Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 25 of 186
Found at i:7328942 original size:27 final size:27
Alignment explanation
Indices: 7328862--7328928 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
7328852 AATTACAATA
* *
7328862 TTCATTAGCGTCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
7328889 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
7328916 TTCATTGGCGCCT
1 TTCATTGGCGCCT
7328929 ACCTGATAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:7328987 original size:11 final size:11
Alignment explanation
Indices: 7328971--7329014 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
7328961 ACCGTATTTT
7328971 TTAAAAAAATA
1 TTAAAAAAATA
7328982 TT-AAAAAATA
1 TTAAAAAAATA
7328992 -TAAAAAAA-A
1 TTAAAAAAATA
*
7329001 TTAAAAAATTA
1 TTAAAAAAATA
7329012 TTA
1 TTA
7329015 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 2 0.07
10 21 0.72
11 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:7334619 original size:30 final size:30
Alignment explanation
Indices: 7334583--7334642 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
7334573 AAGTTTACAA
7334583 GTCCAAAATCAAACTCATACCACATTTTAT
1 GTCCAAAATCAAACTCATACCACATTTTAT
* *
7334613 GTCCAAAATCGAACTCATGCCACATTTTAT
1 GTCCAAAATCAAACTCATACCACATTTTAT
7334643 ATAATCTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (30 bp):
GTCCAAAATCAAACTCATACCACATTTTAT
Found at i:7335657 original size:21 final size:21
Alignment explanation
Indices: 7335633--7335685 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
7335623 GGTTTAGACT
7335633 GTGTGACAG-GGGTACATGGCC
1 GTGTGACAGAGGG-ACATGGCC
* * *
7335654 GTGTGGCTGAGGGACATGTCC
1 GTGTGACAGAGGGACATGGCC
7335675 GTGTGAGCAGA
1 GTGTGA-CAGA
7335686 CTATATAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (21 bp):
GTGTGACAGAGGGACATGGCC
Found at i:7344846 original size:63 final size:63
Alignment explanation
Indices: 7344769--7344902 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 63
7344759 TGCAAGGGTG
* * *
7344769 ACACGAGTGAGACACACAGGCGTATGTCCAGGAC-GTGTAACTAACTAAGTTCATATTAGAGTC
1 ACACGGGTAAGACACACAGGCGTATGTCCAGG-CTGTGTAACTAACTAAGTTCATATTAGAGAC
* * * * * *
7344832 ACACGGGTAAGACACACGGGCGTGTGTCCAGGCTGTGTAACTCACTGAGTTTATATTTGAGAC
1 ACACGGGTAAGACACACAGGCGTATGTCCAGGCTGTGTAACTAACTAAGTTCATATTAGAGAC
*
7344895 ACATGGGT
1 ACACGGGT
7344903 GTGCACCAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (63 bp):
ACACGGGTAAGACACACAGGCGTATGTCCAGGCTGTGTAACTAACTAAGTTCATATTAGAGAC
Found at i:7347903 original size:17 final size:17
Alignment explanation
Indices: 7347878--7347928 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
7347868 ATTTATATTA
* *
7347878 ATATTTTAATGATAAAT
1 ATATATTAATAATAAAT
*
7347895 ATATATTAAAAATATAA-
1 ATATATTAATAATA-AAT
7347912 ATATATTAATAATAAAT
1 ATATATTAATAATAAAT
7347929 TTTTTAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 24 0.86
18 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATATTAATAATAAAT
Found at i:7348073 original size:21 final size:21
Alignment explanation
Indices: 7348049--7348088 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7348039 TTAGGTCCAA
*
7348049 TTGTTAATATTGTTAATTTTC
1 TTGTCAATATTGTTAATTTTC
* *
7348070 TTGTCAATTTTGTTTATTT
1 TTGTCAATATTGTTAATTT
7348089 GACATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (21 bp):
TTGTCAATATTGTTAATTTTC
Found at i:7349126 original size:5 final size:5
Alignment explanation
Indices: 7349116--7349145 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
7349106 ACTATTTAAA
7349116 GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT
7349146 AGTAGGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:7350523 original size:19 final size:19
Alignment explanation
Indices: 7350499--7350561 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
7350489 AAAAATTTAC
7350499 AAATATAATTCTATTTATT
1 AAATATAATTCTATTTATT
* *
7350518 AAATATTATT-AATATTATT
1 AAATATAATTCTAT-TTATT
*
7350537 AAAAATAATTCTATTTATT
1 AAATATAATTCTATTTATT
7350556 AAATAT
1 AAATAT
7350562 TATTTTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 2 0.06
19 32 0.89
20 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATAATTCTATTTATT
Found at i:7350580 original size:38 final size:38
Alignment explanation
