Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009121.1 Hibiscus syriacus cultivar Beakdansim tig00112611_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 272059
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:4459 original size:9 final size:9
Alignment explanation
Indices: 4445--4543 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
4435 GCTGCTGGAA
4445 ACCGGTTTG
1 ACCGGTTTG
*
4454 ACCGGTTTTCA
1 ACCGG-TTT-G
4465 ACCGGTTCTG
1 ACCGGTT-TG
4475 ACCGGTTTG
1 ACCGGTTTG
*
4484 ACCGGTTTCA
1 ACCGGTTT-G
*
4494 ACCGGTTCG
1 ACCGGTTTG
4503 AACCGGTTTG
1 -ACCGGTTTG
*
4513 ACCGGTCTG
1 ACCGGTTTG
*
4522 AATCGGTTTG
1 -ACCGGTTTG
*
4532 ACCGGTCTG
1 ACCGGTTTG
4541 ACC
1 ACC
4544 CGACCCGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.47
11 6 0.08
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4489 original size:19 final size:19
Alignment explanation
Indices: 4445--4543 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
4435 GCTGCTGGAA
* *
4445 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
4465 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
4484 ACCGGTTTCAACCGGTTC-G
1 ACCGGTTT-GACCGGTTCTG
4503 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
*
4522 AATCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
4541 ACC
1 ACC
4544 CGACCCGACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.57
20 16 0.23
21 9 0.13
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:4507 original size:29 final size:30
Alignment explanation
Indices: 4444--4543 Score: 127
Period size: 29 Copynumber: 3.4 Consensus size: 30
4434 GGCTGCTGGA
4444 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
4475 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
4503 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
4532 -ACCGGTCTGACC
1 AACCGGTTTGACC
4544 CGACCCGACC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.59
30 14 0.22
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:4550 original size:5 final size:5
Alignment explanation
Indices: 4540--4592 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
4530 TGACCGGTCT
* *
4540 GACCC GACCC GACCGTT GACCC GACCC GACCGTT GACCC GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACC--C GACCC GACCC GACCC
4589 GACC
1 GACC
4593 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:4566 original size:22 final size:22
Alignment explanation
Indices: 4557--4599 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4547 CCCGACCGTT
4557 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
4579 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
4600 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:4599 original size:17 final size:17
Alignment explanation
Indices: 4539--4587 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
4529 TTGACCGGTC
4539 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4556 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4573 TGACCCGACCCGACC
1 TGACCCGACCCGACC
4588 CGACCGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.10
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:4601 original size:7 final size:7
Alignment explanation
Indices: 4589--4619 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4579 GACCCGACCC
4589 GACCGTT
1 GACCGTT
4596 GACCGTT
1 GACCGTT
4603 GACCGTT
1 GACCGTT
4610 GACCGTT
1 GACCGTT
4617 GAC
1 GAC
4620 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:5534 original size:31 final size:31
Alignment explanation
Indices: 5490--5561 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
5480 TGTGACTCTT
* *
5490 AGGTAGGCTCTGCGGCCCTGAGAT-TATTCTC
1 AGGTAGGCCCTGCGGCCCTAAGATGT-TTCTC
* *
5521 GGGTAGGCCCTGCGGCCCTAAGATGTTTCTT
1 AGGTAGGCCCTGCGGCCCTAAGATGTTTCTC
5552 AGGTAGGCCC
1 AGGTAGGCCC
5562 CACGGCCCCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (31 bp):
AGGTAGGCCCTGCGGCCCTAAGATGTTTCTC
Found at i:5568 original size:31 final size:31
Alignment explanation
Indices: 5486--5619 Score: 85
Period size: 31 Copynumber: 4.3 Consensus size: 31
5476 CTAATGTGAC
* ** *
5486 TCTTAGGTAGGCTCTGCGGCCCTGAGAT-TAT
1 TCTTAGGTAGGCCCCACGGCCCTAAGATGT-T
** **
5517 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTT
1 TCTTAGGTAGGCCCCACGGCCCTAAGATGTT
* * *
5548 TCTTAGGTAGGCCCCACGGCCCCGAA-ATCTA
1 TCTTAGGTAGGCCCCACGG-CCCTAAGATGTT
* *
5579 TCTTGGGTAGGCTCTCA-GGCCCTAAGATGTT
1 TCTTAGGTAGGC-CCCACGGCCCTAAGATGTT
*
5610 CCCTTAGGTA
1 -TCTTAGGTA
5620 ACGCTTTTTA
Statistics
Matches: 80, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
30 5 0.06
31 59 0.74
32 16 0.20
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCCACGGCCCTAAGATGTT
Found at i:5587 original size:62 final size:63
Alignment explanation
Indices: 5485--5619 Score: 159
Period size: 62 Copynumber: 2.2 Consensus size: 63
5475 CCTAATGTGA
* ** * *
5485 CTCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTT
1 CTCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTT
* *
5548 -TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGTT
1 CTCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTT
*
5610 CCCTTAGGTA
1 CTCTTAGGTA
5620 ACGCTTTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 1 0.02
62 50 0.82
63 10 0.16
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (63 bp):
CTCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTT
Found at i:7285 original size:18 final size:18
Alignment explanation
Indices: 7264--7301 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
7254 GTTAAGAATC
7264 AAGAAAATCAAA-TTAAAA
1 AAGAAAAT-AAAGTTAAAA
7282 AAGAAAATAAAGTTAAAA
1 AAGAAAATAAAGTTAAAA
7300 AA
1 AA
7302 ACAAACACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (18 bp):
AAGAAAATAAAGTTAAAA
Found at i:7872 original size:18 final size:19
Alignment explanation
Indices: 7832--7867 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7822 TAAATACACT
7832 AATT-TAAAAAAATCTTAA
1 AATTATAAAAAAATCTTAA
*
7850 AATTATAAAAAGATCTTA
1 AATTATAAAAAAATCTTA
7868 TATTACCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (19 bp):
AATTATAAAAAAATCTTAA
Found at i:9581 original size:14 final size:15
Alignment explanation
Indices: 9562--9603 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
9552 GATCGAATGT
9562 AATATTTTTTT-ATA
1 AATATTTTTTTCATA
*
9576 AATATTTGTTTTCTTA
1 AATATTT-TTTTCATA
9592 AATATATTTTTT
1 AATAT-TTTTTT
9604 TACATCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
16 11 0.46
17 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
AATATTTTTTTCATA
Found at i:10027 original size:17 final size:17
Alignment explanation
Indices: 10005--10060 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
9995 CGATTTTGAG
10005 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
10022 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
*
10039 CTCGATTCAAGTTCGAA
1 CTCGATTCAAGCTCGAA
*
10056 ATCGA
1 CTCGA
10061 ACTCGAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (17 bp):
CTCGATTCAAGCTCGAA
Found at i:10989 original size:2 final size:2
Alignment explanation
Indices: 10982--11027 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
10972 TTCAATTGAA
10982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11024 AT AT
1 AT AT
11028 TAAATTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11986 original size:17 final size:17
Alignment explanation
Indices: 11964--11996 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11954 TTAGTGTTCC
11964 TTCAATT-TGTACTTGTT
1 TTCAATTGTGT-CTTGTT
11981 TTCAATTGTGTCTTGT
1 TTCAATTGTGTCTTGT
11997 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
TTCAATTGTGTCTTGTT
Found at i:14212 original size:25 final size:25
Alignment explanation
Indices: 14166--14213 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
14156 TACAATTTTA
* *
14166 TAAATAACTTAAAAATTTTAAAATG
1 TAAATAACTTAAAAAATATAAAATG
14191 TAAATAAC-TAGAAAAATATAAAA
1 TAAATAACTTA-AAAAATATAAAA
14214 ATATATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
TAAATAACTTAAAAAATATAAAATG
Found at i:14521 original size:7 final size:7
Alignment explanation
Indices: 14509--14555 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
14499 TTGTGTATAA
*
14509 CTTAAAT
1 CTTAAAC
14516 CTTAAAC
1 CTTAAAC
14523 CTTAAAC
1 CTTAAAC
14530 CTT-AAC
1 CTTAAAC
*
14536 CTTAAAT
1 CTTAAAC
*
14543 TTTAAAC
1 CTTAAAC
*
14550 CATAAA
1 CTTAAA
14556 TCATAAATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (7 bp):
CTTAAAC
Found at i:14528 original size:14 final size:14
Alignment explanation
Indices: 14509--14562 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
14499 TTGTGTATAA
14509 CTTAAATCTTAAAC
1 CTTAAATCTTAAAC
*
14523 CTTAAACCTT-AAC
1 CTTAAATCTTAAAC
*
14536 CTTAAATTTTAAAC
1 CTTAAATCTTAAAC
* *
14550 CATAAATCATAAA
1 CTTAAATCTTAAA
14563 TCCTATCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 11 0.33
14 22 0.67
