 39
9708917 GAAATCTTAG
9708927 AATT-TTTTTATATTTTTAATAA-TTTTAAAATTTTTAA
1 AATTATTTTTATATTTTTAATAATTTTTAAAATTTTTAA
* * * *
9708964 AATTATTTTTATTTTTTTCATAATTTTTGAATTTTTTAA
1 AATTATTTTTATATTTTTAATAATTTTTAAAATTTTTAA
9709003 AATGTATATTTTA
1 AAT-TAT-TTTTA
9709016 AATTGTTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
37 4 0.09
38 16 0.36
39 16 0.36
40 3 0.07
41 5 0.11
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (39 bp):
AATTATTTTTATATTTTTAATAATTTTTAAAATTTTTAA
Found at i:9717651 original size:25 final size:27
Alignment explanation
Indices: 9717593--9717659 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
9717583 CATATGAACA
*
9717593 CATA-AACGAGAAGCTCTCTCTCGAGC
1 CATATAACGAGAAGCTCTATCTCGAGC
*
9717619 CATATAACGAGAAGCTC-ATGT-GAGC
1 CATATAACGAGAAGCTCTATCTCGAGC
* *
9717644 CATGTAACGGGAAGCT
1 CATATAACGAGAAGCT
9717660 TGTCTGGGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 18 0.50
26 6 0.17
27 12 0.33
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CATATAACGAGAAGCTCTATCTCGAGC
Found at i:9720675 original size:93 final size:93
Alignment explanation
Indices: 9720543--9720887 Score: 327
Period size: 93 Copynumber: 3.7 Consensus size: 93
9720533 CGGTGTCTAT
* * * ** * *
9720543 TTTATAACTTTTGAATTTTGCTAAGCGCCTTGAGTGGCTAGTAGTTCATCTGCTATTAAACATAG
1 TTTATAACTTGTGAATTTTTCTAAGCGCCTTAAAAGGCTAGCAGTTCATCTGCTATTAAACTTAG
* *
9720608 TGAATAGTTTATCTCTTGGAGTGTCTG-
66 TGAATAGTTTACCTCTTGAAGTGTCTGC
* * * **
9720635 TTTATTAACTTGTGAATTTTTCTGAGCGTCTTAAAAGGCTAGCAGTTTATCTGCTAGCAAACTTA
1 TTTA-TAACTTGTGAATTTTTCTAAGCGCCTTAAAAGGCTAGCAGTTCATCTGCTATTAAACTTA
* * * *
9720700 GTGAGTAATTTACCTTTTGAAATGTCTGC
65 GTGAATAGTTTACCTCTTGAAGTGTCTGC
* * * * * * * *
9720729 TTTATAACATATGAATTTGTCTAAGTGCCTTAAGAGGATAGCAATTCATCTACTATTAAACTTAG
1 TTTATAACTTGTGAATTTTTCTAAGCGCCTTAAAAGGCTAGCAGTTCATCTGCTATTAAACTTAG
* * *
9720794 TGACTAGTTTACCTCCT-AAGGTGTTTGC
66 TGAATAGTTTACCTCTTGAA-GTGTCTGC
** ** * *
9720822 TTTATAACTTGTGAATTTTTCTAAATGCCTTAACAA-TTTAGTAGTTCATTTGCTATTAAACTTA
1 TTTATAACTTGTGAATTTTTCTAAGCGCCTTAA-AAGGCTAGCAGTTCATCTGCTATTAAACTTA
9720886 GT
65 GT
9720888 CACATGATAG
Statistics
Matches: 201, Mismatches: 48, Indels: 7
0.79 0.19 0.03
Matches are distributed among these distances:
92 6 0.03
93 190 0.95
94 5 0.02
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (93 bp):
TTTATAACTTGTGAATTTTTCTAAGCGCCTTAAAAGGCTAGCAGTTCATCTGCTATTAAACTTAG
TGAATAGTTTACCTCTTGAAGTGTCTGC
Found at i:9722945 original size:59 final size:59
Alignment explanation
Indices: 9722871--9723004 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
9722861 AAATTATGGA
* *
9722871 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGATTTTTAAAATTGGTCAAT
1 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
* *
9722930 TTTAGTCATTGTACTTAATTTGATCAATTTTAGCCCTTGGACTTTTAAAATTGATCAAT
1 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
*
9722989 TTTAGTCCTTATACTT
1 TTTAGTCATTATACTT
9723005 TTCAAAATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (59 bp):
TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
Found at i:9722987 original size:31 final size:31
Alignment explanation
Indices: 9722890--9723028 Score: 133
Period size: 31 Copynumber: 4.6 Consensus size: 31
9722880 TATACTTAAT
* *
9722890 TTGATCAATTGTAGCCCTTGGATTTTTAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
* * * * *
9722921 TTGGTCAATTTTAGTCATTGTAC--TT-AAT
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
9722949 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
* **
9722980 TTGATCAATTTTAGTCCTTATACTTTTCAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTT-AAAA
* *
9723012 TTTA-AAATTTTAGCCCT
1 TTGATCAATTTTAGCCCT
9723029 GACCAAAACA
Statistics
Matches: 86, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
28 21 0.24
29 2 0.02
30 2 0.02
31 54 0.63
32 7 0.08
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (31 bp):
TTGATCAATTTTAGCCCTTGGACTTTTAAAA
Found at i:9726832 original size:3 final size:3
Alignment explanation
Indices: 9726824--9726848 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9726814 AATTCCCCAT
9726824 CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC C
9726849 TCCTCCTCCT
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:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:9727326 original size:36 final size:36
Alignment explanation
Indices: 9727279--9727362 Score: 159
Period size: 36 Copynumber: 2.3 Consensus size: 36
9727269 AGGTGGAGCA
9727279 CCACCTCCACCTCCTGGAGGCCGAGCTCCAGGCCCT
1 CCACCTCCACCTCCTGGAGGCCGAGCTCCAGGCCCT
*
9727315 CCACCTCCACCTCCTGGAGGCCGAGCTCTAGGCCCT
1 CCACCTCCACCTCCTGGAGGCCGAGCTCCAGGCCCT
9727351 CCACCTCCACCT
1 CCACCTCCACCT
9727363 AGAGCTCCCG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.14, C:0.51, G:0.19, T:0.15
Consensus pattern (36 bp):
CCACCTCCACCTCCTGGAGGCCGAGCTCCAGGCCCT
Found at i:9732477 original size:188 final size:188
Alignment explanation
Indices: 9732160--9732539 Score: 760
Period size: 188 Copynumber: 2.0 Consensus size: 188
9732150 TATAGTGGAA
9732160 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
1 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
9732225 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
66 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
9732290 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
131 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
9732348 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
1 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
9732413 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
66 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
9732478 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
131 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
9732536 TATT
1 TATT
9732540 CGTCTAGAGA
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 192 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (188 bp):
TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
Found at i:9736160 original size:7 final size:8
Alignment explanation
Indices: 9736140--9736166 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9736130 TATAAACTAT
9736140 TAAAAAGG
1 TAAAAAGG
9736148 TAAAAAGG
1 TAAAAAGG
9736156 TAAAAAGG
1 TAAAAAGG
9736164 TAA
1 TAA
9736167 TTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (8 bp):
TAAAAAGG
Found at i:9740178 original size:15 final size:15
Alignment explanation
Indices: 9740151--9740184 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9740141 AAATAAAATA
9740151 AAATAAGTAATGTAT
1 AAATAAGTAATGTAT
9740166 GAAATAA-TAATGTAT
1 -AAATAAGTAATGTAT
9740181 AAAT
1 AAAT
9740185 GAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAATAAGTAATGTAT
Found at i:9741152 original size:18 final size:18
Alignment explanation
Indices: 9741120--9741154 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9741110 CGTGGATTCG
* *
9741120 AATGAAAAGGGAGAAAAA
1 AATGAAAAAGAAGAAAAA
9741138 AATGAAAAAGAAGAAAA
1 AATGAAAAAGAAGAAAA
9741155 CGGAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (18 bp):
AATGAAAAAGAAGAAAAA
Found at i:9742094 original size:177 final size:177
Alignment explanation
Indices: 9741882--9742366 Score: 565
Period size: 177 Copynumber: 2.7 Consensus size: 177
9741872 GGAAATATGG
* * *
9741882 CTGGTGACTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCAATCTGCTC
1 CTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
* *
9741947 CACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCC-TTGCTA-TCTT-AGGAAG
66 CACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTAC-TCCGCTGCAACT-TTAAGG-AG
* *
9742009 ATAAGACTTGTATCTTCAACCTGCTCTC-TTGCTACCTCA-GAGAGATAAGA
128 ATAAGACTTGTATCTTCAACCTGCTC-CACTGCAACCTCAGGA-AGATAAGA
* * *
9742059 CTGGTGGCTAAAATTTAC-CCTATTGCCGATACATGGAGATAAGATTCACCGTCTTTGATCTG-T
1 CTGGTGGCTAAAATCTACTCC-ATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCT
* * * *
9742122 CCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGA
65 -CCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTCCGCTGCAACTTTAAGGAGA
* * *
9742187 TAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAGGAAGATAAGG
129 TAAGACTTGTATCTTCAACCTGCTCCACTGCAACCTCAGGAAGATAAGA
* * **
9742236 CTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATT-TGTCGTCTTCGATCTGCT
1 CTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACT-GTCTTCGATCTGCT
* * * * * * * *
9742300 CTACTACTT-CTTAGGGAGATAAAATCTGCAATTTTCAGTCTGCTCCACTGTAACTTCAGGGAGA
65 CCACTA-TTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTCCGCTGCAACTTTAAGGAGA
9742364 TAA
129 TAA
9742367 AGCTGGTGGC
Statistics
Matches: 263, Mismatches: 34, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
176 7 0.03
177 246 0.94
178 10 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (177 bp):
CTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
CACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTCCGCTGCAACTTTAAGGAGATA
AGACTTGTATCTTCAACCTGCTCCACTGCAACCTCAGGAAGATAAGA
Found at i:9742254 original size:44 final size:44
Alignment explanation
Indices: 9742161--9742257 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
9742151 TAATCTTCAG
* * * *
9742161 TCTGCTCCGCTGCAACTTTAAGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTTAAGGAGATAAGACTGGTAGCTTAAA
* * * *
9742205 CCTGCTCCACTGCAAC-TTCAGGAAGATAAGGCTGGTGGCTTAAA
1 TCTGCTCCACTGCAACTTTAAGG-AGATAAGACTGGTAGCTTAAA
9742249 TCTGCTCCA
1 TCTGCTCCA
9742258 TTGCCGATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
43 5 0.12
44 38 0.88
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAAGGAGATAAGACTGGTAGCTTAAA
Found at i:9742275 original size:133 final size:133
Alignment explanation
Indices: 9742137--9742498 Score: 329
Period size: 133 Copynumber: 2.7 Consensus size: 133
9742127 TACTGCTTAG
* * * *
9742137 GGAGATAAGATCCGTAATCTTC-AGTCTGCTCCGCTGCAACTTTAAGGAGATAAGA-CTTG-TAT
1 GGAGATAAGATCCGTAATCTTCGA-TCTGCTCCACTACAAC-TTAAGGAGATAAAATC-TGCAAT
* *
9742199 CTTGAACCTGCTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCG
63 CTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCC-
9742264 A-TACAT
127 ACTACAT
** ** * ** * *
9742270 GGAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTTCTTAGGGAGATAAAATCTGCAATTTT
1 GGAGATAAGATCCGTAATCTTCGATCTGCTCCACTACAACTTAAGGAGATAAAATCTGCAATCTT
** * * *
9742335 CAGTCTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCCACTA
66 CAACCTGCTCCACTGCAACTTCAGGAAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCCACTA
9742400 CAT
131 CAT
** * * * ** * * *
9742403 GGAGATAAGATTTGCT-GTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAGATCTGTAATTT
1 GGAGATAAGATCCG-TAATCTTCGATCTGCTCCACTACAACTTAAGGAGATAAAATCTGCAATCT
** * * *
9742467 TCAGTCTGCTCCACTGTAACTTTAGGGAGATA
65 TCAACCTGCTCCACTGCAACTTCAGGAAGATA
9742499 CGACTTGTAT
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
132 15 0.08
133 179 0.91
134 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (133 bp):
GGAGATAAGATCCGTAATCTTCGATCTGCTCCACTACAACTTAAGGAGATAAAATCTGCAATCTT
CAACCTGCTCCACTGCAACTTCAGGAAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCCACTA
CAT
Found at i:9742411 original size:177 final size:173
Alignment explanation
Indices: 9741871--9742411 Score: 561
Period size: 177 Copynumber: 3.1 Consensus size: 173
9741861 CTCTATCTCA
* * * *
9741871 AGGAAATATGGCTGGTGACTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TTCACTGTC
1 AGGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTAAC-GTC
* * *
9741935 TTCAATCTGCTCCACTA-TTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTA
65 TTCGATCTGCTCCACTACTT-CTTAGGGAGATAAGATCTGTAATTTTCAGTCTGC-TCCCTG-TA
* * * * *
9741999 TCTTAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTC
127 ACTTAGGGAGATAAGACTTGTATCTTAAACCTGCTCTATTGC-AACTC
* * * * *
9742047 AGAGAGATAAGACTGGTGGCTAAAATTTAC-CCTATTGCCGATACATGGAGATAAGATTCACCGT
1 AG-GAGATAAGGCTGGTGGCTAAAATCTGCTCC-ATTGCCGATACATGGAGATAAGATTTAACGT
* * * * *
9742111 CTTTGATCTG-TCCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAGTCTGCTCCGCTGCA
64 CTTCGATCTGCT-CCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCC-CTGTA
* * * *
9742175 ACTTTAAGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTC
127 AC-TTAGGGAGATAAGACTTGTATCTTAAACCTGCTCTATTGCAAC-TC
* **
9742224 AGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGTCGTC
1 AGG-AGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTAACGTC
* * *
9742289 TTCGATCTGCTCTACTACTTCTTAGGGAGATAAAATCTGCAATTTTCAGTCTGCTCCACTGTAAC
65 TTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCC-CTGTAAC
* ** * *
9742354 TTCAGGGAGATAA-AGCTGGTGGCTTAAATCTGCTCTATTGCCACTAC
129 TT-AGGGAGATAAGA-CTTGTATCTTAAACCTGCTCTATTGCAACT-C
9742401 ATGGAGATAAG
1 A-GGAGATAAG
9742412 ATTTGCTGTC
Statistics
Matches: 300, Mismatches: 50, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
176 17 0.06
177 275 0.92
178 8 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (173 bp):
AGGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTAACGTCT
TCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTGTAACTT
AGGGAGATAAGACTTGTATCTTAAACCTGCTCTATTGCAACTC
Found at i:9742414 original size:310 final size:310
Alignment explanation
Indices: 9742040--9742792 Score: 943
Period size: 310 Copynumber: 2.4 Consensus size: 310
9742030 TGCTCTCTTG
* * * * *
9742040 CTACCTCAGAGAGAT-AAGACTGGTGGCTAAAATTTACCCTATTGCCGA-TACATGGAGATAAGA
1 CTACTTCAGGGAGATAAAG-CTGGTGGCTTAAATCT-GCCTATTGCCGACTACATGGAGATAAGA
* * * *
9742103 TTCACCGTCTTTGATCTG-TCCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAGTCTGCT
64 TTCGCCGTCTTCGATCTGCT-TCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCT
* *
9742167 CCGCTGCAACTTTAAGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTC-AGGAAGA
128 CCACTGCAACTTTAAGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGG-AGA
*
9742231 TAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGTCGTCTTCGATC
192 TAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCGTCTTCGATC
* * ** *
9742296 TGCTCTACTACTT-CTTAGGGAGATAAAATCTGCAATTTTCAGTCTGCTCCACT-
257 TGCTCCACTA-TTGCTTAGGGAGATAAAATCTACAATCATCAGCCTGCTCCACTA
*
9742349 GTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCC-ACTACATGGAGATAAGA
1 CT-ACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGC-CTATTGCCGACTACATGGAGATAAGA
* * * * *
9742413 TTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTC
64 TTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCTC
* * *
9742478 CACTGTAACTTTAGGGAGATACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATA
129 CACTGCAACTTTAAGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATA
* * *
9742543 AGGCTTGTGGCTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTTGCCGTCTTCGATCTG
194 AGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCGTCTTCGATCTG
* * *
9742608 CTCCACTATTGCTTAGGGAGATAAGATCTACAATCATCAGCCTGTTCTACTA
259 CTCCACTATTGCTTAGGGAGATAAAATCTACAATCATCAGCCTGCTCCACTA
* * * * * * *
9742660 CTGCTT-AGGAAGATAAGGCTAGTGGCTTAAATCTG-C--TTCCCTACTACCTCGGGAAGATAAG
1 CTACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCCTATTGCCGACTACAT--GG-AGATAAG
* * ** *
9742721 ATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGAGAGATAATATCTACAATCATCAGTCTGCT
63 ATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCT
9742786 CCACTGC
128 CCACTGC
9742793 TGCTTAGGGA
Statistics
Matches: 382, Mismatches: 50, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
305 4 0.01
306 6 0.02
307 1 0.00
308 2 0.01
309 99 0.26
310 262 0.69
311 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (310 bp):
CTACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCCTATTGCCGACTACATGGAGATAAGATT
CGCCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCTCCA
CTGCAACTTTAAGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATAAG
GCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCGTCTTCGATCTGCT
CCACTATTGCTTAGGGAGATAAAATCTACAATCATCAGCCTGCTCCACTA
Found at i:9742453 original size:177 final size:176
Alignment explanation
Indices: 9742310--9742636 Score: 433
Period size: 177 Copynumber: 1.8 Consensus size: 176
9742300 CTACTACTTC
* ** * * *
9742310 TTAGGGAGATAAAA-TCTGCAATTTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGT
1 TTAGGGAGATAAAACT-TG-AATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAAGCTGGT
* *
9742374 GGCTTAAATCTGC-TCTATTGCCACTACATGGAGATAAGATTTGCTGTCTTCGATCTACTTCACT
64 GGCTTAAATCTGCTTC-ATTGCCACTACATGGAGATAAGATTTGCCGTCTTCGATCTACTCCACT
*
9742438 ACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGTAACT
128 ACTGCTTAAGGAGATAAGATCTGTAATCTTCAGTCTGCTCCAC-GTAACT
** * * * *
9742488 TTAGGGAGATACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATAAGGCTTGTGG
1 TTAGGGAGATAAAACTTGAATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAAGCTGGTGG
* * *
9742553 CTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTTGCCGTCTTCGATCTGCTCCACTATT
66 CTTAAATCTGCTTCATTGCCACTACATGGAGATAAGATTTGCCGTCTTCGATCTACTCCACTACT
*
9742618 GCTTAGGGAGATAAGATCT
131 GCTTAAGGAGATAAGATCT
9742637 ACAATCATCA
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
177 112 0.87
178 16 0.12
179 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (176 bp):
TTAGGGAGATAAAACTTGAATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAAGCTGGTGG
CTTAAATCTGCTTCATTGCCACTACATGGAGATAAGATTTGCCGTCTTCGATCTACTCCACTACT
GCTTAAGGAGATAAGATCTGTAATCTTCAGTCTGCTCCACGTAACT
Found at i:9742540 original size:133 final size:133
Alignment explanation
Indices: 9742206--9742544 Score: 371
Period size: 133 Copynumber: 2.5 Consensus size: 133
9742196 TATCTTGAAC
* * * * * * * * *
9742206 CTGCTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGA-TACAT
1 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTG-CAACTACAA
* * *
9742270 GGAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTTCTTAGGGAGATAAAATCTGCAATTTT
65 GGAGATAAGATTTGTCGTCTTCGATCTACTCTACTACTGCTTAAGGAGATAAAATCTGCAATTTT
9742335 CAGT
130 CAGT
* * * * * * *
9742339 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCCACTACATG
1 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAAG
* *
9742404 GAGATAAGATTTG-CTGTCTTCGATCTACT-TCACTACTGCTTAAGGAGATAAGATCTGTAATTT
66 GAGATAAGATTTGTC-GTCTTCGATCTACTCT-ACTACTGCTTAAGGAGATAAAATCTGCAATTT
9742467 TCAGT
129 TCAGT
* * * * * *
9742472 CTGCTCCACTGTAACTTTAGGGAGAT-ACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAA
1 CTGCTCCACTGTAACTTCAGGGAGATAAAG-CTGGTAGCTTAAACCTACTCCACTGCAACTACAA
9742536 GGAGATAAG
65 GGAGATAAG
9742545 GCTTGTGGCT
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
132 6 0.03
133 173 0.97
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (133 bp):
CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAAG
GAGATAAGATTTGTCGTCTTCGATCTACTCTACTACTGCTTAAGGAGATAAAATCTGCAATTTTC
AGT
Found at i:9742584 original size:133 final size:133
Alignment explanation
Indices: 9742206--9742590 Score: 305
Period size: 133 Copynumber: 2.9 Consensus size: 133
9742196 TATCTTGAAC
* * * * * * * * *
9742206 CTGCTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGA-TACAT
1 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTG-CAACTACAA
* * ** * ** * *
9742270 GGAGATAAGATTTG-TCGTCTTCGATCTGC-TCTACTACTTCTTAGGGAGATAAAATCTGCAATT
65 GGAGATAAGACTTGCT-GGCTTAAATCTACTTC-ACTACCGCTTAAGGAGATAAGATCTGCAATT
9742333 TTCAGT
128 TTCAGT
* * * * * * *
9742339 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCCACTACATG
1 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAAG
* * ** * *
9742404 GAGATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAGATCTGTAATTTTC
66 GAGATAAGACTTGCTGGCTTAAATCTACTTCACTACCGCTTAAGGAGATAAGATCTGCAATTTTC
9742469 AGT
131 AGT
* * * * * *
9742472 CTGCTCCACTGTAACTTTAGGGAGAT-ACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAA
1 CTGCTCCACTGTAACTTCAGGGAGATAAAG-CTGGTAGCTTAAACCTACTCCACTGCAACTACAA
* * * *
9742536 GGAGATAAGGCTTG-TGGCTTAAATCTGCTTCATTGCCGC-TACATGGAGATAAGAT
65 GGAGATAAGACTTGCTGGCTTAAATCTACTTCACTACCGCTTA-A-GGAGATAAGAT
9742591 TTGCCGTCTT
Statistics
Matches: 214, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
131 2 0.01
132 23 0.11
133 186 0.87
134 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (133 bp):
CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAAG
GAGATAAGACTTGCTGGCTTAAATCTACTTCACTACCGCTTAAGGAGATAAGATCTGCAATTTTC
AGT
Found at i:9742628 original size:44 final size:44
Alignment explanation
Indices: 9742580--9743037 Score: 209
Period size: 44 Copynumber: 10.4 Consensus size: 44
9742570 GCCGCTACAT
** *
9742580 GGAGATAAGATTTGCCGTCTTCGATCTGCTCCACTATTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
* * * * * *
9742624 GGAGATAAGATCTACAATCATC-AGCCTGTTCTACTACTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGA-TCTGCTCCACTACTGCTTAG
* ** * *** ** * * *
9742668 GAAGATAAGGCTAG-TGGCTTAAATCTGCTTCC-CTACTACCTCG
1 GGAGATAAGATTTGCAATCTTCGATCTGC-TCCACTACTGCTTAG
* ** *
9742711 GGAAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAG
1 GG-AGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
* * * * * *
9742756 AGAGATAATATCTACAATCATC-AGTCTGCTCCACTGCTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGA-TCTGCTCCACTACTGCTTAG
** * *** ** * * * *
9742800 GGAGATAAGGCTAGTGGT-TTAAATCTACTTCC-CTACTACCTCG
1 GGAGATAAGATTTGCAATCTTCGATCTGC-TCCACTACTGCTTAG
* * *
9742843 GGAAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCTTAG
1 GG-AGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
* * *
9742888 GGAGATAAGATCTGCAATCTTC-AGCCTGCTTCACTACTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGA-TCTGCTCCACTACTGCTTAG
* * * * **
9742932 GGAGATAAGACTAGTAGT-TTAAATCTGCTTTCCTACTAC--CTT-G
1 GGAGATAAGATTTGCAATCTTCGATCTGC--TCC-ACTACTGCTTAG
* * *
9742975 GGAAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAG
1 GG-AGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
*
9743020 GGAGATAAGATCTGCAAT
1 GGAGATAAGATTTGCAAT
9743038 TTTTACCGGT
Statistics
Matches: 289, Mismatches: 103, Indels: 44
0.66 0.24 0.10
Matches are distributed among these distances:
42 5 0.02
43 42 0.15
44 189 0.65
45 48 0.17
46 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
GGAGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
Found at i:9742677 original size:132 final size:130
Alignment explanation
Indices: 9742536--9743037 Score: 668
Period size: 132 Copynumber: 3.8 Consensus size: 130
9742526 GCAACTTCAA
* * * * *
9742536 GGAGATAAGGCTTGTGGCTTAAATCTGCTTCATTGCC-GCTACAT-GG-AGATAAGATTTGCCGT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTC----CCTACTACCTGGGAAGATAAGATTCGCCAT
*
9742598 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCATCAGCCTGTTCTACTACTG
62 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCATCAGCCTGTTC-ACTACTG
9742663 CTTAG
126 CTTAG
* *
9742668 GAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCGCCATCTT
* * * * * *
9742733 CGATCTGCTTCACTACTGCTTAGAGAGATAATATCTACAATCATCAGTCTGCTCCACTGCTGCTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCATCAGCCTG-TTCACTACTGCTT
9742798 AG
129 AG
* *
9742800 GGAGATAAGGCTAGTGGTTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCGCCATCTT
* * *
9742865 CGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTTCACTACTGCTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCATCAGCCTG-TTCACTACTGCTT
9742930 AG
129 AG
* * * *
9742932 GGAGATAAGACTAGTAGTTTAAATCTGCTTTCCTACTACCTTGGGAAGATAAGATTCGCCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC-TGGGAAGATAAGATTCGCCATCTT
* *
9742997 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAAT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
9743038 TTTTACCGGT
Statistics
Matches: 333, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
128 2 0.01
129 5 0.02
131 2 0.01
132 321 0.96
133 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (130 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGAAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCATCAGCCTGTTCACTACTGCTTAG
Found at i:9754734 original size:23 final size:25
Alignment explanation
Indices: 9754708--9754761 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
9754698 ATAGAAGATA
*
9754708 TATAATTTTATTA-TTTT-AAAAAT
1 TATAATTTTATAATTTTTAAAAAAT
*
9754731 TATATTTTTATAATTTTTAAAAAAT
1 TATAATTTTATAATTTTTAAAAAAT
9754756 TA-AATT
1 TATAATT
9754762 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.42
24 7 0.27
25 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAATTTTATAATTTTTAAAAAAT
Found at i:9758052 original size:23 final size:23
Alignment explanation
Indices: 9758026--9758098 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
9758016 CCAATAAGTT
9758026 ACTTCATTTCTTCTAAATGAGCC
1 ACTTCATTTCTTCTAAATGAGCC
** * * * **
9758049 ACTTTGTTACTATC-CAATAAGTT
1 ACTTCATTTCT-TCTAAATGAGCC
9758072 ACTTCATTTCTTCTAAATGAGCC
1 ACTTCATTTCTTCTAAATGAGCC
9758095 ACTT
1 ACTT
9758099 TGTTACTTCT
Statistics
Matches: 34, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
22 2 0.06
23 30 0.88
24 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.41
Consensus pattern (23 bp):
ACTTCATTTCTTCTAAATGAGCC
Found at i:9758079 original size:46 final size:46
Alignment explanation
Indices: 9758012--9758105 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
9758002 TGAACCTCCT
9758012 CTATCCAATAAGTTACTTCATTTCTTCTAAATGAGCCACTTTGTTA
1 CTATCCAATAAGTTACTTCATTTCTTCTAAATGAGCCACTTTGTTA
9758058 CTATCCAATAAGTTACTTCATTTCTTCTAAATGAGCCACTTTGTTA
1 CTATCCAATAAGTTACTTCATTTCTTCTAAATGAGCCACTTTGTTA
9758104 CT
1 CT
9758106 TCTATCCACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (46 bp):
CTATCCAATAAGTTACTTCATTTCTTCTAAATGAGCCACTTTGTTA
Found at i:9758107 original size:23 final size:23
Alignment explanation
Indices: 9758035--9758109 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
9758025 TACTTCATTT
9758035 CTTCTAAATGAGCCACTTTGTTA
1 CTTCTAAATGAGCCACTTTGTTA
* * ** ** *
9758058 CTATC-CAATAAGTTACTTCATTT
1 CT-TCTAAATGAGCCACTTTGTTA
9758081 CTTCTAAATGAGCCACTTTGTTA
1 CTTCTAAATGAGCCACTTTGTTA
9758104 CTTCTA
1 CTTCTA
9758110 TCCACATGCA
Statistics
Matches: 36, Mismatches: 14, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
22 2 0.06
23 32 0.89
24 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (23 bp):
CTTCTAAATGAGCCACTTTGTTA
Found at i:9771468 original size:39 final size:40
Alignment explanation
Indices: 9771384--9771468 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
9771374 ACTTAATTCA
* * *
9771384 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9771424 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9771463 TCAGCA
1 CCAGCA
9771469 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:9771635 original size:47 final size:47
Alignment explanation
Indices: 9771539--9771741 Score: 286
Period size: 47 Copynumber: 4.3 Consensus size: 47
9771529 TGCACACTTT
* * *
9771539 TCACAATTGGTCATTCGGCCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** * * **
9771585 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
9771632 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
9771679 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
9771726 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
9771742 ATCTTAAGCT
Statistics
Matches: 141, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 21 0.15
46 5 0.04
47 115 0.82
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:9771659 original size:22 final size:22
Alignment explanation
Indices: 9771631--9771706 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
9771621 TTTCACATTC
9771631 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
9771653 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
9771677 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
9771700 ATCACAT
1 ATCACAT
9771707 ATACACACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:9783116 original size:22 final size:22
Alignment explanation
Indices: 9783091--9783135 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9783081 TAAGTGTCAC
9783091 ATTAGACATTTTATGAAAGTAT
1 ATTAGACATTTTATGAAAGTAT
9783113 ATTAGACATTTTATGAAAGTAT
1 ATTAGACATTTTATGAAAGTAT
9783135 A
1 A
9783136 AGTACCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (22 bp):
ATTAGACATTTTATGAAAGTAT
Found at i:9783208 original size:62 final size:62
Alignment explanation
Indices: 9783111--9783248 Score: 267
Period size: 62 Copynumber: 2.2 Consensus size: 62
9783101 TTATGAAAGT
9783111 ATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATC
1 ATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATC
*
9783173 ATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAATTTGATAGTTCAGGTATC
1 ATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATC
9783235 ATATTAGACATTTT
1 ATATTAGACATTTT
9783249 CGAAGTATTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 75 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (62 bp):
ATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATC
Found at i:9783753 original size:18 final size:19
Alignment explanation
Indices: 9783732--9783768 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9783722 AATGTTGGAA
9783732 AAAAATAGA-ATGAAATTT
1 AAAAATAGATATGAAATTT
*
9783750 AAAAATAGATTTGAAATTT
1 AAAAATAGATATGAAATTT
9783769 CAAATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAAATAGATATGAAATTT
Found at i:9783819 original size:15 final size:14
Alignment explanation
Indices: 9783786--9783842 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 14
9783776 TCAAACCCAT
9783786 TATTTAAA-AAAAA
1 TATTTAAATAAAAA
9783799 -ATTTAAATAAAGAA
1 TATTTAAATAAA-AA
**
9783813 TATTTAAATGCAAA
1 TATTTAAATAAAAA
*
9783827 TA-GTAAAT-AAAA
1 TATTTAAATAAAAA
9783839 TATT
1 TATT
9783843 AACATCCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 12 0.34
13 8 0.23
14 6 0.17
15 9 0.26
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (14 bp):
TATTTAAATAAAAA
Found at i:9786835 original size:31 final size:32
Alignment explanation
Indices: 9786790--9786851 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
9786780 ATTAATCAAT
* *
9786790 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATCAATTTATC
*
9786822 ATGAGTTAT-AAATTGAAGTAATCAATTTAT
1 ATGAGTTATCAAATTAAAGTAATCAATTTAT
9786852 AAGTTTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATCAATTTATC
Found at i:9790614 original size:3 final size:3
Alignment explanation
Indices: 9790606--9790634 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9790596 TTACTTCTTA
9790606 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
9790635 ATTATTATTA
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9797429 original size:19 final size:19
Alignment explanation
Indices: 9797405--9797442 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9797395 ATTTATATAA
9797405 ATTTAAAAAGTAAAAAATT
1 ATTTAAAAAGTAAAAAATT
* *
9797424 ATTTAAAAATTATAAAATT
1 ATTTAAAAAGTAAAAAATT
9797443 CGGTTCAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTTAAAAAGTAAAAAATT
Found at i:9797821 original size:22 final size:23
Alignment explanation
Indices: 9797783--9797835 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
9797773 TTAGATTTTT
*
9797783 TAAAA-TATATTTTTATATAATA
1 TAAAATTATATTTCTATATAATA
*
9797805 TAAAATTATA-TTCTATATTATA
1 TAAAATTATATTTCTATATAATA
9797827 -AAAATTATA
1 TAAAATTATA
9797836 AATTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAATTATATTTCTATATAATA
Found at i:9818580 original size:25 final size:25
Alignment explanation
Indices: 9818551--9818599 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9818541 TTTTGACCAA
9818551 ATAACTTCAACACATAATTTGAAGC
1 ATAACTTCAACACATAATTTGAAGC
9818576 ATAACTTCAACACATAATTTGAAG
1 ATAACTTCAACACATAATTTGAAG
9818600 TTGTTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAACTTCAACACATAATTTGAAGC
Found at i:9826569 original size:6 final size:6
Alignment explanation
Indices: 9826548--9826587 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
9826538 GTTTAAAAAC
* *
9826548 TTTTTA TTTATTA TTTTTA TTTTCA TTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
9826588 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:9828993 original size:43 final size:43
Alignment explanation
Indices: 9828932--9829020 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
9828922 TCAATTTCCA
9828932 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
1 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
9828975 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
1 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
9829018 TTC
1 TTC
9829021 TTAGATGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.11, C:0.10, G:0.20, T:0.58