Indices: 7350503--7350579 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
7350493 ATTTACAAAT
*
7350503 ATAATTCTATTTATTAAATATTATTAATATTATTAAAA
1 ATAATTCTATTTATTAAATATTATTAATATTAATAAAA
**
7350541 ATAATTCTATTTATTAAATATTATTTTTATTTAATAAAA
1 ATAATTCTATTTATTAAATATTATTAATA-TTAATAAAA
7350580 TGTTGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 27 0.77
39 8 0.23
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (38 bp):
ATAATTCTATTTATTAAATATTATTAATATTAATAAAA
Found at i:7351761 original size:14 final size:13
Alignment explanation
Indices: 7351740--7351770 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
7351730 TTTTTTGTTC
7351740 TTTCTCTTTTCTT
1 TTTCTCTTTTCTT
7351753 TTTCTTCTTTTCTT
1 TTTC-TCTTTTCTT
7351767 TTTC
1 TTTC
7351771 GCCATATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTCTTTTCTT
Found at i:7351770 original size:20 final size:20
Alignment explanation
Indices: 7351731--7351768 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7351721 TTGTTCCCTT
*
7351731 TTTTTGTTCTTTCTCTTTTC
1 TTTTTCTTCTTTCTCTTTTC
7351751 TTTTTCTTCTTT-TCTTTT
1 TTTTTCTTCTTTCTCTTTT
7351769 TCGCCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTCTTCTTTCTCTTTTC
Found at i:7360650 original size:85 final size:85
Alignment explanation
Indices: 7360507--7360676 Score: 322
Period size: 85 Copynumber: 2.0 Consensus size: 85
7360497 TTCTCTGGGT
*
7360507 CCAGCCCATTAGCTGGTTTCGATGGGTCTTCTGCTGGGTGGGAACATCACCACCAACACCCAGCG
1 CCAGCCCATTAGCTGGTTTCGATGGGTCATCTGCTGGGTGGGAACATCACCACCAACACCCAGCG
7360572 GAGATTGGAAGGTTCCAGAG
66 GAGATTGGAAGGTTCCAGAG
*
7360592 CCAGCTCATTAGCTGGTTTCGATGGGTCATCTGCTGGGTGGGAACATCACCACCAACACCCAGCG
1 CCAGCCCATTAGCTGGTTTCGATGGGTCATCTGCTGGGTGGGAACATCACCACCAACACCCAGCG
7360657 GAGATTGGAAGGTTCCAGAG
66 GAGATTGGAAGGTTCCAGAG
7360677 ATTGTTTGCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.21
Consensus pattern (85 bp):
CCAGCCCATTAGCTGGTTTCGATGGGTCATCTGCTGGGTGGGAACATCACCACCAACACCCAGCG
GAGATTGGAAGGTTCCAGAG
Found at i:7364644 original size:18 final size:19
Alignment explanation
Indices: 7364595--7364644 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
7364585 AAAAAATATT
*
7364595 AAATTAATATAAACCTATA
1 AAATTAATAAAAACCTATA
*
7364614 AAATTAATAAAAACTTATA
1 AAATTAATAAAAACCTATA
7364633 AATATT-ATAAAA
1 AA-ATTAATAAAA
7364645 GATATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTAATAAAAACCTATA
Found at i:7365765 original size:29 final size:29
Alignment explanation
Indices: 7365711--7365773 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
7365701 CCTAATGAGT
*
7365711 AATTTTATACATTAATTTTGATTTTG-TGC
1 AATTTTATACATAAATTTTGATTTTGAT-C
7365740 AATTTTATACATGAAATTTTGA-TTTGATC
1 AATTTTATACAT-AAATTTTGATTTTGATC
7365769 AATTT
1 AATTT
7365774 CTCACAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (29 bp):
AATTTTATACATAAATTTTGATTTTGATC
Found at i:7366068 original size:17 final size:17
Alignment explanation
Indices: 7366023--7366069 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
7366013 GTATAATTTT
* *
7366023 AAATTTATTTATTTTAA
1 AAATATATTAATTTTAA
*
7366040 AAATA-ATAAATTTTAA
1 AAATATATTAATTTTAA
7366056 AAATATATTAATTT
1 AAATATATTAATTT
7366070 ATAGTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATATTAATTTTAA
Found at i:7366488 original size:13 final size:15
Alignment explanation
Indices: 7366455--7366496 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
7366445 TTAAAATTTT
7366455 TATTT-TATTTTTAA
1 TATTTATATTTTTAA
7366469 TATTTATATTTTTAA
1 TATTTATATTTTTAA
*
7366484 -A-TTATAATTTTAA
1 TATTTATATTTTTAA
7366497 GAAGTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 6 0.23
15 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTATATTTTTAA
Found at i:7366488 original size:26 final size:28
Alignment explanation
Indices: 7366420--7366488 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
7366410 TTTTTTAAAT
*
7366420 TATTTTTAAATAATTTAATTAAATATTAA
1 TATTTTTAAATTATTT-ATTAAATATTAA
* ** *
7366449 AATTTTTATTTTATTT-TT-AATATTTA
1 TATTTTTAAATTATTTATTAAATATTAA
7366475 TATTTTTAAATTAT
1 TATTTTTAAATTAT
7366489 AATTTTAAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 18 0.56
27 2 0.06
29 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTTTTAAATTATTTATTAAATATTAA
Found at i:7366615 original size:19 final size:19