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (14 bp):
CTTAAATCTTAAAC
Found at i:14664 original size:14 final size:14
Alignment explanation
Indices: 14645--14674 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14635 TATAATTATC
*
14645 AATAATGTATTTTT
1 AATAATGTAATTTT
14659 AATAATGTAATTTT
1 AATAATGTAATTTT
14673 AA
1 AA
14675 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:17581 original size:16 final size:16
Alignment explanation
Indices: 17556--17587 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17546 TAATAAATAA
17556 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
17572 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
17588 TAAGCGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:17601 original size:25 final size:26
Alignment explanation
Indices: 17552--17609 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
17542 CATTTAATAA
*
17552 ATAAACGAACATAAACGAACACGAAT
1 ATAAACGAACATAAACGAACACGAAC
*
17578 ATAAACGAAC-TAAGCGAACACGAAC
1 ATAAACGAACATAAACGAACACGAAC
17603 ATAAACG
1 ATAAACG
17610 TTGGAGACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (26 bp):
ATAAACGAACATAAACGAACACGAAC
Found at i:23816 original size:36 final size:37
Alignment explanation
Indices: 23751--23824 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
23741 GGACTTGTTT
*
23751 TTGTGCTTCTGATCTGTAAATATTGTACAATCTGATA
1 TTGTGCTTCTGATATGTAAATATTGTACAATCTGATA
* *
23788 TTGTGCTTCTTATATG-AAATATTTTACAATCTGATA
1 TTGTGCTTCTGATATGTAAATATTGTACAATCTGATA
23824 T
1 T
23825 CTTTTATGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 20 0.59
37 14 0.41
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (37 bp):
TTGTGCTTCTGATATGTAAATATTGTACAATCTGATA
Found at i:24000 original size:2 final size:2
Alignment explanation
Indices: 23993--24087 Score: 82
Period size: 2 Copynumber: 46.5 Consensus size: 2
23983 ATTCTACTTT
* * * * *
23993 TA TA TA TA TA TA TA TA TGA GTA TA TG TA TG TG TG TA TA TA TA TG
1 TA TA TA TA TA TA TA TA T-A -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
24037 TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TG CA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24079 TA TA TA TA T
1 TA TA TA TA T
24088 GTATGTATGT
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
2 72 0.96
3 2 0.03
4 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (2 bp):
TA
Found at i:24031 original size:24 final size:24
Alignment explanation
Indices: 24001--24099 Score: 121
Period size: 24 Copynumber: 4.1 Consensus size: 24
23991 TTTATATATA
*
24001 TATATATATGAGTATATGTATGTGTG
1 TATATATAT--GTATATGTATGTATG
24027 TATATATATGTATA--TATGTATG
1 TATATATATGTATATGTATGTATG
* * *
24049 TATATATATATATATATATGCATG
1 TATATATATGTATATGTATGTATG
*
24073 TATATATATATATATGTATGTATG
1 TATATATATGTATATGTATGTATG
24097 TAT
1 TAT
24100 GTATGCATGC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
22 20 0.30
24 37 0.56
26 9 0.14
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.48
Consensus pattern (24 bp):
TATATATATGTATATGTATGTATG
Found at i:24034 original size:18 final size:18
Alignment explanation
Indices: 23993--24099 Score: 96
Period size: 18 Copynumber: 6.2 Consensus size: 18
23983 ATTCTACTTT
*
23993 TATATATATATATATATG
1 TATATATATGTATATATG
* * *
24011 -A-GTATATGTATGTGTG
1 TATATATATGTATATATG
24027 TATATATATGTATATATG
1 TATATATATGTATATATG
* * *
24045 TATGTATATATATATATA
1 TATATATATGTATATATG
**
24063 TATATGCATGTATATA--
1 TATATATATGTATATATG
*
24079 TATATATATGTATGTATG
1 TATATATATGTATATATG
24097 TAT
1 TAT
24100 GTATGCATGC
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
16 24 0.35
17 2 0.03
18 42 0.62
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (18 bp):
TATATATATGTATATATG
Found at i:24092 original size:4 final size:4
Alignment explanation
Indices: 24015--24116 Score: 73
Period size: 4 Copynumber: 26.0 Consensus size: 4
24005 TATATGAGTA
* * * * * *
24015 TATG TATG TGTG TA-- TATA TATG TATA TATG TATG TATA TATA TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
24061 TATA TATG CATG TATA TATA TATA TATG TATG TATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
24109 CATG TATG
1 TATG TATG
24117 CACAAATTAG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.02
4 81 0.98
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:24102 original size:12 final size:12
Alignment explanation
Indices: 23999--24104 Score: 88
Period size: 12 Copynumber: 8.7 Consensus size: 12
23989 CTTTTATATA
*
23999 TATATATATATG
1 TATATATGTATG
24011 -AGTATATGTATGTG
1 TA-TATATGTA--TG
* *
24025 TGTATATATATG
1 TATATATGTATG
24037 TATATATGTATG
1 TATATATGTATG
* *
24049 TATATATATATA
1 TATATATGTATG
*
24061 TATATATGCATG
1 TATATATGTATG
* *
24073 TATATATATATA
1 TATATATGTATG
*
24085 TATGTATGTATG
1 TATATATGTATG
*
24097 TATGTATG
1 TATATATG
24105 CATGCATGTA
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
11 1 0.01
12 64 0.86
14 9 0.12
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (12 bp):
TATATATGTATG
Found at i:30628 original size:17 final size:18
Alignment explanation
Indices: 30585--30625 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
30575 AAATTATATT
30585 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
30602 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
30620 ATTAAA
1 AGTAAA
30626 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:31587 original size:21 final size:21
Alignment explanation
Indices: 31562--31602 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31552 ATACTTCTTA
31562 TATGTATA-TATATAATATTTT
1 TATGTATATTA-ATAATATTTT
31583 TATGTATATTAATAATATTT
1 TATGTATATTAATAATATTT
31603 AAAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TATGTATATTAATAATATTTT
Found at i:38123 original size:29 final size:29
Alignment explanation
Indices: 38088--38169 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
38078 AAACTAAATT
*
38088 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
38117 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
38146 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
38170 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:38532 original size:10 final size:10
Alignment explanation
Indices: 38517--38546 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
38507 CTGAGTTCTG
38517 ACGCACCGCC
1 ACGCACCGCC
38527 ACGCACCGCC
1 ACGCACCGCC
38537 ACGCACCGCC
1 ACGCACCGCC
38547 GGAAGACTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (10 bp):
ACGCACCGCC
Found at i:42902 original size:29 final size:29
Alignment explanation
Indices: 42867--42948 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
42857 AAACTAAATT
*
42867 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
42896 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
42925 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
42949 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:43748 original size:20 final size:20
Alignment explanation
Indices: 43723--43764 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
43713 TTACTATCAT
43723 GATTTATACTTTGGTTTCAA
1 GATTTATACTTTGGTTTCAA
43743 GATTTATACTTTGGTTTCAA
1 GATTTATACTTTGGTTTCAA
43763 GA
1 GA
43765 ATATCATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (20 bp):
GATTTATACTTTGGTTTCAA
Found at i:44125 original size:22 final size:22
Alignment explanation
Indices: 44100--44153 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
44090 TGACGGCAGA
44100 GTGCCTTCCACATGGGGCCATT
1 GTGCCTTCCACATGGGGCCATT
44122 GTGCCTTCCACATGGGGCCATT
1 GTGCCTTCCACATGGGGCCATT
*
44144 GTGTCTTCCA
1 GTGCCTTCCA
44154 TTATGGCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.13, C:0.31, G:0.26, T:0.30
Consensus pattern (22 bp):
GTGCCTTCCACATGGGGCCATT
Found at i:44788 original size:15 final size:15
Alignment explanation
Indices: 44742--44784 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
44732 CATATGCAAA
*
44742 AATATATTTATAAAT
1 AATATATTAATAAAT
*
44757 AATATTTTAATAAAT
1 AATATATTAATAAAT
44772 AAT-TATTAATAAA
1 AATATATTAATAAA
44785 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATTAATAAAT
Found at i:52633 original size:3 final size:3
Alignment explanation
Indices: 52625--52651 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52615 AGATTAGAGA
52625 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
52652 GAATCCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:52988 original size:16 final size:16
Alignment explanation
Indices: 52964--53026 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
52954 TTCATAATAA
* *
52964 TTAAGTGTTGAATCAT
1 TTAAATGTTGAATGAT
*
52980 TTAAATGTTAAATGAT
1 TTAAATGTTGAATGAT
52996 TTAAATGTTGAATGAT
1 TTAAATGTTGAATGAT
53012 TTAAATGTTGAATGA
1 TTAAATGTTGAATGA
53027 ATGAATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (16 bp):
TTAAATGTTGAATGAT
Found at i:53130 original size:26 final size:27
Alignment explanation