Consensus pattern (43 bp):
TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
Found at i:9842987 original size:13 final size:13
Alignment explanation
Indices: 9842969--9842995 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9842959 AAACCGAAAA
9842969 CTGATTATCTAAC
1 CTGATTATCTAAC
9842982 CTGATTATCTAAC
1 CTGATTATCTAAC
9842995 C
1 C
9842996 GGTTCGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CTGATTATCTAAC
Found at i:9851367 original size:21 final size:21
Alignment explanation
Indices: 9851343--9851414 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
9851333 CTAAGAACTA
9851343 TGTGATCTAAACTCATTAAGT
1 TGTGATCTAAACTCATTAAGT
* * ** *
9851364 TGTGGTCT-CACT-AGGAACT
1 TGTGATCTAAACTCATTAAGT
9851383 ATGTGATCTAAACTCATTAAGT
1 -TGTGATCTAAACTCATTAAGT
*
9851405 TGTGGTCTAA
1 TGTGATCTAA
9851415 GTTCATGATA
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.11
20 10 0.27
21 19 0.51
22 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (21 bp):
TGTGATCTAAACTCATTAAGT
Found at i:9851387 original size:41 final size:41
Alignment explanation
Indices: 9851330--9851412 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
9851320 AAGTGACATG
9851330 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
1 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
*
9851371 TCACTAGGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
1 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
9851412 T
1 T
9851413 AAGTTCATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (41 bp):
TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
Found at i:9853970 original size:73 final size:73
Alignment explanation
Indices: 9853884--9854030 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
9853874 TAGGATCATT
* * *
9853884 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTGATGCGGAATTGGAGTTTACCATTAGACA
1 AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
9853949 TGACGAAG
66 TGACGAAG
* *
9853957 AGAATAATATGATTTTCACAAATTTAAGAAATATCTTATGCGGAATTAGAGTTGACCATTAGACT
1 AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
9854022 TGACGAAG
66 TGACGAAG
9854030 A
1 A
9854031 ATGCGAAGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (73 bp):
AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
TGACGAAG
Found at i:9858686 original size:31 final size:29
Alignment explanation
Indices: 9858651--9858720 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
9858641 AACTACCAAA
* *
9858651 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
9858682 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
9858711 TAGTCACTTA
1 TAGTCACTTA
9858721 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:9862219 original size:40 final size:37
Alignment explanation
Indices: 9862168--9862276 Score: 118
Period size: 35 Copynumber: 3.0 Consensus size: 37
9862158 CTACGTTTTT
*
9862168 AACTCAGTATGGATTTAATAATACCATACCTACGTTTCAA
1 AACTCAGTATGGA-TT--TAATACCATACCTACATTTCAA
* *
9862208 AACTCAATATGG--TTAATACCATACCTACATTTCAC
1 AACTCAGTATGGATTTAATACCATACCTACATTTCAA
* *
9862243 AACTCAGTATGGA--TGATACCATACCTACGTTTCA
1 AACTCAGTATGGATTTAATACCATACCTACATTTCA
9862277 CACTTTTCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
35 50 0.81
37 1 0.02
40 11 0.18
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (37 bp):
AACTCAGTATGGATTTAATACCATACCTACATTTCAA
Found at i:9862277 original size:35 final size:35
Alignment explanation
Indices: 9862185--9862278 Score: 143
Period size: 35 Copynumber: 2.7 Consensus size: 35
9862175 TATGGATTTA
*
9862185 ATAATACCATACCTACGTTTCAAAACTCAATATGG
1 ATAATACCATACCTACGTTTCACAACTCAATATGG
* * *
9862220 TTAATACCATACCTACATTTCACAACTCAGTATGG
1 ATAATACCATACCTACGTTTCACAACTCAATATGG
*
9862255 ATGATACCATACCTACGTTTCACA
1 ATAATACCATACCTACGTTTCACA
9862279 CTTTTCCATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (35 bp):
ATAATACCATACCTACGTTTCACAACTCAATATGG
Found at i:9863715 original size:26 final size:26
Alignment explanation
Indices: 9863664--9863717 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
9863654 TACATGCTTG
*
9863664 TTAAGTTACATTTATTTTAGTGTTAT
1 TTAAGTTACATTTATTTTAATGTTAT
9863690 TTAAGTATACATATT-TTTTAAT-TTAT
1 TTAAGT-TACAT-TTATTTTAATGTTAT
9863716 TT
1 TT
9863718 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 12 0.48
27 11 0.44
28 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
TTAAGTTACATTTATTTTAATGTTAT
Found at i:9883514 original size:30 final size:30
Alignment explanation
Indices: 9883478--9883590 Score: 174
Period size: 30 Copynumber: 3.8 Consensus size: 30
9883468 GAGAATGTAA
* * *
9883478 TGCTCACACAAGCTAACAGTAT-ATTAGGAT
1 TGCTCACACAAGCTGACATTATAATT-GGGT
9883508 TGCTCACACAAGCTGACATTATAATTGGGT
1 TGCTCACACAAGCTGACATTATAATTGGGT
9883538 TGCTCACACAAGCTGACATTATAATTGGGT
1 TGCTCACACAAGCTGACATTATAATTGGGT
*
9883568 TGCTCACACAAGCTGTCATTATA
1 TGCTCACACAAGCTGACATTATA
9883591 TTAAAGTTAC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 75 0.96
31 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (30 bp):
TGCTCACACAAGCTGACATTATAATTGGGT
Found at i:9883817 original size:114 final size:114
Alignment explanation
Indices: 9883617--9883845 Score: 361
Period size: 114 Copynumber: 2.0 Consensus size: 114
9883607 AGGCTAAACC
*
9883617 TACAATACATTTAACTTGAGAATCTGCAACAAATGATGGATCTCATAATAACATATAAATCCCTG
1 TACAATACATTTAACTTGAGAATCTGCAACAAATGATAGATCTCATAATAACATATAAATCCCTG
*
9883682 ATCAAATACGAGTATAACCCTAATGACATGCCATACATATCCTAACCTT
66 ATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCTAACCTT
* * * * *
9883731 TACAATACATTTAACTTGATAATCTGCAACAAATGCTAGTTCTGATAATAACATGA-AAATCCTT
1 TACAATACATTTAACTTGAGAATCTGCAACAAATGATAGATCTCATAATAACAT-ATAAATCCCT
* *
9883795 GATCAAATATGAGTATAACCCTAATGACATGCCATACACATCCTATCCTT
65 GATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCTAACCTT
9883845 T
1 T
9883846 TACTAAGCTC
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
114 104 0.99
115 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (114 bp):
TACAATACATTTAACTTGAGAATCTGCAACAAATGATAGATCTCATAATAACATATAAATCCCTG
ATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCTAACCTT
Found at i:9885237 original size:30 final size:30
Alignment explanation
Indices: 9885201--9885261 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
9885191 CCAGACGGGT
*
9885201 AACCTAATGTAAATTT-AGCTTGTGTGAGCA
1 AACCTAATAT-AATTTCAGCTTGTGTGAGCA
*
9885231 AACCTAATATAGTTTCAGCTTGTGTGAGCA
1 AACCTAATATAATTTCAGCTTGTGTGAGCA
9885261 A
1 A
9885262 CATAGTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (30 bp):
AACCTAATATAATTTCAGCTTGTGTGAGCA
Found at i:9887310 original size:19 final size:19
Alignment explanation
Indices: 9887259--9887311 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
9887249 TAATAATAAC
* *
9887259 TCATCCGTATAAACAGTACT
1 TCATCCATAT-AACAGTAAT
*
9887279 TCATCTATATAACAGTAAT
1 TCATCCATATAACAGTAAT
*
9887298 TCATCCATGTAACA
1 TCATCCATATAACA
9887312 CATAGCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (19 bp):
TCATCCATATAACAGTAAT
Found at i:9887535 original size:24 final size:24
Alignment explanation
Indices: 9887504--9887570 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
9887494 AGCTGAAACG
* *
9887504 GTAAGCTCTGATGAGCTGAAAATA
1 GTAAGCTCTTACGAGCTGAAAATA
9887528 GTAAGCTCTTACGAGCTGAAAATA
1 GTAAGCTCTTACGAGCTGAAAATA
9887552 GTAAGCTCTTACGAGCTGA
1 GTAAGCTCTTACGAGCTGA
9887571 TATATCGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTACGAGCTGAAAATA
Found at i:9889406 original size:17 final size:16
Alignment explanation
Indices: 9889384--9889417 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9889374 ATAAGTACGT
*
9889384 ATATATACATATTATAA
1 ATATATAAATA-TATAA
9889401 ATATATAAATATATAA
1 ATATATAAATATATAA
9889417 A
1 A
9889418 AAAGCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATAAATATATAA
Found at i:9889407 original size:8 final size:8
Alignment explanation
Indices: 9889384--9889417 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
9889374 ATAAGTACGT
*
9889384 ATATATAC
1 ATATATAA
9889392 ATATTATAA
1 ATA-TATAA
9889401 ATATATAA
1 ATATATAA
9889409 ATATATAA
1 ATATATAA