Alignment explanation
Indices: 7366591--7366640 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
7366581 AAAAAACTTT
7366591 TTTAATTTTAAATTCAAAA
1 TTTAATTTTAAATTCAAAA
7366610 TTTAATTTTAAATTCAAAA
1 TTTAATTTTAAATTCAAAA
* *
7366629 TATATTTTTAAA
1 TTTAATTTTAAA
7366641 ATTAAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAATTTTAAATTCAAAA
Found at i:7368159 original size:6 final size:6
Alignment explanation
Indices: 7368148--7368175 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7368138 GCATAAATAG
7368148 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
7368176 GACAGGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:7369639 original size:20 final size:21
Alignment explanation
Indices: 7369592--7369639 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
7369582 CCCTTATTTG
*
7369592 TTATT-TTAGTTATTTTATCA
1 TTATTATTAGTTATTTAATCA
*
7369612 TTA-AATTAGTTATTTAAT-A
1 TTATTATTAGTTATTTAATCA
7369631 TTATTATTA
1 TTATTATTA
7369640 CTATTATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAGTTATTTAATCA
Found at i:7369646 original size:12 final size:12
Alignment explanation
Indices: 7369629--7369662 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7369619 AGTTATTTAA
7369629 TATTATTATTAC
1 TATTATTATTAC
*
7369641 TATTATTACTAC
1 TATTATTATTAC
*
7369653 AATTATTATT
1 TATTATTATT
7369663 GTTATCCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:7369775 original size:16 final size:14
Alignment explanation
Indices: 7369746--7369793 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
7369736 ATTTCATTAT
*
7369746 TTTTATATTCTATAA
1 TTTTATATACTAT-A
7369761 TTTTATATACTTATA
1 TTTTATATAC-TATA
7369776 TATTTATATAC-ATA
1 T-TTTATATACTATA
7369790 TTTT
1 TTTT
7369794 CATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.10
14 4 0.13
15 11 0.37
16 12 0.40
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATATACTATA
Found at i:7377443 original size:43 final size:44
Alignment explanation
Indices: 7377350--7377462 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 44
7377340 GAAATCCTAT
* * * *
7377350 AGATGGAATCT-GCTTTCGACTGTGGATACACAACAAGTACCTGC
1 AGATGGAATCTACCTTT-GGCTATGGATACACAACAAGTACCCGC
*
7377394 ATATGGAATCTACCTTTGGCTATGGAT-CACAACAA-TACCCCGC
1 AGATGGAATCTACCTTTGGCTATGGATACACAACAAGTA-CCCGC
* * *
7377437 AGATGGAATTTACCTCTAGCTATGGA
1 AGATGGAATCTACCTTTGGCTATGGA
7377463 ATAAAATTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 34 0.59
44 18 0.31
45 4 0.07
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
AGATGGAATCTACCTTTGGCTATGGATACACAACAAGTACCCGC
Found at i:7388786 original size:40 final size:40
Alignment explanation
Indices: 7388738--7388830 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 40
7388728 GGCGTTTCAA
7388738 TGAAAAACGCCGCTAAAGAT-AGAGCATTAGCGGCGCTTTT
1 TGAAAAACGCCGCTAAAGATCA-AGCATTAGCGGCGCTTTT
7388778 TGAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTT
1 TGAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTT
*
7388818 TAAAAAACGCCGC
1 TGAAAAACGCCGC
7388831 AAAAAATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 50 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (40 bp):
TGAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTT
Found at i:7389335 original size:7 final size:7
Alignment explanation
Indices: 7389222--7389338 Score: 58
Period size: 7 Copynumber: 16.4 Consensus size: 7
7389212 TTAATTATCA
*
7389222 TTATAGT
1 TTATGGT
*
7389229 TTAGGGT
1 TTATGGT
* *
7389236 TTACGAT
1 TTATGGT
*
7389243 TTAGGGT
1 TTATGGT
*
7389250 ATATGGT
1 TTATGGT
*
7389257 TAATGGT
1 TTATGGT
*
7389264 TTAAGGT
1 TTATGGT
7389271 TTATGAGT
1 TTATG-GT
7389279 TACTAT--T
1 T--TATGGT
**
7389286 TTAAAGT
1 TTATGGT
*
7389293 TTATGGA
1 TTATGGT
7389300 TTATAGGT
1 TTAT-GGT
* *
7389308 TTAGGGA
1 TTATGGT
*
7389315 TTATGAT
1 TTATGGT
7389322 TTATGGT
1 TTATGGT
7389329 TTATGGT
1 TTATGGT
7389336 TTA
1 TTA
7389339 AGGGTTGGGG
Statistics
Matches: 80, Mismatches: 24, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
5 2 0.03
7 67 0.84
8 8 0.10
10 3 0.04
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:7389379 original size:15 final size:15
Alignment explanation
Indices: 7389333--7389385 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
7389323 TATGGTTTAT