Indices: 53066--53130 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
53056 GATAATGACT
* *
53066 CTGAATTATTCAGAATGTACTTCTGTA
1 CTGAATCATTCAGAATGTACTTCTATA
* *
53093 TTGAATCATTCAGAATGTAC-TCTATG
1 CTGAATCATTCAGAATGTACTTCTATA
53119 CTGAATCATTCA
1 CTGAATCATTCA
53131 ACAATGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 15 0.45
27 18 0.55
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTATA
Found at i:57650 original size:20 final size:20
Alignment explanation
Indices: 57609--57651 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
57599 TCTAAGAGCC
*
57609 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATTAAGATG
*
57629 CATTTAGGAGCATATAAG-TG
1 CATTTAGGACCAT-TAAGATG
57649 CAT
1 CAT
57652 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGACCATTAAGATG
Found at i:66939 original size:20 final size:20
Alignment explanation
Indices: 66914--66956 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
66904 TCTAAGAGCC
*
66914 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
66934 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
66954 CAT
1 CAT
66957 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:72576 original size:2 final size:2
Alignment explanation
Indices: 72569--72602 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
72559 TTTTTCCCCT
72569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72603 CACACACACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:74560 original size:2 final size:2
Alignment explanation
Indices: 74555--74591 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
74545 AAGTTTTTTA
74555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74592 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:74809 original size:28 final size:28
Alignment explanation
Indices: 74769--74827 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
74759 TAAACCTCTA
74769 TAATAGTGTAATTCAAATTTACAAAATC
1 TAATAGTGTAATTCAAATTTACAAAATC
74797 TAATAGTGTAATTCAAATTTACAAAATC
1 TAATAGTGTAATTCAAATTTACAAAATC
74825 TAA
1 TAA
74828 CTTATATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (28 bp):
TAATAGTGTAATTCAAATTTACAAAATC
Found at i:76075 original size:20 final size:20
Alignment explanation
Indices: 76050--76088 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
76040 AAATAATGTA
76050 ATAATAATATG-ATTTGTATC
1 ATAATAA-ATGCATTTGTATC
76070 ATAATAAATGCATTTGTAT
1 ATAATAAATGCATTTGTAT
76089 GATTCTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
ATAATAAATGCATTTGTATC
Found at i:76801 original size:7 final size:7
Alignment explanation
Indices: 76756--76815 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
76746 TGGATTAAGA
76756 GTTTAGG
1 GTTTAGG
*
76763 GTTTA-A
1 GTTTAGG
*
76769 GTTTAGT
1 GTTTAGG
*
76776 GTTAAGG
1 GTTTAGG
**
76783 GTTTATA
1 GTTTAGG
*
76790 ATTTAGG
1 GTTTAGG
*
76797 GTTTAAG
1 GTTTAGG
76804 GTTTAGG
1 GTTTAGG
76811 GTTTA
1 GTTTA
76816 ATCTAATATG
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:80717 original size:2 final size:2
Alignment explanation
Indices: 80712--80738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
80702 AAAAAGAAAA
80712 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
80739 AGGAACGAGT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:81348 original size:19 final size:19
Alignment explanation
Indices: 81324--81363 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
81314 TTTTAATTTT
81324 TGAAACCTCAATTTTCTCA
1 TGAAACCTCAATTTTCTCA
81343 TGAAACCTCAATTTTCTCA
1 TGAAACCTCAATTTTCTCA
81362 TG
1 TG
81364 TGGAAGACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (19 bp):
TGAAACCTCAATTTTCTCA
Found at i:81856 original size:49 final size:51
Alignment explanation
Indices: 81793--81891 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 51
81783 TCGAGCCTTA
81793 TTCTTCTTCTTC-TT-TATATATATATATATTAAAACCAACCCTTAAATTC
1 TTCTTCTTCTTCTTTATATATATATATATATTAAAACCAACCCTTAAATTC
81842 TTCTTCTTCTTCTTTAGATATATATATATATATTAAAACCAACCCTTAAA
1 TTCTTCTTCTTCTTT--ATATATATATATATATTAAAACCAACCCTTAAA
81892 AGAAGACAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
49 12 0.26
50 2 0.04
53 32 0.70
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.45
Consensus pattern (51 bp):
TTCTTCTTCTTCTTTATATATATATATATATTAAAACCAACCCTTAAATTC
Found at i:82689 original size:2 final size:2
Alignment explanation
Indices: 82682--82720 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
82672 TACATTTAAC
82682 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82721 TAGGAATGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83339 original size:3 final size:3
Alignment explanation
Indices: 83331--83392 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
83321 ATACCAAAAA
* * *
83331 TAT TAT TA- TAT TAT AAA TAT TAA T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
83377 TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TA
83393 ATACAAGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 5 0.10
3 45 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:86940 original size:15 final size:13
Alignment explanation
Indices: 86920--86974 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 13
86910 GATTTAATTA
86920 AATAAAATAGATAAT
1 AATAAAATA-A-AAT
86935 AAT-AAATAAAAT
1 AATAAAATAAAAT
86947 AATAAAA-AAAAT
1 AATAAAATAAAAT
86959 AA-AATAAT-AAAT
1 AATAA-AATAAAAT
86971 AATA
1 AATA
86975 GTAGTAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 2 0.06
12 21 0.58
13 5 0.14
14 5 0.14
15 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:86947 original size:9 final size:9
Alignment explanation
Indices: 86918--86969 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
86908 AAGATTTAAT
86918 TAAATAAAA
1 TAAATAAAA
*
86927 TAGATAATAA
1 TAAATAA-AA
86937 TAAATAAAA
1 TAAATAAAA
86946 T-AATAAAA
1 TAAATAAAA
*
86954 AAAATAAAA
1 TAAATAAAA
86963 T-AATAAA
1 TAAATAAA
86970 TAATAGTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 13 0.35
9 16 0.43
10 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
TAAATAAAA
Found at i:87779 original size:76 final size:76
Alignment explanation
Indices: 87687--87883 Score: 351
Period size: 76 Copynumber: 2.6 Consensus size: 76
87677 AAATCCTAAT
87687 TAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTG
1 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTG
87751 AATTAAAATAC
66 AATTAAAATAC
* * *
87762 TAAAACCTATTTAAACTAGAATACCTAAAACAAATATAAAATATAAAAATAATATCCTAAAACTT
1 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTG
87827 AATTAAAATAC
66 AATTAAAATAC
*
87838 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAATTATAA
1 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
87884 TATTTAAAAT
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 5 0.04
76 110 0.96
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.26
Consensus pattern (76 bp):
TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTG
AATTAAAATAC
Found at i:87821 original size:32 final size:32
Alignment explanation
Indices: 87781--87842 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
87771 TTTAAACTAG
87781 AATACCTAAAAC-AAATATAAAATA-TAAAAAT
1 AATACCTAAAACTAAAT-TAAAATACTAAAAAT
*
87812 AATATCCTAAAACTTAATTAAAATACTAAAA
1 AATA-CCTAAAACTAAATTAAAATACTAAAA
87843 CCTATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (32 bp):
AATACCTAAAACTAAATTAAAATACTAAAAAT
Found at i:93849 original size:79 final size:79
Alignment explanation
Indices: 93762--94071 Score: 338
Period size: 79 Copynumber: 4.0 Consensus size: 79
93752 ATTGATTTGT
*
93762 TTCACTACTCTTCGGTGAAGGCTTAAGATGACCCGGAGGACTTAATAGTTATGCTCGGAAGGCTT
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGACCCGGAGGACTTAATACTTATGCTCGGAAGGCTT
93827 ACTAATGGATTTAC
66 ACTAATGGATTTAC
*** * *
93841 TTCACTACTCTTCGGTGAAGGCTTAAGAT-----GGATTTTCTTCACTACTCT-T-C-GGTGAAG
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGACCCGGA-GGACTT-AATACT-TATGCTCG-GAAG
* *
93898 GCTTA--AGATTGATTTGC
62 GCTTACTA-ATGGATTTAC
*
93915 TTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAAT-CTTCATGCTCGGAAGGCT
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGACCCGGAGGACTTAATACTT-ATGCTCGGAAGGCT
* *
93979 TACTGATGGATTTGC
65 TACTAATGGATTTAC
* * *
93994 TTCAGTACTCTTCGGTGAAGGCTTAAGATGACCCAGAGGACTTAAT-CATCATGCTCGGAAGGCT
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGACCCGGAGGACTTAATAC-TTATGCTCGGAAGGCT
*
94058 TACTGATGGATTTA
65 TACTAATGGATTTA
94072 ATCATCATGC
Statistics
Matches: 194, Mismatches: 20, Indels: 34
0.78 0.08 0.14
Matches are distributed among these distances:
73 1 0.01
74 41 0.21
75 14 0.07
76 7 0.04
77 4 0.02
78 13 0.07
79 113 0.58
80 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (79 bp):
TTCACTACTCTTCGGTGAAGGCTTAAGATGACCCGGAGGACTTAATACTTATGCTCGGAAGGCTT
ACTAATGGATTTAC
Found at i:93881 original size:37 final size:37
Alignment explanation