9889417 A
1 A
9889418 AAAGCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAA
Found at i:9889589 original size:3 final size:3
Alignment explanation
Indices: 9889575--9889625 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
9889565 ACACTAGTAC
* * * * *
9889575 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9889622 ATA A
1 ATA A
9889626 GGATATTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9891326 original size:44 final size:44
Alignment explanation
Indices: 9891240--9891941 Score: 609
Period size: 44 Copynumber: 16.0 Consensus size: 44
9891230 AAAATCTACC
* * * * * * *
9891240 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACA
1 ATCTTCGATCTACTTCAC-ACC-AATATAGGAAGACAAGATCTGCT
* * * *
9891286 ATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * *
9891330 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCT
* * * * *
9891374 ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGGATCTGCT
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * * * * *
9891418 ACCTTCGATTTACTTCACGCCAATACATGCAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * *
9891462 TTCTGCTATCTACTTCGCCACCAATATAGGAAGACAAGATCTGC-
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCT
* * *
9891506 ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCT
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * * *
9891550 ACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * *
9891594 TTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCT
* * *
9891638 ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCT
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * * *
9891682 ACCTTCGATCTACTTCACGCCAATACATGAAGAC-AGATCTGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * *
9891725 TTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCT
* * *
9891769 ATCTT-GATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCT
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * * *
9891812 ACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * * *
9891856 TTCTGCGATCTACTTCGCCACTAATATGGGAAGACAAGATCTGC-
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCT
* * *
9891900 ATCTTTGATCTACTTC-CTACCAATATAGGAAGATAGGATCTG
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
9891942 TTCCTTTGAC
Statistics
Matches: 521, Mismatches: 115, Indels: 43
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.00
42 26 0.05
43 119 0.23
44 259 0.50
45 100 0.19
46 16 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
Found at i:9891505 original size:132 final size:132
Alignment explanation
Indices: 9891288--9891941 Score: 1186
Period size: 132 Copynumber: 5.0 Consensus size: 132
9891278 GATCTACAAT
* *
9891288 CTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
* * *
9891353 GTATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
9891418 AC
131 AC
* * *
9891420 CTTCGATTTACTTCACGCCAATACATGCAGACAAGATCTGCTTTCTGCTATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
*
9891485 ATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
9891550 AC
131 AC
9891552 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
9891617 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
9891682 AC
131 AC
9891684 CTTCGATCTACTTCACGCCAATACATGAAGAC-AGATCTGCTTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
9891748 ATATGGGAAGACAAGATCTGCATCTT-GATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
9891812 AC
131 AC
*
9891814 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACTA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
* *
9891879 ATATGGGAAGACAAGATCTGCATCTTTGATCTACTTCCTACCAATATAGGAAGATAGGATCTG
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTG
9891942 TTCCTTTGAC
Statistics
Matches: 505, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
130 72 0.14
131 115 0.23
132 318 0.63
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
AC
Found at i:9922409 original size:16 final size:16
Alignment explanation
Indices: 9922388--9922426 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
9922378 AAATTTCATT
*
9922388 AAAAAACAAA-GAAAA
1 AAAAAAAAAAGGAAAA
9922403 AAAAAAAAAAGGAAAA
1 AAAAAAAAAAGGAAAA
9922419 AAAAAAAA
1 AAAAAAAA
9922427 CCCCTAAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.90, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGGAAAA
Found at i:9928507 original size:24 final size:24
Alignment explanation
Indices: 9928480--9928528 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9928470 GGTTTATTGT
*
9928480 ATTTATCTATTACAATATA-TTAAA
1 ATTTATCT-TTAAAATATATTTAAA
*
9928504 ATTTTTCTTTAAAATATATTTAAA
1 ATTTATCTTTAAAATATATTTAAA
9928528 A
1 A
9928529 AATTGTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTATCTTTAAAATATATTTAAA
Found at i:9929238 original size:15 final size:15
Alignment explanation
Indices: 9929215--9929244 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9929205 TAAAGGTGGC
9929215 TTTTCTGTTCAAAAG
1 TTTTCTGTTCAAAAG
*
9929230 TTTTTTGTTCAAAAG
1 TTTTCTGTTCAAAAG
9929245 ACAAGGGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (15 bp):
TTTTCTGTTCAAAAG
Found at i:9934470 original size:30 final size:30
Alignment explanation
Indices: 9934434--9934493 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9934424 TCCTGATTAC
9934434 ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
1 ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
*
9934464 ATAGTTTTGGTGAAGTTCCATGGCTTTCTT
1 ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
9934494 GTGGCCTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (30 bp):
ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
Found at i:9938830 original size:19 final size:21
Alignment explanation
Indices: 9938808--9938848 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
9938798 TTTACTTTCT
*
9938808 TTTTGTATTT-TTT-ACACAA
1 TTTTATATTTATTTAACACAA
9938827 TTTTATATTTATTTAACACAA
1 TTTTATATTTATTTAACACAA
9938848 T
1 T
9938849 CATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATATTTATTTAACACAA
Found at i:9941747 original size:11 final size:11
Alignment explanation
Indices: 9941731--9941758 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9941721 TGGGTTGTTG
9941731 GATATAGTTTA
1 GATATAGTTTA
9941742 GATATAGTTTA
1 GATATAGTTTA
9941753 GATATA
1 GATATA
9941759 TAATTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (11 bp):
GATATAGTTTA
Found at i:9947217 original size:11 final size:12
Alignment explanation
Indices: 9947187--9947220 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
9947177 CGGCCTGCTC
9947187 ATATTAATTTTT
1 ATATTAATTTTT
9947199 ATATTAATTTTT
1 ATATTAATTTTT
9947211 ATA-TAATTTT
1 ATATTAATTTT
9947221 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:9947382 original size:30 final size:30
Alignment explanation
Indices: 9947346--9947408 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
9947336 ACTTAACTAG
* *
9947346 CAAATGTCTCAAAAATAATAACAAAATTAA
1 CAAATGTATCAAAAATAATAAAAAAATTAA
** *
9947376 CAAATGTATTTAAAATTATAAAAAAATTAA
1 CAAATGTATCAAAAATAATAAAAAAATTAA
9947406 CAA
1 CAA
9947409 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTATCAAAAATAATAAAAAAATTAA
Found at i:9950204 original size:23 final size:23
Alignment explanation
Indices: 9950152--9950204 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
9950142 GTTTTATTTC
* *
9950152 TTTTTAATATTTATTAGTTTTTT
1 TTTTTAGTATTTAGTAGTTTTTT
* *
9950175 CTCTTAGTATTTAGTA-TTTTGTT
1 TTTTTAGTATTTAGTAGTTTT-TT
9950198 TTTTTAG
1 TTTTTAG
9950205 CATGTCTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTTTAGTATTTAGTAGTTTTTT
Found at i:9950503 original size:41 final size:40
Alignment explanation
Indices: 9950435--9950789 Score: 326
Period size: 41 Copynumber: 8.8 Consensus size: 40
9950425 AATAGGGCTC
* *
9950435 TAGCGGCG-TTTT--TAAAACGTCGATAAAAACAGAGCAA
1 TAGCGGCGTTTTTAGTAAAACGCCGCTAAAAACAGAGCAA
* * * *
9950472 TAGCGGCGTTTTTTGTTAAAACGCAGCTAAAAATAGAGAAA
1 TAGCGGCGTTTTTAG-TAAAACGCCGCTAAAAACAGAGCAA
* *
9950513 TAGCGGTGTTTTTAGTAAAAATGCCGCTAAAAACAGAGCAA
1 TAGCGGCGTTTTTAGT-AAAACGCCGCTAAAAACAGAGCAA
* *
9950554 TAGCGGCGTTTTCT-GTAAAACGCCGCTAAAAAATAGAGCAT