7389333 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* **
7389347 GGTTTGAGCTTTAGG
1 GGTTTAAGGGTTAGG
*
7389362 GGTTTAAGGGTTATG
1 GGTTTAAGGGTTAGG
*
7389377 GGTTCAAGG
1 GGTTTAAGG
7389386 TTAATGGTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 9 0.30
15 21 0.70
ACGTcount: A:0.17, C:0.04, G:0.43, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:7389550 original size:14 final size:14
Alignment explanation
Indices: 7389531--7389577 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
7389521 TATCATTATA
*
7389531 GTTTAGGGTTTACG
1 GTTTAGGGTTTAAG
* *
7389545 GTTTAGGGTATATG
1 GTTTAGGGTTTAAG
*
7389559 GTTAAGGGTTTAAG
1 GTTTAGGGTTTAAG
7389573 GTTTA
1 GTTTA
7389578 TGAGTTACTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:7389568 original size:21 final size:22
Alignment explanation
Indices: 7389544--7389670 Score: 68
Period size: 22 Copynumber: 5.9 Consensus size: 22
7389534 TAGGGTTTAC
*
7389544 GGTTTAGGGTATATG-GTTAAG
1 GGTTTAAGGTATATGAGTTAAG
* **
7389565 GGTTTAAGGTTTATGAGTTACT
1 GGTTTAAGGTATATGAGTTAAG
* * * **
7389587 GTTTTAAAGTTTATGAGTTATT
1 GGTTTAAGGTATATGAGTTAAG
*
7389609 GTTTTAA-G-AGT-TGCAGTTTAA-
1 GGTTTAAGGTA-TATG-AG-TTAAG
*
7389630 GGTTTAGGGTATATG-GTTAAG
1 GGTTTAAGGTATATGAGTTAAG
* *
7389651 GGTTTAATGTTTATGAGTTA
1 GGTTTAAGGTATATGAGTTA
7389671 CTATTTTAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
20 6 0.07
21 35 0.42
22 39 0.47
23 3 0.04
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.45
Consensus pattern (22 bp):
GGTTTAAGGTATATGAGTTAAG
Found at i:7389592 original size:22 final size:22
Alignment explanation
Indices: 7389567--7389616 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
7389557 TGGTTAAGGG
7389567 TTTAAGGTTTATGAGTTACTGT
1 TTTAAGGTTTATGAGTTACTGT
* *
7389589 TTTAAAGTTTATGAGTTATTGT
1 TTTAAGGTTTATGAGTTACTGT
7389611 TTTAAG
1 TTTAAG
7389617 AGTTGCAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (22 bp):
TTTAAGGTTTATGAGTTACTGT
Found at i:7390092 original size:7 final size:7
Alignment explanation
Indices: 7390080--7390158 Score: 59
Period size: 7 Copynumber: 11.0 Consensus size: 7
7390070 AATATTCAAA
7390080 AAAATTT
1 AAAATTT
7390087 AAAATTT
1 AAAATTT
7390094 AAAATTT
1 AAAATTT
**
7390101 AAAATAA
1 AAAATTT
*
7390108 AAAATTA
1 AAAATTT
*
7390115 AAAATTA
1 AAAATTT
* *
7390122 AAAAATA
1 AAAATTT
*
7390129 AAGAACTT
1 AA-AATTT
7390137 AAAATTTT
1 AAAA-TTT
*
7390145 AATATTT
1 AAAATTT
*
7390152 AATATTT
1 AAAATTT
7390159 TATTCCATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
7 52 0.84
8 10 0.16
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (7 bp):
AAAATTT
Found at i:7394250 original size:21 final size:20
Alignment explanation
Indices: 7394224--7394263 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
7394214 CCCTTCAGTT
7394224 GTATCGTGATATCCACTTTGG
1 GTATCGTGATATCCA-TTTGG
7394245 GTATCGTGATATCCATTTG
1 GTATCGTGATATCCATTTG
7394264 CCAAGAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
GTATCGTGATATCCATTTGG
Found at i:7394728 original size:15 final size:16
Alignment explanation
Indices: 7394693--7394728 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7394683 CAACACAACT
7394693 TCAAAAGTTCAGAAGA
1 TCAAAAGTTCAGAAGA
*
7394709 TCAAAAGTTTAGAA-A
1 TCAAAAGTTCAGAAGA
7394724 TCAAA
1 TCAAA
7394729 GCTTGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (16 bp):
TCAAAAGTTCAGAAGA
Found at i:7395112 original size:53 final size:53
Alignment explanation
Indices: 7395054--7395159 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
7395044 TGCATGATAC
7395054 CACATTGATTACCAAATTGACTTAAAAGAAAATCAAAATGATCAAAGTTTCTT
1 CACATTGATTACCAAATTGACTTAAAAGAAAATCAAAATGATCAAAGTTTCTT
7395107 CACATTGATTACCAAATTGACTTAAAAGAAAATCAAAATGATCAAAGTTTCTT
1 CACATTGATTACCAAATTGACTTAAAAGAAAATCAAAATGATCAAAGTTTCTT
7395160 TCATACAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (53 bp):
CACATTGATTACCAAATTGACTTAAAAGAAAATCAAAATGATCAAAGTTTCTT
Found at i:7396091 original size:28 final size:28
Alignment explanation
Indices: 7396031--7396083 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
7396021 TAAATTTTAG
7396031 AAAAATTATTAAATTTTAATAAAAATAT
1 AAAAATTATTAAATTTTAATAAAAATAT
*
7396059 AAAAATTA-TAAATTTTTATAAAAAT
1 AAAAATTATTAAATTTTAATAAAAAT
7396084 CGTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAAATTATTAAATTTTAATAAAAATAT