Indices: 93831--93945 Score: 203
Period size: 37 Copynumber: 3.1 Consensus size: 37
93821 AGGCTTACTA
93831 ATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAG
1 ATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAG
*
93868 ATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAG
1 ATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAG
* *
93905 ATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
1 ATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAG
93942 ATGG
1 ATGG
93946 CCCGGAGGAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (37 bp):
ATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAG
Found at i:93991 original size:153 final size:153
Alignment explanation
Indices: 93713--94023 Score: 507
Period size: 153 Copynumber: 2.0 Consensus size: 153
93703 CAAATCAGAT
* * *
93713 AGATGGATTTGCTTCACTATTCTTCCATGAAGGCTTATGATTGATTTGTTTCACTACTCTTCGGT
1 AGATGGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGT
*
93778 GAAGGCTTAAGATGACCCGGAGGACTTAATAGTTATGCTCGGAAGGCTTACTAATGGATTTACTT
66 GAAGGCTTAAGATGACCCGGAGGACTTAATACTTATGCTCGGAAGGCTTACTAATGGATTTACTT
93843 CACTACTCTTCGGTGAAGGCTTA
131 CACTACTCTTCGGTGAAGGCTTA
* **
93866 AGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGT
1 AGATGGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGT
* * *
93931 GAAGGCTTAAGATGGCCCGGAGGACTTAAT-CTTCATGCTCGGAAGGCTTACTGATGGATTTGCT
66 GAAGGCTTAAGATGACCCGGAGGACTTAATACTT-ATGCTCGGAAGGCTTACTAATGGATTTACT
*
93995 TCAGTACTCTTCGGTGAAGGCTTA
130 TCACTACTCTTCGGTGAAGGCTTA
94019 AGATG
1 AGATG
94024 ACCCAGAGGA
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
152 2 0.01
153 144 0.99
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (153 bp):
AGATGGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGT
GAAGGCTTAAGATGACCCGGAGGACTTAATACTTATGCTCGGAAGGCTTACTAATGGATTTACTT
CACTACTCTTCGGTGAAGGCTTA
Found at i:94078 original size:34 final size:34
Alignment explanation
Indices: 94035--94100 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
94025 CCCAGAGGAC
*
94035 TTAATCATCATGCTCGGAAGGCTTACTGATGGAT
1 TTAATCATCATGCTCGGAAGACTTACTGATGGAT
94069 TTAATCATCATGCTCGGAAGACTTACTGATGG
1 TTAATCATCATGCTCGGAAGACTTACTGATGG
94101 TCCGAAGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (34 bp):
TTAATCATCATGCTCGGAAGACTTACTGATGGAT
Found at i:107636 original size:18 final size:18
Alignment explanation
Indices: 107613--107685 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
107603 AGGGATTATC
*
107613 AGTGGTCCTTTGAGACAT
1 AGTGGTCCTTCGAGACAT
* *
107631 AGTGGTTCTTCG-GAATAATT
1 AGTGGTCCTTCGAG-A-CA-T
*
107651 AGCGGTCCTTCGAGACAT
1 AGTGGTCCTTCGAGACAT
*
107669 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGAGACA
107686 AATATTCAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
17 1 0.02
18 27 0.63
19 2 0.05
20 12 0.28
21 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:110169 original size:37 final size:37
Alignment explanation
Indices: 110128--110247 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
110118 GAATCCATTT
110128 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCC
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCC
* **
110165 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATACATTT
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCC
* *
110202 TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTCATCTG
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATTCATC-C
110240 TAAGCCTT
1 TAAGCCTT
110248 TAGAGCAAGA
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
37 67 0.89
38 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (37 bp):
TAAGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCC
Found at i:110439 original size:42 final size:42
Alignment explanation
Indices: 110392--110524 Score: 203
Period size: 42 Copynumber: 3.2 Consensus size: 42
110382 ACTTAATAAG
110392 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
* ** * * * *
110434 TCCTTCGGGTCATCTGTAAGTCTTTCGAGTATGATGATGAAG
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
110476 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
110518 TCCTTCG
1 TCCTTCG
110525 AGTCATCTGT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
Found at i:110488 original size:84 final size:83
Alignment explanation
Indices: 110387--110585 Score: 299
Period size: 84 Copynumber: 2.4 Consensus size: 83
110377 TTCGCACTTA
*
110387 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
* * *
110452 AGTCTTTCGAGTATGATG
66 AGCCTTTCGAGCAAGATG
110470 ATGAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGT
1 AT-AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGT
*
110535 AAGCCTTTTGAGCAAGATG
65 AAGCCTTTCGAGCAAGATG
* * * * *
110554 ATATGTCATTCGGGACATCCATAAGACTTTCG
1 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCG
110586 GGTGGGATGT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
83 27 0.26
84 78 0.74
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
AGCCTTTCGAGCAAGATG
Found at i:110548 original size:42 final size:42
Alignment explanation
Indices: 110392--110553 Score: 198
Period size: 42 Copynumber: 3.9 Consensus size: 42
110382 ACTTAATAAG
* **
110392 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGCTTAAA
* * * *
110434 TCCTTCGGGTCATCTGTAAGTCTTTCGAGTATGATGATGAAG
1 TCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGCTTAAA
* **
110476 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGCTTAAA
* * * *
110518 TCCTTCGAGTCATCTGTAAGCCTTTTGAGCAAGATG
1 TCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATG
110554 ATATGTCATT
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 99 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGCTTAAA
Found at i:110845 original size:80 final size:80
Alignment explanation
Indices: 110703--110872 Score: 295
Period size: 80 Copynumber: 2.1 Consensus size: 80
110693 CCTTCAGGCC
* * *
110703 ATCATTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCAAAGAG
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAACCTTCACCAAAGAG
110768 TAGTGAAGCAAATCT
66 TAGTGAAGCAAATCT
* *
110783 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTGTAAACCTTCATCAAAGAG
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAACCTTCACCAAAGAG
110848 TAGTGAAGCAAATCT
66 TAGTGAAGCAAATCT
110863 ATCAGTAAGT
1 ATCAGTAAGT
110873 ACCATCAGTA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (80 bp):
ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAACCTTCACCAAAGAG
TAGTGAAGCAAATCT
Found at i:110933 original size:20 final size:20
Alignment explanation
Indices: 110904--110955 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
110894 CATGATGATG
* *
110904 AAGTCCTTCGGGTCATCGGT
1 AAGTCATTCGAGTCATCGGT
*
110924 AAGTCTTTCGAGTCATCGGT
1 AAGTCATTCGAGTCATCGGT
110944 AAGTCATTCGAG
1 AAGTCATTCGAG
110956 CATTATGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (20 bp):
AAGTCATTCGAGTCATCGGT
Found at i:111076 original size:42 final size:42
Alignment explanation
Indices: 111029--111285 Score: 196
Period size: 42 Copynumber: 5.9 Consensus size: 42
111019 GTGCCATCAA
*
111029 TAAGTCTTTCGAGTATGATGATGAAATCCTTCGGGTCATTAG
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTAG
* * *
111071 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTG
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTAG
* * * * ** * *
111113 TTAGCCTTCACCGAAG-A-GTAGTAAAACAAATCCATCAGTAAGAGCCATTAG
1 TAAGTCTT--TCG-AGCATG-A-T-GATGAAATCCTTC-G---G-GTCATTAG
* * * *
111164 TAAGTCTTTCGAGCATTATGATGAAATCCTTTGGGCCATCAG
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTAG
* * *
111206 TAAGTCTTTCGAGCATGATGATTAAATCCTGCGGGTCATTGG
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTAG
* * *
111248 TGAGTCTTTCGAGCAAGATGAT-AAATCCTTTGGGTCAT
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCAT
111286 CCATAAGACC
Statistics
Matches: 167, Mismatches: 35, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
41 14 0.08
42 106 0.63
43 2 0.01
44 4 0.02
45 3 0.02
46 10 0.06
47 9 0.05
48 3 0.02
49 4 0.02
50 1 0.01
51 11 0.07
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTAG
Found at i:111103 original size:22 final size:22
Alignment explanation
Indices: 111036--111103 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
111026 CAATAAGTCT
* *
111036 TTCGAGTATGATGATGAAATCC
1 TTCGAGCATGATGATTAAATCC
* * * *
111058 TTCGGGTCAT--T-AGTAAGTCT
1 TTCGAG-CATGATGATTAAATCC
111078 TTCGAGCATGATGATTAAATCC
1 TTCGAGCATGATGATTAAATCC
111100 TTCG
1 TTCG
111104 GGTAATTTGT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 3 0.09
20 10 0.31
21 2 0.06
22 15 0.47
23 2 0.06
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (22 bp):
TTCGAGCATGATGATTAAATCC
Found at i:111127 original size:135 final size:135
Alignment explanation
Indices: 110965--111241 Score: 428
Period size: 135 Copynumber: 2.1 Consensus size: 135
110955 GCATTATGAT