1 TAGCGGCGTTTT-TAGTAAAACGCCGCT-AAAAACAGAGCAA
* * * *
9950595 TAGAGGCGCTTTTGGTAAAACGCCGCTAAAAAAACAGAGCAT
1 TAGCGGCGTTTTTAGTAAAACGCCGCT--AAAAACAGAGCAA
* * * * *
9950637 TAGCAGCGCTTTCAGTAAAACACCGCTAAAAAACAGAGCAT
1 TAGCGGCGTTTTTAGTAAAACGCCGCT-AAAAACAGAGCAA
* ** *
9950678 TA--GGCGCTTTCGGTAAAACGCCGCTAAAAAACAGAGCAT
1 TAGCGGCGTTTTTAGTAAAACGCCGCT-AAAAACAGAGCAA
9950717 TAGCGGCGTTTTTAGTAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTAGTAAAACGCCGCTAAAAA-CAGAGCAA
* * * * *
9950758 TAGTGGAGTTTGTGGTCAAAACGCTGCTAAAA
1 TAGCGGCGTTTTTAGT-AAAACGCCGCTAAAA
9950790 GTCTTATAAC
Statistics
Matches: 270, Mismatches: 35, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
37 8 0.03
38 4 0.01
39 36 0.13
40 17 0.06
41 155 0.57
42 50 0.19
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (40 bp):
TAGCGGCGTTTTTAGTAAAACGCCGCTAAAAACAGAGCAA
Found at i:9950779 original size:122 final size:120
Alignment explanation
Indices: 9950459--9950789 Score: 360
Period size: 122 Copynumber: 2.7 Consensus size: 120
9950449 AAACGTCGAT
* * * * * *
9950459 AAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAACGCAGCTAAAAATAGAGAAATAGCGGTGTTT
1 AAAAACAGAGCATTAGCGGCGTTTTTAG-TAAAACGCCGCTAAAAACAGAGCAATAGCGGAG-TT
* * *
9950524 TTAGTAAAAATGCCGCT-AAAAACAGAGCAATAGCGGCGTTTTCTGTAAAACGCCGCTA
64 TTAGT-AAAACGCCGCTAAAAAACAGAGCAATA-CGGCGCTTTCGGTAAAACGCCGCTA
* * * * * * *
9950582 AAAAATAGAGCATTAGAGGCGCTTTTGGTAAAACGCCGCTAAAAAAACAGAGCATTAGCAGCGCT
1 AAAAACAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCT--AAAAACAGAGCAATAGCGGAG-T
* * *
9950647 TTCAGTAAAACACCGCTAAAAAACAGAGCATTA-GGCGCTTTCGGTAAAACGCCGCTA
63 TTTAGTAAAACGCCGCTAAAAAACAGAGCAATACGGCGCTTTCGGTAAAACGCCGCTA
*
9950704 AAAAACAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAACCAGAGCAATAGTGGAGTTT
1 AAAAACAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAA-CAGAGCAATAGCGGAGTTT
* *
9950769 GTGGTCAAAACGCTGCTAAAA
65 -TAGT-AAAACGCCGCTAAAA
9950790 GTCTTATAAC
Statistics
Matches: 172, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
120 8 0.05
121 14 0.08
122 82 0.48
123 32 0.19
124 36 0.21
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.21
Consensus pattern (120 bp):
AAAAACAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAACAGAGCAATAGCGGAGTTTT
AGTAAAACGCCGCTAAAAAACAGAGCAATACGGCGCTTTCGGTAAAACGCCGCTA
Found at i:9954033 original size:16 final size:17
Alignment explanation
Indices: 9953983--9954033 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
9953973 ATGGAAATAT
*
9953983 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
9954000 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
9954019 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
9954034 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:9954052 original size:22 final size:21
Alignment explanation
Indices: 9953993--9954035 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
9953983 AATCTTTAAG
9953993 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
9954012 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
9954033 GAT
1 GAT
9954036 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:9963229 original size:87 final size:87
Alignment explanation
Indices: 9963018--9963536 Score: 425
Period size: 89 Copynumber: 5.9 Consensus size: 87
9963008 CTTCGACGGA
* * *
9963018 GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTTCAC-T-GAAGCAGATCCAAGAT-
* ** * *
9963083 ACAGATCTGGCA-TCTCCATATTCA-AATG
63 ---GATTTGGCATTCT-TGTGTTTACAA-G
* * * * *
9963111 GAG---AGCAAATACATAGCAGATCTAACCTTCAGATGTTTTTACTGAAGCAGATCCAAGATGAT
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTTCACTGAAGCAGATCCAAGATGAT
*
9963173 TTGGCATTCTTGTGTTTACTAG
66 TTGGCATTCTTGTGTTTACAAG
* *
9963195 GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTTCAC-T-GAAGCAGATCCAAGAT-
* ** * *
9963260 ACAGATTTGGC-GTCTCCAT-ATT-CGACG
63 ---GATTTGGCATTCT-TGTGTTTAC-AAG
* * * * * *
9963287 GAG--AGTAG-ACACATAGTAGATCTAACCTTCAGATGTTTAT-ACTGAAGCAAATCCAAGATGA
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTT-TCACTGAAGCAGATCCAAGATGA
* *
9963348 TTTGGCATCCTTGTGTCTACAAG
65 TTTGGCATTCTTGTGTTTACAAG
* * *
9963371 AAGCAAATCGAAGACATAACATG-TCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGAT
1 GAGCAAATCGAAGACATAGCA-GATCTGACCTTCAGATGTTTTCAC-T-GAAGCAGATCCAAGAT
9963435 GATTTGGCATTCTTGTGTTTACAAG
63 GATTTGGCATTCTTGTGTTTACAAG
* * * *
9963460 GAGAAAATCGAAGACATAGCAGATCTGACCTTCAGGTGATTACACTGAAGCAGATCCAAGATGAT
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTTCACTGAAGCAGATCCAAGATGAT
*
9963525 TTTGCATCTCTT
66 TTGGCAT-TCTT
9963537 TATTGTCAGA
Statistics
Matches: 339, Mismatches: 61, Indels: 57
0.74 0.13 0.12
Matches are distributed among these distances:
83 9 0.03
84 23 0.07
85 5 0.01
86 4 0.01
87 97 0.29
88 25 0.07
89 118 0.35
90 36 0.11
91 1 0.00
92 9 0.03
93 12 0.04
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (87 bp):
GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTTCACTGAAGCAGATCCAAGATGAT
TTGGCATTCTTGTGTTTACAAG
Found at i:9963410 original size:176 final size:177
Alignment explanation
Indices: 9963019--9963434 Score: 640
Period size: 176 Copynumber: 2.4 Consensus size: 177
9963009 TTCGACGGAG
*
9963019 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
* *
9963084 CAGATCTGGCATCTCCATATTCAAATGGAGAGCAAATACATAGCAGATCTAACCTTCAGATGTTT
66 CAGATCTGGCATCTCCATATTCAAACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTT
* * * * * *
9963149 TTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACTAGG
131 ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
9963196 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
* * * * * *
9963261 CAGATTTGGCGTCTCCATATTC-GACGGAGAGTAGACACATAGTAGATCTAACCTTCAGATGTTT
66 CAGATCTGGCATCTCCATATTCAAACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTT
9963325 ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
131 ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
* *
9963372 AGCAAATCGAAGACATAACATG-TCTGACCTTT-AGATGTTTTCACATCGAAGCAGATCCAAGAT
1 AGCAAATCGAAGACATAGCA-GATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT
9963435 GATTTGGCAT
Statistics
Matches: 220, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
176 131 0.60
177 89 0.40
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (177 bp):
AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
CAGATCTGGCATCTCCATATTCAAACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTT
ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
Found at i:9963493 original size:176 final size:173
Alignment explanation
Indices: 9963019--9963532 Score: 579
Period size: 176 Copynumber: 2.9 Consensus size: 173
9963009 TTCGACGGAG
* *
9963019 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAACAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT--
* * * ** * *
9963084 CAGATCTGGCATCTCCATATTCAAATGGAGAGCAAATACATAGCAGATCTAACCTTCAGATGTTT
64 -AGATTTGGCGTCTCCATATTCGAA-GGAGAATAGACACATAGCAGATCTAACCTTCAGATGTTT
* * * * *
9963149 TTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACTAGG
127 ATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
*
9963196 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAACAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT--
* * *
9963261 CAGATTTGGCGTCTCCATATTCGACGGAGAGTAGACACATAGTAGATCTAACCTTCAGATGTTTA
64 -AGATTTGGCGTCTCCATATTCGAAGGAGAATAGACACATAGCAGATCTAACCTTCAGATGTTTA
*
9963326 TACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
128 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
*
9963372 AGCAAATCGAAGACATAACATG-TCTGACCTTT-AGATGTTTTCACATCGAAGCAGATCCAAGAT
1 AGCAAATCGAAGACATAACA-GATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT
* ** * * * * *
9963435 -GATTTGGCAT-TCTTGTGTTTAC-AAGGAGAAAATCGAAGACATAGCAGATCTGACCTTCAGGT
64 AGATTTGGCGTCTC-CAT-ATT-CGAAGGAG--AATAG-ACACATAGCAGATCTAACCTTCAGAT
* * *
9963497 GATTACACTGAAGCAGATCCAAGATGATTTTGCATC
123 GTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
9963533 TCTTTATTGT
Statistics
Matches: 297, Mismatches: 32, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
171 2 0.01
172 10 0.03
173 7 0.02
174 1 0.00
175 3 0.01