Found at i:7396096 original size:27 final size:27
Alignment explanation
Indices: 7396031--7396097 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
7396021 TAAATTTTAG
*
7396031 AAAAATTATTAAATTTTAATAAAAATAT
1 AAAAA-TAATAAATTTTAATAAAAATAT
* * *
7396059 AAAAATTATAAATTTTTATAAAAATCGT
1 AAAAATAATAAATTTTAATAAAAAT-AT
7396087 AAAAA-AATAAA
1 AAAAATAATAAA
7396098 AATTGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAAATAATAAATTTTAATAAAAATAT
Found at i:7396131 original size:37 final size:36
Alignment explanation
Indices: 7396049--7396129 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
7396039 TTAAATTTTA
* *
7396049 ATAAAAATATAAAAATTATAAATTTTTATAAAAATC
1 ATAAAAAAATAAAAATTATAAAATTTTATAAAAATC
* * *
7396085 GTAAAAAAATAAAAATTGTAAAATTTTATTAAAATC
1 ATAAAAAAATAAAAATTATAAAATTTTATAAAAATC
7396121 ATAAAAAAA
1 ATAAAAAAA
7396130 ATTACCAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (36 bp):
ATAAAAAAATAAAAATTATAAAATTTTATAAAAATC
Found at i:7396361 original size:28 final size:28
Alignment explanation
Indices: 7396312--7396429 Score: 95
Period size: 28 Copynumber: 4.3 Consensus size: 28
7396302 TACATTTTGA
* * **
7396312 ATAATTTTCTTACGACTTTATAAAATTTT
1 ATAATTTT-TTACTATTTTATAAAAAATT
**
7396341 ATAATTATTTTA-TATTTTAT---ATTTT
1 ATAATT-TTTTACTATTTTATAAAAAATT
*
7396366 AATAATTTTTTACGATTTT-TAAAAAAATT
1 -ATAATTTTTTACTATTTTAT-AAAAAATT
7396395 ATAATTTTTTACTATTTTA-AAAAAATT
1 ATAATTTTTTACTATTTTATAAAAAATT
7396422 ATAATTTT
1 ATAATTTT
7396430 ATATTTTTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
25 11 0.15
26 11 0.15
27 16 0.21
28 23 0.31
29 12 0.16
30 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (28 bp):
ATAATTTTTTACTATTTTATAAAAAATT
Found at i:7396397 original size:54 final size:56
Alignment explanation
Indices: 7396300--7396413 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 56
7396290 TTTATATTTC
**
7396300 TTTACATTTTGAATAATTTTCTTACGACTTTATAAAATTTTATAATTATTTTA-TAT
1 TTTACATTTTGAATAATTTTCTTACGACTTTATAAAAAATTATAATT-TTTTACTAT
* *
7396356 TTTATATTTT-AATAATTTT-TTACGA-TTTTTAAAAAAATTATAATTTTTTACTAT
1 TTTACATTTTGAATAATTTTCTTACGACTTTAT-AAAAAATTATAATTTTTTACTAT
7396410 TTTA
1 TTTA
7396414 AAAAAATTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
53 9 0.17
54 25 0.48
55 9 0.17
56 9 0.17
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (56 bp):
TTTACATTTTGAATAATTTTCTTACGACTTTATAAAAAATTATAATTTTTTACTAT
Found at i:7396402 original size:27 final size:27
Alignment explanation
Indices: 7396367--7396429 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7396357 TTATATTTTA
7396367 ATAATTTTTTACGATTTTTAAAAAAATT
1 ATAATTTTTTACGA-TTTTAAAAAAATT
*
7396395 ATAATTTTTTACTATTTTAAAAAAATT
1 ATAATTTTTTACGATTTTAAAAAAATT
7396422 ATAATTTT
1 ATAATTTT
7396430 ATATTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 21 0.62
28 13 0.38
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
ATAATTTTTTACGATTTTAAAAAAATT
Found at i:7396539 original size:9 final size:9
Alignment explanation
Indices: 7396420--7396542 Score: 54
Period size: 9 Copynumber: 13.3 Consensus size: 9
7396410 TTTAAAAAAA
7396420 TTATAA-TT
1 TTATAATTT
*
7396428 TTATATTTT
1 TTATAATTT
*
7396437 TTACAATTT
1 TTATAATTT
*
7396446 TTACAATTT
1 TTATAATTT
* *
7396455 TTCTTATTT
1 TTATAATTT
*
7396464 TT-TAATAT
1 TTATAATTT
7396472 TTA-AATTTTT
1 TTATAA--TTT
*
7396482 TTATTAAAATT
1 TTA-T-AATTT
* *
7396493 TAATAATAT
1 TTATAATTT
*
7396502 TTATAACTT
1 TTATAATTT
*
7396511 TTATTGATTT
1 TTA-TAATTT
* *
7396521 TATTTTATTT
1 T-TATAATTT
7396531 TTATAATTT
1 TTATAATTT
7396540 TTA
1 TTA
7396543 ATAAAAGAAG
Statistics
Matches: 84, Mismatches: 22, Indels: 17
0.68 0.18 0.14
Matches are distributed among these distances:
8 13 0.15
9 47 0.56
10 17 0.20
11 5 0.06
13 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:7398655 original size:22 final size:22
Alignment explanation
Indices: 7398627--7398670 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7398617 AGATTGCCAA
7398627 GTTATACGTTTTACAAGGTTCT
1 GTTATACGTTTTACAAGGTTCT
* *
7398649 GTTATACGTTTTGCAGGGTTCT
1 GTTATACGTTTTACAAGGTTCT
7398671 ACTGTTACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.23, T:0.45
Consensus pattern (22 bp):
GTTATACGTTTTACAAGGTTCT
Found at i:7399686 original size:76 final size:75