* * * * *
110965 TTCGAGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATTAGTAAGTGCCATCAAT
1 TTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTAAAACAAATCCATCAGTAAGAGCCATCAAT
* * *
111030 AAGTCTTTCGAGTATGATGATGAAATCCTTCGGGTCATTAGTAAGTCTTTCGAGCATGATGATTA
66 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
111095 AATCC
131 AATCC
* * *
111100 TTCGGGTAATTTGTTAGCCTTCACCGAAGAGTAGTAAAACAAATCCATCAGTAAGAGCCATTAGT
1 TTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTAAAACAAATCCATCAGTAAGAGCCATCAAT
* *
111165 AAGTCTTTCGAGCATTATGATGAAATCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
66 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
111230 AATCC
131 AATCC
*
111235 TGCGGGT
1 TTCGGGT
111242 CATTGGTGAG
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 128 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (135 bp):
TTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTAAAACAAATCCATCAGTAAGAGCCATCAAT
AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
AATCC
Found at i:114415 original size:5 final size:5
Alignment explanation
Indices: 114393--114509 Score: 98
Period size: 5 Copynumber: 22.8 Consensus size: 5
114383 TGTTCAGAGA
* * * *
114393 AAAAT AAAAT TAATT AAAAT AAAAT -AAAT AGAAT GAAAAT AAAGTTT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA--AT
*
114440 GCGAAA- AAA-T AAAAT AAAAAT AAACA- AAAAT AAAAT AAAAT AAAAT
1 --AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT
114486 AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA
114510 AATAGAACGA
Statistics
Matches: 91, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
4 10 0.11
5 68 0.75
6 10 0.11
7 1 0.01
9 2 0.02
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:120143 original size:16 final size:15
Alignment explanation
Indices: 120096--120148 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
120086 AATTAAATAA
*
120096 AATAAATAATAAAAA
1 AATAAATAATAAAAT
*
120111 AGAAAAATAATAAAAT
1 A-ATAAATAATAAAAT
*
120127 AATAAATAATAGTAAT
1 AATAAATAATA-AAAT
120143 AATAAA
1 AATAAA
120149 GATAAAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 10 0.31
16 22 0.69
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (15 bp):
AATAAATAATAAAAT
Found at i:120936 original size:19 final size:19
Alignment explanation
Indices: 120914--121013 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 19
120904 AATAAATATC
120914 CTAAAACTTAATTAAAATA
1 CTAAAACTTAATTAAAATA
* *
120933 CTAAAAC-TATTTAAACTA
1 CTAAAACTTAATTAAAATA
* *
120951 --AAATACCTAA-AATAAATA
1 CTAAA-ACTTAATTA-AAATA
*
120969 -TAAAA-TATAA-AAATAATA
1 CTAAAACT-TAATTAA-AATA
120987 CCTAAAACTTAATTAAAATA
1 -CTAAAACTTAATTAAAATA
121007 CTAAAAC
1 CTAAAAC
121014 CTATTTAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
16 3 0.05
17 4 0.06
18 25 0.39
19 17 0.27
20 12 0.19
21 3 0.05
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (19 bp):
CTAAAACTTAATTAAAATA
Found at i:120989 original size:31 final size:32
Alignment explanation
Indices: 120952--121012 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
120942 TTTAAACTAA
120952 AATACCTAAAA-TAAATATAAAATA-TAAAAAT
1 AATACCTAAAACTAAAT-TAAAATACTAAAAAT
*
120983 AATACCTAAAACTTAATTAAAATACTAAAA
1 AATACCTAAAACTAAATTAAAATACTAAAA
121013 CCTATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (32 bp):
AATACCTAAAACTAAATTAAAATACTAAAAAT
Found at i:121021 original size:19 final size:20
Alignment explanation
Indices: 120983--121022 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
120973 ATATAAAAAT
*
120983 AATACCTAAAACTTAATTAA
1 AATACCTAAAACCTAATTAA
*
121003 AATA-CTAAAACCTATTTAA
1 AATACCTAAAACCTAATTAA
121022 A
1 A
121023 CTAAAATACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
AATACCTAAAACCTAATTAA
Found at i:121053 original size:75 final size:74
Alignment explanation
Indices: 120848--121053 Score: 326
Period size: 74 Copynumber: 2.8 Consensus size: 74
120838 TCTTAAATCC
* * *
120848 TAATTAAAACACTTAAAACTATTCAAACTAAAATACCTAAAACAAAGAT-AAATATAAATAAATA
1 TAATTAAAATAC-TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAAAATA
120912 TCCTAAAACT
65 TCCTAAAACT
* *
120922 TAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAATAAATATAAAATATAAAAATAATA
1 TAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAA-AATA
120987 -CCTAAAACT
65 TCCTAAAACT
120996 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
121054 TATTTAAAAT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
73 33 0.27
74 47 0.39
75 42 0.34
ACGTcount: A:0.60, C:0.13, G:0.01, T:0.27
Consensus pattern (74 bp):
TAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAAAATAT
CCTAAAACT
Found at i:121960 original size:6 final size:6
Alignment explanation
Indices: 121943--121989 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
121933 GATCAATATT
*
121943 TTTGCA TCTGCA TTTGCA TCTTTGCA TTTTGCA TTTGCA TTT-CA TTT
1 TTTGCA TTTGCA TTTGCA --TTTGCA -TTTGCA TTTGCA TTTGCA TTT
121990 TTAAGCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 5 0.14
6 19 0.53
7 6 0.17
8 6 0.17
ACGTcount: A:0.15, C:0.19, G:0.13, T:0.53
Consensus pattern (6 bp):
TTTGCA
Found at i:121977 original size:21 final size:20
Alignment explanation
Indices: 121943--121982 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
121933 GATCAATATT
121943 TTTGCATCTGCATTTGCATC
1 TTTGCATCTGCATTTGCATC
*
121963 TTTGCATTTTGCATTTGCAT
1 TTTGCA-TCTGCATTTGCAT
121983 TTCATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTGCATCTGCATTTGCATC
Found at i:123541 original size:36 final size:35
Alignment explanation
Indices: 123472--123548 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
123462 AAAAGAAGAA
123472 AAGA-AAAATCAAAGAAAAAAAACAAAGACAAAAG
1 AAGACAAAATCAAAGAAAAAAAACAAAGACAAAAG
* *
123506 AAGACAAAATCAAA-AGAAAAAGCAAAGAGCAAAAAG
1 AAGACAAAATCAAAGAAAAAAAACAAAGA-C-AAAAG
*
123542 AAAACAA
1 AAGACAA
123549 GAAGCACATG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 16 0.43
35 10 0.27
36 11 0.30
ACGTcount: A:0.74, C:0.10, G:0.13, T:0.03
Consensus pattern (35 bp):
AAGACAAAATCAAAGAAAAAAAACAAAGACAAAAG
Found at i:124550 original size:32 final size:32
Alignment explanation
Indices: 124500--124562 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
124490 AAGAACGATA
* *
124500 AATGATGGAGCATCTTTGGTGATTCAACATCG
1 AATGATGGAGCATCTTTGGGGATACAACATCG
* *
124532 AATGTTGGGGCATCTTTGGGGATACAACATC
1 AATGATGGAGCATCTTTGGGGATACAACATC
124563 CTGATGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (32 bp):
AATGATGGAGCATCTTTGGGGATACAACATCG
Found at i:124852 original size:15 final size:15
Alignment explanation
Indices: 124832--124863 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
124822 TTTTGTCTCT
124832 CTTGAGACAGTATCC
1 CTTGAGACAGTATCC
*
124847 CTTGAGACATTATCC
1 CTTGAGACAGTATCC
124862 CT
1 CT
124864 AAAGATAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (15 bp):
CTTGAGACAGTATCC
Found at i:125191 original size:129 final size:128
Alignment explanation
Indices: 124858--125343 Score: 419
Period size: 133 Copynumber: 3.7 Consensus size: 128
124848 TTGAGACATT
* * *
124858 ATCCCTAAAGATAGCATGTCGTCCTCATCACGTAGGAACCGTGTCAT-TCCCCGACCAAACATCC
1 ATCCCTAAAGATGGC-TGTCATCCTCATCACGTAGGAACCGTGTCATCT-CCCGACCAAACCTCC
* *
124922 TCATCACGTAGGAG-CTGTGTCACCTCTGATAACCAG-CTGTCCTTATAACGTAGGAACCGTGTT
64 TCATCACGTAGGAGTC-GTGTCACC-CTGATAACCAGTC-GTCCTCATAACGTAGGAACTGTGTT
124985 ATC
126 ATC
* * * * * *
124988 ACCTTCCCTAAAGATGACCTGCCATCCTCATCACATAGAAACCGTGTCATC-CCCTAACCATACC
1 A---TCCCTAAAGATG-GCTGTCATCCTCATCACGTAGGAACCGTGTCATCTCCC-GACCAAACC
* *
125052 TCCTTATCACGTAGGAGTCGTGTCACCCTGATAACTAGTCGTCCTCATAACGTAGGAACTGTGTT
61 TCCTCATCACGTAGGAGTCGTGTCACCCTGATAACCAGTCGTCCTCATAACGTAGGAACTGTGTT
125117 ATC
126 ATC
* * * * *
125120 ATCCCTAAAGATGGTCTGTCATCCTTATCACGTAGGAACC-TCGTCATCTACGGACCAGACCTTC
1 ATCCCTAAAGATGG-CTGTCATCCTCATCACGTAGGAACCGT-GTCATCTCCCGACCAAACCTCC
* * ** *
125184 TCATCACGTAGGAGTCGTGTCACCCCTAGATAACCAATCGTCTTCATCGCGTAGGAATTGTGTTA
64 TCATCACGTAGGAGTCGTGTCA-CCCT-GATAACCAGTCGTCCTCATAACGTAGGAACTGTGTTA
125249 TCGCC
127 T---C
* * * * * * * * * * *
125254 CTTCCTAAAGATGGCCAG-AACTCTTCATCACGTATGAGCCTTGTCATC-CACCGACCAGATCAC
1 ATCCCTAAAGATGG-CTGTCA-TCCTCATCACGTAGGAACCGTGTCATCTC-CCGACCAAACCTC
* *
125317 CTCATCACGTAGGAGCCATGTCACCCT
63 CTCATCACGTAGGAGTCGTGTCACCCT
125344 TAGACGACTA
Statistics
Matches: 291, Mismatches: 46, Indels: 35
0.78 0.12 0.09
Matches are distributed among these distances:
128 1 0.00
129 69 0.24
130 6 0.02
131 32 0.11
132 40 0.14
133 74 0.25
134 68 0.23
135 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (128 bp):
ATCCCTAAAGATGGCTGTCATCCTCATCACGTAGGAACCGTGTCATCTCCCGACCAAACCTCCTC
ATCACGTAGGAGTCGTGTCACCCTGATAACCAGTCGTCCTCATAACGTAGGAACTGTGTTATC
Found at i:125310 original size:134 final size:131
Alignment explanation
Indices: 124879--125347 Score: 377
Period size: 134 Copynumber: 3.6 Consensus size: 131