176 184 0.62
177 90 0.30
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (173 bp):
AGCAAATCGAAGACATAACAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAG
ATTTGGCGTCTCCATATTCGAAGGAGAATAGACACATAGCAGATCTAACCTTCAGATGTTTATAC
TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
Found at i:9963719 original size:88 final size:90
Alignment explanation
Indices: 9963590--9963800 Score: 281
Period size: 88 Copynumber: 2.4 Consensus size: 90
9963580 TATTCGACAA
*
9963590 AGAGCAGATCGAAGACATAGCAGATCTGACCTTCAGGTGTTTACGC-T-GAAGCAGATCCAAGAT
1 AGAGCAGATCGAAGACATAGCAGATCTGACATTCAGGTGTTTACGCATCGAAGCAGATCCAAGAT
9963653 GATTTGACAT-CTCTGTATTCTAC-GG
66 GATTTGACATCCT-TGTATT-TACAGG
* * * *
9963678 AGAGCAGATCAAAGACATAGTAGATCTAACATTC-GGATGTTTTCGCATCGAAGCAGATCCAAGA
1 AGAGCAGATCGAAGACATAGCAGATCTGACATTCAGG-TGTTTACGCATCGAAGCAGATCCAAGA
* *
9963742 TGATTTGGCATCCTTGTGTTTACAGG
65 TGATTTGACATCCTTGTATTTACAGG
*
9963768 -GAACAGATCGAAGACATAGCAGATCTGACATTC
1 AGAGCAGATCGAAGACATAGCAGATCTGACATTC
9963801 CTGTGCTTAC
Statistics
Matches: 107, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
87 2 0.02
88 38 0.36
89 33 0.31
90 32 0.30
91 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (90 bp):
AGAGCAGATCGAAGACATAGCAGATCTGACATTCAGGTGTTTACGCATCGAAGCAGATCCAAGAT
GATTTGACATCCTTGTATTTACAGG
Found at i:9963799 original size:89 final size:88
Alignment explanation
Indices: 9963594--9963828 Score: 273
Period size: 89 Copynumber: 2.7 Consensus size: 88
9963584 CGACAAAGAG
*
9963594 CAGATCGAAGACATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTG
1 CAGATCGAAGACATAGCAGATCTGACATTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTG
*
9963659 ACATCTCTGTATTCTACGGAGAG
66 ACATCTCTGTATTCTACGGAGAA
* * * *
9963682 CAGATCAAAGACATAGTAGATCTAACATTC-GGATGTTTTCGCATCGAAGCAGATCCAAGATGAT
1 CAGATCGAAGACATAGCAGATCTGACATTCAGG-TGTTTACGC-T-GAAGCAGATCCAAGATGAT
* *
9963746 TTGGCATC-CTTGTGTT-TACAGG-GAA
63 TTGACATCTC-TGTATTCTAC-GGAGAA
** * *
9963771 CAGATCGAAGACATAGCAGATCTGACATTCCTGTGCTTACAGC-GAAGCAGATCAAAGA
1 CAGATCGAAGACATAGCAGATCTGACATTCAGGTGTTTAC-GCTGAAGCAGATCCAAGA
9963829 CTTTAACATG
Statistics
Matches: 125, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
87 16 0.13
88 34 0.27
89 39 0.31
90 36 0.29
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (88 bp):
CAGATCGAAGACATAGCAGATCTGACATTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTG
ACATCTCTGTATTCTACGGAGAA
Found at i:9963890 original size:44 final size:44
Alignment explanation
Indices: 9963743--9964021 Score: 120
Period size: 44 Copynumber: 6.2 Consensus size: 44
9963733 GATCCAAGAT
* * * *
9963743 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTATGTTTACAGGGAACAGAT-TAA-AGATAGCA
* * * * * * * **
9963789 GATCTGACATTCCTGTGCTTACAGCGAAGCAGATCAAAGACT-TTA
1 GATTTGGCATCCCTATGTTTACAGGGAA-CAGATTAAAGA-TAGCA
** * *
9963834 -ACATGACATCCCTATGTTTATAGGGAACA-AGTTAAAGATAGCA
1 GATTTGGCATCCCTATGTTTACAGGGAACAGA-TTAAAGATAGCA
* * *
9963877 GATTTGGCATCCCTATGTTTACAGGAAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTATGTTTACAGGGAACAGAT-TAA-AGATAGCA
* * * * * * ** **
9963923 GATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCA
1 GATTTGGCATCCCTATGTTTACAGGGAA-CAGATTAAAGATAGCA
* * * *
9963968 GCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGTA
1 G-ATTTGGCATCCCTATGTTTACAGGGAACAGA-TTAAAGATAGCA
9964011 GATTTGGCATC
1 GATTTGGCATC
9964022 TCCATATTCA
Statistics
Matches: 172, Mismatches: 48, Indels: 28
0.69 0.19 0.11
Matches are distributed among these distances:
42 4 0.02
43 20 0.12
44 71 0.41
45 12 0.07
46 55 0.32
47 10 0.06
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCCCTATGTTTACAGGGAACAGATTAAAGATAGCA
Found at i:9963899 original size:134 final size:134
Alignment explanation
Indices: 9963743--9964098 Score: 482
Period size: 134 Copynumber: 2.6 Consensus size: 134
9963733 GATCCAAGAT
* *
9963743 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTATGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
9963808 TACAGCGAAGCAGATCAAAGACTTT-AACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGA
66 TACAGCGAAGCAGATCAAAGA-TTTCAACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGA
9963872 TAGCA
130 TAGCA
*
9963877 GATTTGGCATCCCTATGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTATGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
* * * * *
9963942 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCAAAGATTTCAACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGAT
*
9964007 AGTA
131 AGCA
** * * ** * * *
9964011 GATTTGGCATCTCCATAT-TCAACGGGGAGCAGATTAAAGACATAGCAGATCTGACCTTCATATG
1 GATTTGGCATC-CC-TATGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTG
* * *
9964075 TTTACATCGAAGCAGATCCAAGAT
64 CTTACAGCGAAGCAGATCAAAGAT
9964099 GATTTGGCAT
Statistics
Matches: 197, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
133 3 0.02
134 132 0.67
135 59 0.30
136 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (134 bp):
GATTTGGCATCCCTATGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
TACAGCGAAGCAGATCAAAGATTTCAACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGAT
AGCA
Found at i:9963945 original size:46 final size:46
Alignment explanation
Indices: 9963750--9963962 Score: 170
Period size: 44 Copynumber: 4.7 Consensus size: 46
9963740 GATGATTTGG
* *
9963750 CATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGA
1 CATCCCTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGA
* * * * **
9963796 CATTCCTGTGCTTACAGCGAAGCAGATCAAAGAC-T-TTA-A-CATGA
1 CATCCCTGTGTTTACAG-GAAACAGATCGAAGACATAGCAGATC-TGA
* * * * * * *
9963840 CATCCCTATGTTTATAGGGAACA-AGT-TAA-AGATAGCAGATTTGG
1 CATCCCTGTGTTTACAGGAAACAGA-TCGAAGACATAGCAGATCTGA
*
9963884 CATCCCTATGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGA
1 CATCCCTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGA
* * *
9963930 CATTCCTGTGCTTACAGCGAAGCAGATCGAAGA
1 CATCCCTGTGTTTACAG-GAAACAGATCGAAGA
9963963 TTTCAGCATG
Statistics
Matches: 126, Mismatches: 30, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 7 0.06
44 42 0.33
45 4 0.03
46 41 0.33
47 27 0.21
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (46 bp):
CATCCCTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGA
Found at i:9964560 original size:19 final size:19
Alignment explanation
Indices: 9964513--9964572 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 19
9964503 AATCTTTAAG
*
9964513 GATATGCAATCTCAGATAT
1 GATATGCAATCTTAGATAT
9964532 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9964549 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
9964570 GAT
1 GAT
9964573 CTTGTAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 16 0.44
19 11 0.31
21 9 0.25
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9967324 original size:39 final size:38
Alignment explanation
Indices: 9967257--9967518 Score: 355
Period size: 39 Copynumber: 6.7 Consensus size: 38
9967247 ACAAAGCATG
* *
9967257 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAG-CTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
* *
9967296 GCGAGACTTTAGCCCAGATATAACACCAGCACAAATGCCTT
1 -CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
9967337 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
9967376 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
9967415 CGGGACTTAGCCTGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
9967454 CAGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
9967493 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
9967519 TTATAAAGTC
Statistics
Matches: 205, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 187 0.91
40 15 0.07
41 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:9967624 original size:28 final size:28
Alignment explanation
Indices: 9967591--9967672 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
9967581 ATTTAATCAT
* *
9967591 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
9967619 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
9967647 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
9967673 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Done.