Alignment explanation
Indices: 7399589--7399739 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 75
7399579 ACTAATCTCT
* *
7399589 TAAAAACTCTTCCAATAAAGAAAATCAAAAGCAGGTGGAGCATCAGATTAATACAGAGTCAACTT
1 TAAAAACTCTTCCAATAAAGAAAATCAAAAGCAGGTGGAGCATCAGATTAATACAGAGTCAAATC
7399654 TTCAAGCCAG
66 TTCAAGCCAG
*
7399664 TAAAAGACTCTTCCAATAAAGAAAATCAAAAGCAGGTGGAGCATTAGATTAATACAGAGTCAAAT
1 TAAAA-ACTCTTCCAATAAAGAAAATCAAAAGCAGGTGGAGCATCAGATTAATACAGAGTCAAAT
7399729 CTTCAAGCCAG
65 CTTCAAGCCAG
7399740 AATAAAAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 5 0.07
76 67 0.93
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (75 bp):
TAAAAACTCTTCCAATAAAGAAAATCAAAAGCAGGTGGAGCATCAGATTAATACAGAGTCAAATC
TTCAAGCCAG
Found at i:7405399 original size:16 final size:16
Alignment explanation
Indices: 7405378--7405408 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7405368 CATTTTATTT
*
7405378 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
7405394 ATATTAAGATAATTA
1 ATATTAAGATAATTA
7405409 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:7405437 original size:28 final size:27
Alignment explanation
Indices: 7405374--7405438 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
7405364 ACTCCATTTT
7405374 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
7405402 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
7405431 ATTTTATT
1 ATTTTATT
7405439 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:7406828 original size:597 final size:597
Alignment explanation
Indices: 7405604--7406799 Score: 2320
Period size: 597 Copynumber: 2.0 Consensus size: 597
7405594 TTGTTTCTTC
* *
7405604 ATATTTTCTTTCAATAAAATTCCCTTTTCTATTTTTATATTTATTTTCTTTTCCACCATTATCAT
1 ATATTTTCTTTCAATAAAATTCTCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTATCAT
* *
7405669 GAGCCACTAAAACCTATCTAACCGAAAGTTGTCAATATTCCCCAAAAAGGGTTCTTGAGGCCTAG
66 GAGCCACTAAAACCTATCTAACCAAAAGTTGTCAATATTCCCCAAAAAGAGTTCTTGAGGCCTAG
7405734 AATCCGTACTTAGCCTTCTCGCCAAGTATTCATCGTTTCTTCGCACTACGGGCTGACGCTTCCGT
131 AATCCGTACTTAGCCTTCTCGCCAAGTATTCATCGTTTCTTCGCACTACGGGCTGACGCTTCCGT
7405799 CCATGGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGCGACCGCTTTGTATGTTTTGGACG
196 CCATGGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGCGACCGCTTTGTATGTTTTGGACG
7405864 GATTGCATAGTCGGTTCGTTAACTTACTGCGTCAGAGGTTGGCAAGCCAAAGAGACGAAATGGCG
261 GATTGCATAGTCGGTTCGTTAACTTACTGCGTCAGAGGTTGGCAAGCCAAAGAGACGAAATGGCG
*
7405929 TGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTGGCTAGAGTCAGGTTCCCTAAAA
326 TGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTGGCTAAAGTCAGGTTCCCTAAAA
7405994 ATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGTGTCCTCTTCCACTATAACTGGCTTTTGA
391 ATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGTGTCCTCTTCCACTATAACTGGCTTTTGA
7406059 GTTGAGAAGGGTCATTTAAAAGCCGAGGATCGAACCCAAGGTGGATTGAGACAACTGGAGGCTGG
456 GTTGAGAAGGGTCATTTAAAAGCCGAGGATCGAACCCAAGGTGGATTGAGACAACTGGAGGCTGG
7406124 AATCTACCAATAAGAATTTCTTTTCCTTCAACTCTCTTTATTATTTTTATTATTTTCGTAATCAC
521 AATCTACCAATAAGAATTTCTTTTCCTTCAACTCTCTTTATTATTTTTATTATTTTCGTAATCAC
7406189 AATTTCAGTCAA
586 AATTTCAGTCAA
*
7406201 ATATTTTCTTTCAATAAAATTCTCTTTTCCATTTTTATATTTATTTTCTTTTCTACCATTATCAT
1 ATATTTTCTTTCAATAAAATTCTCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTATCAT
**
7406266 GAGCCACTAAAACCTATCTAGTCAAAAGTTGTCAATATTCCCCAAAAAGAGTTCTTGAGGCCTAG
66 GAGCCACTAAAACCTATCTAACCAAAAGTTGTCAATATTCCCCAAAAAGAGTTCTTGAGGCCTAG
7406331 AATCCGTACTTAGCCTTCTCGCCAAGTATTCATCGTTTCTTCGCACTACGGGCTGACGCTTCCGT
131 AATCCGTACTTAGCCTTCTCGCCAAGTATTCATCGTTTCTTCGCACTACGGGCTGACGCTTCCGT
7406396 CCATGGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGCGACCGCTTTGTATGTTTTGGACG
196 CCATGGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGCGACCGCTTTGTATGTTTTGGACG
7406461 GATTGCATAGTCGGTTCGTTAACTTACTGCGTCAGAGGTTGGCAAGCCAAAGAGACGAAATGGCG
261 GATTGCATAGTCGGTTCGTTAACTTACTGCGTCAGAGGTTGGCAAGCCAAAGAGACGAAATGGCG
7406526 TGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTGGCTAAAGTCAGGTTCCCTAAAA
326 TGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTGGCTAAAGTCAGGTTCCCTAAAA
7406591 ATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGTGTCCTCTTCCACTATAACTGGCTTTTGA