124869 TAGCATGTCG
* *
124879 TCCTCATCACGTAGGAACCGT-GTCATTCC-CCGACCA-AACATCCTCATCACGTAGGAG-CTGT
1 TCCTTATCACGTAGGAACC-TCGTCA-TCCACCGACCAGACCA-CCTCATCACGTAGGAGTC-GT
* * * *
124940 GTCACCTCT-GATAACC-AGCTGTCCTTATAACGTAGGAACCGTGTTATCACCTTCCCTAAAGAT
62 GTCACCCCTAGATAACCAATC-GTCCTCATAACGTAGGAACTGTGTTATCA---TCCCTAAAGAT
* * *
125003 GACCTGCCA
123 GGCCAGACA
* * * * * * *
125012 TCCTCATCACATAGAAACCGT-GTCATCC-CCTAACCATACCTCCTTATCACGTAGGAGTCGTGT
1 TCCTTATCACGTAGGAACC-TCGTCATCCACC-GACCAGACCACCTCATCACGTAGGAGTCGTGT
* * * *
125075 CA-CCCT-GATAACTAGTCGTCCTCATAACGTAGGAACTGTGTTATCATCCCTAAAGATGGTCTG
64 CACCCCTAGATAACCAATCGTCCTCATAACGTAGGAACTGTGTTATCATCCCTAAAGATGGCCAG
*
125138 TCA
129 ACA
* * **
125141 TCCTTATCACGTAGGAACCTCGTCATCTACGGACCAGACCTTCTCATCACGTAGGAGTCGTGTCA
1 TCCTTATCACGTAGGAACCTCGTCATCCACCGACCAGACCACCTCATCACGTAGGAGTCGTGTCA
* ** * * *
125206 CCCCTAGATAACCAATCGTCTTCATCGCGTAGGAATTGTGTTATCGCCCTTCCTAAAGATGGCCA
66 CCCCTAGATAACCAATCGTCCTCATAACGTAGGAACTGTGTTAT---CATCCCTAAAGATGGCCA
125271 GA-A
128 GACA
* * * * * *
125274 -CTCTTCATCACGTATGAGCCTTGTCATCCACCGACCAGATCACCTCATCACGTAGGAGCCATGT
1 TC-CTT-ATCACGTAGGAACCTCGTCATCCACCGACCAGACCACCTCATCACGTAGGAGTCGTGT
*
125338 CACCCTTAGA
64 CACCCCTAGA
125348 CGACTAGACC
Statistics
Matches: 277, Mismatches: 46, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
128 1 0.00
129 69 0.25
130 5 0.02
131 32 0.12
132 42 0.15
133 53 0.19
134 75 0.27
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (131 bp):
TCCTTATCACGTAGGAACCTCGTCATCCACCGACCAGACCACCTCATCACGTAGGAGTCGTGTCA
CCCCTAGATAACCAATCGTCCTCATAACGTAGGAACTGTGTTATCATCCCTAAAGATGGCCAGAC
A
Found at i:125555 original size:17 final size:17
Alignment explanation
Indices: 125533--125579 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
125523 GGTCTACCAA
125533 AAATATTATTATATTAT
1 AAATATTATTATATTAT
125550 AAATATTAATT-TATTAT
1 AAATATT-ATTATATTAT
125567 ---TATTATTATATTA
1 AAATATTATTATATTA
125580 ATACAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.11
14 9 0.32
17 13 0.46
18 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATTATTATATTAT
Found at i:125563 original size:22 final size:22
Alignment explanation
Indices: 125538--125581 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
125528 ACCAAAAATA
125538 TTATTA-TATTATAAATATTAAT
1 TTATTATTATTAT-AATATTAAT
*
125560 TTATTATTATTATTATATTAAT
1 TTATTATTATTATAATATTAAT
125582 ACAAATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTATTATTATAATATTAAT
Found at i:126170 original size:22 final size:20
Alignment explanation
Indices: 126131--126171 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
126121 AAGGAAAGAA
126131 ACAGAAGAAAAAAAGAAAAT
1 ACAGAAGAAAAAAAGAAAAT
126151 ACAGAGAGAAAAGAAAGAAAA
1 ACAGA-AGAAAA-AAAGAAAA
126172 ACGAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (20 bp):
ACAGAAGAAAAAAAGAAAAT
Found at i:130352 original size:29 final size:29
Alignment explanation
Indices: 130314--130372 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
130304 AGCTGTTAGA
*
130314 AAAATTATTTTAGAATCTAAATCATTGTT
1 AAAATTATTTTAGAATCTAAATAATTGTT
* *
130343 AAAATTATTTTAGGATCTAGATAATTGTT
1 AAAATTATTTTAGAATCTAAATAATTGTT
130372 A
1 A
130373 TAATATATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (29 bp):
AAAATTATTTTAGAATCTAAATAATTGTT
Found at i:131450 original size:4 final size:4
Alignment explanation
Indices: 131441--131472 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
131431 TAATATATGT
*
131441 ATAA ATAA ATAA ATAA ATAA ATAA ATAC ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
131473 TTGAATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:131512 original size:16 final size:16
Alignment explanation
Indices: 131491--131522 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
131481 TCTTCCTATG
131491 TAATATTTATATGATT
1 TAATATTTATATGATT
131507 TAATATTTATATGATT
1 TAATATTTATATGATT
131523 AAACAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATATTTATATGATT
Found at i:135735 original size:18 final size:19
Alignment explanation
Indices: 135707--135747 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
135697 TATGGATATG
135707 TTGTGAGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
135726 TTGT-AGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
135744 TTGT
1 TTGT
135748 TATCTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (19 bp):
TTGTGAGTTCTAGAATAGT
Found at i:138905 original size:48 final size:48
Alignment explanation
Indices: 138816--138920 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
138806 GCTGCTTGTG
* * * *
138816 ATAATGCACATGGGGCCACCTCATTTGGAAATACACCAAGTGATTTTC
1 ATAATGCGCATGGGGCCACATCATTTGGAAATACACAAAGTGACTTTC
* * * * *
138864 ATAATGCGCATGGGGCCATATCTTTTGGACATACGA-AAAGTGGCTTTG
1 ATAATGCGCATGGGGCCACATCATTTGGAAATAC-ACAAAGTGACTTTC
138912 ATAATGCGC
1 ATAATGCGC
138921 CTGGAGGTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAATGCGCATGGGGCCACATCATTTGGAAATACACAAAGTGACTTTC
Found at i:139138 original size:45 final size:45
Alignment explanation
Indices: 139048--139148 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
139038 CATCGGTCCA
* ** * * * *
139048 TGGAGCTATGTCCGACCGTGATGATGTGCTTGGGACCATGGCTTT
1 TGGAGCTATGGCCGACCACGATAATGTGCTTGAGACCACGCCTTT
139093 TGGAGCTATGGCCGACCACGATAATGTGCTTGA-AGCCACGCCTTT
1 TGGAGCTATGGCCGACCACGATAATGTGCTTGAGA-CCACGCCTTT
*
139138 TGGAGCAATGG
1 TGGAGCTATGG
139149 TTGACCATGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (45 bp):
TGGAGCTATGGCCGACCACGATAATGTGCTTGAGACCACGCCTTT
Found at i:140961 original size:18 final size:19
Alignment explanation
Indices: 140933--140973 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
140923 TATGGATATG
140933 TTGTGAGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
140952 TTGT-AGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
140970 TTGT
1 TTGT
140974 TATCTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (19 bp):
TTGTGAGTTCTAGAATAGT
Found at i:141528 original size:3 final size:3
Alignment explanation
Indices: 141520--141908 Score: 318
Period size: 3 Copynumber: 128.0 Consensus size: 3
141510 TATTCTAGTA
141520 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * ** *
141566 CAT TAT TAT CTAT TTT TAT TGT TAT TAT TGC TAT TAT TAT TAT TAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
141612 TAT TAT TATT TATT TATT TGT TAT TATT TAGT T-T TAT TAT T-T CAT
1 TAT TAT TA-T TA-T TA-T TAT TAT TA-T TA-T TAT TAT TAT TAT TAT
* *
141657 TAG TATT TAT T-T TAT ATAT TAA TAT ATAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * *
141704 TAT TAT TAT TAT TAT TATT TAT CAT TAT TAT CTAT TTT TAT TGT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
** *
141751 TAT TGC TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT T-T GT-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * *
141795 TAT TA- TGT TAT TTT TAT TAG TAT T-T TAGT T-T TAT TAA T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* *
141836 TATT TAT TAT TAT T-T ATAT TAT T-T CAT TAT TATT TAA TAT T-T TAT
1 TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
*
141881 TAT TAT TAT TCT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT
141909 ATCATTTACA
Statistics
Matches: 312, Mismatches: 47, Indels: 54
0.76 0.11 0.13
Matches are distributed among these distances:
2 19 0.06
3 247 0.79
4 46 0.15
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:141870 original size:51 final size:51
Alignment explanation
Indices: 141648--141914 Score: 161
Period size: 53 Copynumber: 5.2 Consensus size: 51
141638 TTTAGTTTTA
*
141648 TTATTTCATTAGTATTTATTTTATATATTAATATATATTATTATTATTA-TTATTA
1 TTATTTCATTAGTATTTATATT-T-TATTAATAT-TATT-TTATTATTATTTA-TA
* * *
141703 TTA-TT-ATTATTA-TTATTATTTATCATTATTATCTATTTTTATTGTTA-TTAT-
1 TTATTTCATTAGTATTTA-TATTT-T-ATTAATAT-TA-TTTTATTATTATTTATA
* * * *
141754 TGCTA-TT-ATTATTATTAATATTATTATTATTATT-TGTTTATTATTATGT-TA
1 T--TATTTCATTAGTATTTATATT-TTATTAATATTAT-TTTATTATTATTTATA
141805 TT-TTT-ATTAGTATTT-TAGTTTTATTAAT-TTATATTTATTATTATTTATA
1 TTATTTCATTAGTATTTATA-TTTTATTAATATTAT-TTTATTATTATTTATA
* *
141854 TTATTTCATTATTATTTAATATTTTATTATTATTATTCTTATTATTA-TTA-A
1 TTATTTCATTAGTATTT-ATATTTTATTAATATTATT-TTATTATTATTTATA
*
141905 TTATATCATT
1 TTATTTCATT
141915 TACAATATAT
Statistics
Matches: 176, Mismatches: 16, Indels: 44
0.75 0.07 0.19
Matches are distributed among these distances:
47 2 0.01
48 22 0.12
49 18 0.10
50 13 0.07
51 23 0.13
52 28 0.16
53 60 0.34
54 7 0.04
55 3 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (51 bp):
TTATTTCATTAGTATTTATATTTTATTAATATTATTTTATTATTATTTATA
Found at i:142631 original size:30 final size:28
Alignment explanation
Indices: 142577--142656 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 28
142567 GGGTGACTGG
*
142577 AAATTAAATTTAAAAAGTCT-AGGGA-TCA
1 AAATTAAATTTTAAAAGT-TAAGGGACT-A
142605 AAATGTAAATTTGTAAAAGTTAAGGGACTA