391 ATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGTGTCCTCTTCCACTATAACTGGCTTTTGA
7406656 GTTGAGAAGGGTCATTTAAAAGCCGAGGATCGAACCCAAGGTGGATTGAGACAACTGGAGGCTGG
456 GTTGAGAAGGGTCATTTAAAAGCCGAGGATCGAACCCAAGGTGGATTGAGACAACTGGAGGCTGG
7406721 AATCTACCAATAAGAATTTCTTTTCCTTCAACTCTCTTTATTATTTTTATTATTTTCGTAATCAC
521 AATCTACCAATAAGAATTTCTTTTCCTTCAACTCTCTTTATTATTTTTATTATTTTCGTAATCAC
7406786 AATTTCAGTCAA
586 AATTTCAGTCAA
7406798 AT
1 AT
7406800 TTAGATTCTA
Statistics
Matches: 591, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
597 591 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (597 bp):
ATATTTTCTTTCAATAAAATTCTCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTATCAT
GAGCCACTAAAACCTATCTAACCAAAAGTTGTCAATATTCCCCAAAAAGAGTTCTTGAGGCCTAG
AATCCGTACTTAGCCTTCTCGCCAAGTATTCATCGTTTCTTCGCACTACGGGCTGACGCTTCCGT
CCATGGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGCGACCGCTTTGTATGTTTTGGACG
GATTGCATAGTCGGTTCGTTAACTTACTGCGTCAGAGGTTGGCAAGCCAAAGAGACGAAATGGCG
TGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTGGCTAAAGTCAGGTTCCCTAAAA
ATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGTGTCCTCTTCCACTATAACTGGCTTTTGA
GTTGAGAAGGGTCATTTAAAAGCCGAGGATCGAACCCAAGGTGGATTGAGACAACTGGAGGCTGG
AATCTACCAATAAGAATTTCTTTTCCTTCAACTCTCTTTATTATTTTTATTATTTTCGTAATCAC
AATTTCAGTCAA
Found at i:7406978 original size:12 final size:12
Alignment explanation
Indices: 7406961--7406993 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7406951 CTACTTACCA
7406961 TTTACTATTATC
1 TTTACTATTATC
*
7406973 TTTACTATTATT
1 TTTACTATTATC
7406985 TTTACTATT
1 TTTACTATT
7406994 TTACAGGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTACTATTATC
Found at i:7409098 original size:12 final size:12
Alignment explanation
Indices: 7409081--7409109 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
7409071 TTACTTTTGG
7409081 TATTTTTCTT-A
1 TATTTTTCTTAA
7409092 TATTTTTCTTAA
1 TATTTTTCTTAA
7409104 TATTTT
1 TATTTT
7409110 AAATATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTTCTTAA
Found at i:7420930 original size:30 final size:30
Alignment explanation
Indices: 7420894--7420955 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
7420884 AGTTAAAGTA
7420894 TTTAAAATGTTAAAATATGCTATAAGTTCT
1 TTTAAAATGTTAAAATATGCTATAAGTTCT
7420924 TTTAAAATGTTAAAATATGCTATAAGTTCT
1 TTTAAAATGTTAAAATATGCTATAAGTTCT
7420954 TT
1 TT
7420956 GTTATAAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (30 bp):
TTTAAAATGTTAAAATATGCTATAAGTTCT
Found at i:7422120 original size:18 final size:18
Alignment explanation
Indices: 7422089--7422138 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
7422079 TAGTAAAAAA
*
7422089 TTATAAAAATTAATTAAAT
1 TTATAATAA-TAATTAAAT
7422108 TTATAATAATAATTAAAT
1 TTATAATAATAATTAAAT
*
7422126 ATATAATTAATAA
1 TTATAA-TAATAA
7422139 ATACAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATAATAATAATTAAAT
Found at i:7422131 original size:15 final size:17
Alignment explanation
Indices: 7422090--7422141 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
7422080 AGTAAAAAAT
*
7422090 TATAAAAATTAATTAAA
1 TATAATAATTAATTAAA
7422107 TTTATAATAA-TAATTAAA
1 --TATAATAATTAATTAAA
7422125 TAT-ATAATTAA-TAAA
1 TATAATAATTAATTAAA
7422140 TA
1 TA
7422142 CAATTAATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 10 0.32
16 6 0.19
18 8 0.26
19 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAATAATTAATTAAA
Found at i:7425706 original size:24 final size:24
Alignment explanation
Indices: 7425679--7425728 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
7425669 ATAAACTTTT
7425679 TTTCAAAGATAAAAGGATTTTAAC
1 TTTCAAAGATAAAAGGATTTTAAC
7425703 TTTCAAAGATAAAAGGATTTTAAC
1 TTTCAAAGATAAAAGGATTTTAAC
7425727 TT
1 TT
7425729 ACTTCCTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (24 bp):
TTTCAAAGATAAAAGGATTTTAAC
Found at i:7430893 original size:19 final size:19
Alignment explanation
Indices: 7430869--7430907 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7430859 GAGGGCATGT
7430869 TTGGTTAGAGTGAATGGAA
1 TTGGTTAGAGTGAATGGAA
7430888 TTGGTTAGAGTGAATGGAA
1 TTGGTTAGAGTGAATGGAA
7430907 T
1 T
7430908 AGAGATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (19 bp):
TTGGTTAGAGTGAATGGAA
Found at i:7431222 original size:38 final size:37
Alignment explanation