1 AAAT-TAAATTT-TAAAAGTTAAGGGACTA
142635 AAATATAAATTTTCAAAAGTTA
1 AAAT-TAAATTTT-AAAAGTTA
142657 TATTTTGGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 4 0.09
29 9 0.20
30 31 0.69
31 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (28 bp):
AAATTAAATTTTAAAAGTTAAGGGACTA
Found at i:152661 original size:85 final size:84
Alignment explanation
Indices: 152531--152700 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 84
152521 TTATAGATTG
* *
152531 ATCAATAAATTTATTAAACTATTATAAAATAATCACCAAGACGTTACACAGTGATCACTAAATTT
1 ATCAATAAATTTATTAAACTATTATAAAATAATCACCAAGACGTTACAAAATGATCACTAAATTT
**
152596 ATTAAATTGTTATAAAATA
66 ATTAAATTGCCATAAAATA
* * * * * * *
152615 ATCATTAAATTTTATTGAACTATTATAAAATGATTACCACA-ACGTTAGAAAATTATCATTAAAT
1 ATCAATAAA-TTTATTAAACTATTATAAAATAATCACCA-AGACGTTACAAAATGATCACTAAAT
*
152679 TTATTGAATTGCCATAAAATA
64 TTATTAAATTGCCATAAAATA
152700 A
1 A
152701 AATGTCGTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 8 0.11
85 63 0.88
86 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (84 bp):
ATCAATAAATTTATTAAACTATTATAAAATAATCACCAAGACGTTACAAAATGATCACTAAATTT
ATTAAATTGCCATAAAATA
Found at i:154291 original size:31 final size:33
Alignment explanation
Indices: 154256--154320 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
154246 ATTATTTTGA
*
154256 TTATTAAATTTTTA-AAAA-ATTATTATTAAAT
1 TTATTAAATTATTACAAAAGATTATTATTAAAT
*
154287 TTATTGAATTATTACAAAATGATTATTATTAAAT
1 TTATTAAATTATTACAAAA-GATTATTATTAAAT
154321 CTTTATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.41
32 4 0.14
34 13 0.45
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (33 bp):
TTATTAAATTATTACAAAAGATTATTATTAAAT
Found at i:155718 original size:209 final size:212
Alignment explanation
Indices: 155358--155780 Score: 825
Period size: 209 Copynumber: 2.0 Consensus size: 212
155348 TCCAAATTCT
155358 AACACTAACCTGTCGCCGTCGTAGTCCTGGTCATCATCCTAGTTATAAGTCGTCGATTGGTCGTC
1 AACACTAACCTGTCGCCGTCGTAGTCCTGGTCATCATCCTAGTTATAAGTCGTCGATTGGTCGTC
155423 GAAATCGCCTGGGATTGCAATTTTCATCCTAGGGTTCGTGGGGTATAAAACGTCGATTCGTTGTC
66 GAAATCGCCTGGGATTGCAATTTTCATCCTAGGGTTCGTGGGGTATAAAACGTCGATTCGTTGTC
155488 GATCAACCGTTGGTCAGTCACGATTTCACATGGGTTTTGGTCGTCTA-GGGAGATGAGG-C-GGT
131 GATCAACCGTTGGTCAGTCACGATTTCACATGGGTTTTGGTCGTCTAGGGGAGATGAGGTCGGGT
155550 GGAGCTTTGTCGATGGC
196 GGAGCTTTGTCGATGGC
155567 AACACTAACCTGTCGCCGTCGTAGTCCTGGTCATCATCCTAGTTATAAGTCGTCGATTGGTCGTC
1 AACACTAACCTGTCGCCGTCGTAGTCCTGGTCATCATCCTAGTTATAAGTCGTCGATTGGTCGTC
155632 GAAATCGCCTGGGATTGCAATTTTCATCCTAGGGTTCGTGGGGTATAAAACGTCGATTCGTTGTC
66 GAAATCGCCTGGGATTGCAATTTTCATCCTAGGGTTCGTGGGGTATAAAACGTCGATTCGTTGTC
155697 GATCAACCGTTGGTCAGTCACGATTTCACATGGGTTTTGGTCGTCTAGGGGAGATGAGGTCGGGT
131 GATCAACCGTTGGTCAGTCACGATTTCACATGGGTTTTGGTCGTCTAGGGGAGATGAGGTCGGGT
155762 GGAGCTTTGTCGATGGC
196 GGAGCTTTGTCGATGGC
155779 AA
1 AA
155781 AGGGTGACAG
Statistics
Matches: 211, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
209 177 0.84
210 11 0.05
211 1 0.00
212 22 0.10
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (212 bp):
AACACTAACCTGTCGCCGTCGTAGTCCTGGTCATCATCCTAGTTATAAGTCGTCGATTGGTCGTC
GAAATCGCCTGGGATTGCAATTTTCATCCTAGGGTTCGTGGGGTATAAAACGTCGATTCGTTGTC
GATCAACCGTTGGTCAGTCACGATTTCACATGGGTTTTGGTCGTCTAGGGGAGATGAGGTCGGGT
GGAGCTTTGTCGATGGC
Found at i:157089 original size:3 final size:3
Alignment explanation
Indices: 157083--157135 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
157073 ATTTTAAAAT
*
157083 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
*
157130 ATA TTA
1 TTA TTA
157136 CAAAACCCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:158219 original size:14 final size:15
Alignment explanation
Indices: 158202--158235 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
158192 CTAGTATTAT
158202 TTTATATAA-ATATA
1 TTTATATAATATATA
*
158216 TTTATATAATATTTA
1 TTTATATAATATATA
158231 TTTAT
1 TTTAT
158236 TTATTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATAATATATA
Found at i:160728 original size:15 final size:15
Alignment explanation
Indices: 160692--160730 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
160682 AATTTACATT
160692 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
160706 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
160721 TTTGCATTTG
1 TTTACATTTG
160731 TATTGCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:166364 original size:91 final size:90
Alignment explanation
Indices: 166248--166536 Score: 373
Period size: 94 Copynumber: 3.1 Consensus size: 90
166238 AACAAGTGCC
* *
166248 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCATCTAGTTTGGTATGAACCCCAAA
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCATCTGGTTTGGTATGAACCACAAA
* *
166313 ACCCCATCATTGGACTTGAAAGATGA
66 A-CCAATCATTGGAATTGAAAGATGA
* * *
166339 GTGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTATGAACAACA
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA--TCATCTGGTTTGGTATGAACCAC-
* *
166404 AAAACCAATCATTGGATTTAGAAATATGA
63 AAAACCAATCATTGGAATT-GAAAGATGA
** *
166433 ATACGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCAC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC--ATCTGGTTTGGTATG-AACCAC
*
166498 AGAACCAATCATT-GAATTGAAAGATGA
63 AAAACCAATCATTGGAATTGAAAGATGA
*
166525 ATGTGATCATAG
1 ATGTGCTCATAG
166537 TAGAAATAAG
Statistics
Matches: 171, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
91 38 0.22
92 18 0.11
93 36 0.21
94 74 0.43
95 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (90 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCATCTGGTTTGGTATGAACCACAAA
ACCAATCATTGGAATTGAAAGATGA
Found at i:168941 original size:50 final size:53
Alignment explanation
Indices: 168761--168961 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 53
168751 AGAAATCTTG
* * * ** *
168761 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAACCACAGAAAA-GATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
* *
168815 GCAAAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCAC-AGAAAAGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
* * * *
168869 GCAGAAGCCACAGAAAAGGATGAATGGGTTGTCAAGTGTTTTAC-ATC-TC-GA
1 GCAGAAACCACAGAAAA-GATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
*
168920 -CAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTA
1 GCAGAAACCACA-GAAAAGATGAATGTGTTGTCAAATGTTTTA
168962 TGAACCAGTG
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
50 32 0.25
51 7 0.06
52 2 0.02
53 7 0.06
54 73 0.58
55 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (53 bp):
GCAGAAACCACAGAAAAGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
Found at i:169335 original size:22 final size:22
Alignment explanation
Indices: 169306--169360 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
169296 ATCTACACTC
*
169306 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
169328 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
169350 TTCAAAGATGA
1 TTCAAAGATGA
169361 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:169959 original size:113 final size:113
Alignment explanation
Indices: 169761--171554 Score: 3426
Period size: 113 Copynumber: 15.9 Consensus size: 113
169751 TAGCAAAGAT
* *
169761 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAATTTCATAATGAGAATAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
169826 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
169874 TCAAATCCGTCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
169939 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
169987 TCAAATCCATCATCTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAAATCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
170052 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
170100 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
170165 AGAAGGAATAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
170213 TCAAATCCATCATCTGATGGATCAGCTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
170278 AGAAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
170326 TCAAATCCATCATCTGGTGGATCAGCTTTTCCATAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
170391 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
170439 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
170504 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
170552 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
170617 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
170665 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
170730 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
170778 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
170843 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
170891 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
170956 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
171004 TCAAATCCATCATCTGATGGATCAGCTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
171069 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
171117 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
171182 AGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
171230 TCAAATCCATCATTTGATGGATCAGCTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
171295 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
171343 TCAAATCCATCATCTGATGGATCGGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
171408 AGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
171456 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
171521 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
171555 AGTCCCTATT
Statistics
Matches: 1647, Mismatches: 34, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 1647 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:170079 original size:24 final size:23
Alignment explanation
Indices: 170036--170080 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
170026 GTTCATAATG
*
170036 AGAAGAAATCATCTGAAGAAGGA
1 AGAAGAAATCATATGAAGAAGGA
170059 AGAAGAAATTCATAATG-AGAAG
1 AGAAGAAA-TCAT-ATGAAGAAG
170081 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 9 0.47
25 2 0.11
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.16
Consensus pattern (23 bp):
AGAAGAAATCATATGAAGAAGGA
Found at i:171648 original size:14 final size:15
Alignment explanation
Indices: 171631--171664 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
171621 CTAGTATTAT
171631 TTTATATAA-ATATA
1 TTTATATAATATATA
*
171645 TTTATATAATATTTA
1 TTTATATAATATATA
171660 TTTAT
1 TTTAT
171665 TTATTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATAATATATA
Found at i:187173 original size:40 final size:40
Alignment explanation
Indices: 187118--187239 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
187108 TGCAGGTTTA
*
187118 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
187158 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
187198 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
187238 TA
1 TA
187240 GCACTACGGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:187416 original size:50 final size:44
Alignment explanation
Indices: 187342--187465 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 44
187332 GTAACCATGC
* *
187342 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAAATA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTG-----ATA
* *
187391 ATAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGATA
1 A-AATAAGCTTACGAGCTTATGGAA--T-AATGGCAAGTATATTGATA
*
187439 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
187466 ATGGTAAGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
44 2 0.03
45 1 0.02
47 22 0.33
48 4 0.06
49 1 0.02
50 21 0.32
52 1 0.02
53 14 0.21
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
Found at i:191443 original size:40 final size:40
Alignment explanation
Indices: 191388--191509 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
191378 TGCAGGTTTA
*
191388 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
191428 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
191468 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
191508 TA
1 TA
191510 GCACTACGGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:195599 original size:2 final size:2
Alignment explanation
Indices: 195592--195641 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
195582 TCTTATACAA
195592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
195634 AT AT AT AT
1 AT AT AT AT
195642 TTTTATTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:197986 original size:3 final size:3
Alignment explanation
Indices: 197978--198460 Score: 713
Period size: 3 Copynumber: 163.7 Consensus size: 3
197968 CTCCAACGGA
197978 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
198026 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
198074 CTT CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
198120 CTT CTT -TT CTCT CTT CTT CTT CTTT CTT -TT CTT CTT C-T CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT
* * *
198164 C-T CTT CTT CTT CCT CTT CTT CTT CTT CCT CTT CTT CCT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
198210 C-T CTT CTT CTT CTT CTT -TT C-T CTT CTT CCT CTT CTT CTT C-T CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
198254 CTT CCTT CTT CTT C-T CTT CTT CTTT CTT C-T CTT CTT CCT CTT C-T
1 CTT -CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT
* * * *
198298 CTT CTT CCT CTT CTT CTT CCT CTT CTT CCT CTT CTT CTT CCT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
198346 CCT CTT CTT CTT CTT CTT CCT C-T CTT CTT CCT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
198393 CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
198441 CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CT
198461 GTGTTGCTTC
Statistics
Matches: 437, Mismatches: 25, Indels: 36
0.88 0.05 0.07
Matches are distributed among these distances:
2 26 0.06
3 396 0.91
4 15 0.03
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:202079 original size:12 final size:12
Alignment explanation
Indices: 202064--202110 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
202054 CCGGTTTTTT
*
202064 AACCGGATAAAA
1 AACCGGTTAAAA
202076 AACCGGTTTGAAAAA
1 AACCGG-TT--AAAA
202091 AACCGGTTAAAA
1 AACCGGTTAAAA
202103 AACCGGTT
1 AACCGGTT
202111 TTTATCCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 18 0.58
13 1 0.03
14 2 0.06
15 10 0.32
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (12 bp):
AACCGGTTAAAA
Found at i:202563 original size:21 final size:21
Alignment explanation
Indices: 202539--202578 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
202529 TTTATTTTAT
202539 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
202560 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
202579 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:202626 original size:33 final size:33
Alignment explanation
Indices: 202573--202671 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
202563 TTTGTTTCAA
202573 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
202605 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
202638 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
202671 T
1 T
202672 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:202700 original size:13 final size:13
Alignment explanation
Indices: 202657--202711 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
202647 TTGGAAGTAT
202657 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
202670 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
202684 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
202697 TTAAGTATTTGAA
1 TTAAGTATTTCAA
202710 TT
1 TT
202712 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:203133 original size:15 final size:15
Alignment explanation
Indices: 203108--203160 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
203098 ATCTGGAATA
*
203108 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
203123 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
203138 TAAAAAACCGGTTTTT
1 T-TAAAACCGGTTTTT
203154 TTAAAAC
1 TTAAAAC
203161 TGAAACCGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:203146 original size:16 final size:17
Alignment explanation
Indices: 203110--203159 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
203100 CTGGAATATT
*
203110 AAAATCGGTTTTTTT--
1 AAAACCGGTTTTTTTAA
*
203125 ATAACCGG-TTTTTTAA
1 AAAACCGGTTTTTTTAA
203141 AAAACCGGTTTTTTTAA
1 AAAACCGGTTTTTTTAA
203158 AA
1 AA
203160 CTGAAACCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 7 0.24
17 10 0.34
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (17 bp):
AAAACCGGTTTTTTTAA
Found at i:207658 original size:41 final size:41
Alignment explanation
Indices: 207569--207658 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
207559 GCAAACATGA
*
207569 GAATAATAAATAAAACAAGAAAAAATGAAAAATAACAAAAT
1 GAATAAAAAATAAAACAAGAAAAAATGAAAAATAACAAAAT
* * *
207610 -ACGTAAAAAATAATAGAA-AAAATAAT-AAAAATAAACAAAAT
1 GA-ATAAAAAATAAAACAAGAAAA-AATGAAAAAT-AACAAAAT
207651 GAATAAAA
1 GAATAAAA
207659 TGTTAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
40 11 0.28
41 28 0.70
42 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (41 bp):
GAATAAAAAATAAAACAAGAAAAAATGAAAAATAACAAAAT
Found at i:207879 original size:18 final size:18
Alignment explanation
Indices: 207852--207912 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 18
207842 TGATATTAAG
207852 AAAA-AAAATAATAGAAA
1 AAAATAAAATAATAGAAA
*
207869 AAAATAAAATAA-AG-TA
1 AAAATAAAATAATAGAAA
* *
207885 AAAATATAATATATATAAA
1 AAAATAAAATA-ATAGAAA
*
207904 TAAATAAAA
1 AAAATAAAA
207913 ACAAAAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 11 0.32
17 7 0.21
18 8 0.24
19 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAATAAAATAATAGAAA
Done.