Indices: 7431151--7431222 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
7431141 AATAACAAAT
* *
7431151 AATTTAATCATATTTTAACATAATTATTATTAAATAC
1 AATTTAATAACATTTTAACATAATTATTATTAAATAC
* *
7431188 AATTTAATAACATTCTTAATATAATTATTTTTAAA
1 AATTTAATAACATT-TTAACATAATTATTATTAAA
7431223 ATATGAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 12 0.40
38 18 0.60
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (37 bp):
AATTTAATAACATTTTAACATAATTATTATTAAATAC
Found at i:7431247 original size:39 final size:38
Alignment explanation
Indices: 7431170--7431249 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
7431160 ATATTTTAAC
* * *
7431170 ATAATTATTATTAAATACAATTTAATAACATTCTTAAT
1 ATAATTATTATTAAATACAATTTAATAAAAATCATAAT
* *
7431208 ATAATTATTTTTAAAATATGAA-TTAATAAAAATCATAAT
1 ATAATTATTATT-AAATA-CAATTTAATAAAAATCATAAT
7431247 ATA
1 ATA
7431250 TAATATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 11 0.31
39 22 0.63
40 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (38 bp):
ATAATTATTATTAAATACAATTTAATAAAAATCATAAT
Found at i:7433637 original size:11 final size:12
Alignment explanation
Indices: 7433614--7433642 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7433604 TTTTTAATTC
7433614 TATGAGAATTTT
1 TATGAGAATTTT
7433626 TATGAGAATTTT
1 TATGAGAATTTT
7433638 TATGA
1 TATGA
7433643 AAGTATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (12 bp):
TATGAGAATTTT
Found at i:7436565 original size:23 final size:21
Alignment explanation
Indices: 7436516--7436565 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
7436506 ACGTCGAATA
*
7436516 AATTATTTTATTTTTCAATAT
1 AATTATTTTATTTTTCAAAAT
*
7436537 AA--ATTTATTTTTTTCTAAAAT
1 AATTATTT-TATTTTTC-AAAAT
7436558 AATTATTT
1 AATTATTT
7436566 GTTTGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 8 0.35
23 4 0.17
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTATTTTATTTTTCAAAAT
Found at i:7436744 original size:89 final size:88
Alignment explanation
Indices: 7436621--7436844 Score: 286
Period size: 89 Copynumber: 2.5 Consensus size: 88
7436611 TTAGAAAATT
* * * * *
7436621 AATAATACGCAACAAATTAAATTTACAAACACAAGAAAATACAAACATTCTAGAATATTAATACA
1 AATAATAC-AAACAAATTAAATTTACAGATACAAGAAAATACAAACATTCTAAAAAATTAATACA
*
7436686 TAAAAATATAAAATTCGAACAACA
65 CAAAAATATAAAATTCGAACAACA
* * *
7436710 AATAATACAAACTAAATTAAATTTATAGATACAAGAAAATAAAAACTTTCTAAAAAATTAATACA
1 AATAATACAAAC-AAATTAAATTTACAGATACAAGAAAATACAAACATTCTAAAAAATTAATACA
*
7436775 CGAAAATATAAAATTCGAACAACA
65 CAAAAATATAAAATTCGAACAACA
* ** *
7436799 AATAATACAGACAAAATTTGATTTACAGATACAAAAATAATACAAA
1 AATAATACAAAC-AAATTAAATTTACAGATACAAGAA-AATACAAA
7436845 AATTTTGAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
88 3 0.03
89 106 0.91
90 7 0.06
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (88 bp):
AATAATACAAACAAATTAAATTTACAGATACAAGAAAATACAAACATTCTAAAAAATTAATACAC
AAAAATATAAAATTCGAACAACA
Found at i:7441340 original size:74 final size:74
Alignment explanation
Indices: 7441260--7441404 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 74
7441250 ACTAATTTGT
* * *
7441260 GTTCATAAATAATTTGTATCTATGTTCATAAATAAATATAAAATTATGTTAATATAAATAAAAAA
1 GTTCATAAATAATTTGTATCTACGTTCATAAATAAATATAAAATTATATTAAGATAAATAAAAAA
*
7441325 TTAATTTAC
66 ATAATTTAC
* *
7441334 GTTCATAAATAATTTGTATCTACGTTCCTAAATAAATATATAATTATATTAAGATAAATAAAAAA
1 GTTCATAAATAATTTGTATCTACGTTCATAAATAAATATAAAATTATATTAAGATAAATAAAAAA
7441399 ATAATT
66 ATAATT
7441405 GTAATATATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (74 bp):
GTTCATAAATAATTTGTATCTACGTTCATAAATAAATATAAAATTATATTAAGATAAATAAAAAA
ATAATTTAC
Found at i:7447239 original size:15 final size:15
Alignment explanation
Indices: 7447219--7447256 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
7447209 CACATCAACA
7447219 AAAATATTTTTTTTT
1 AAAATATTTTTTTTT
*
7447234 AAAATA-ATTTTTTT
1 AAAATATTTTTTTTT
7447248 AAAAT-TTTT
1 AAAATATTTT
7447257 AAAAAACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
AAAATATTTTTTTTT
Found at i:7447952 original size:56 final size:56
Alignment explanation
Indices: 7447883--7448003 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 56
7447873 AAGAAAAAAA
* * * *
7447883 ATAAATTTATGTAGCATATACATATAAATTTTTTTGAATGTTGATTTATCATTTAT
1 ATAAATTTATGTAGCAGACACATATAAATTGTTTTGAATGTTCATTTATCATTTAT
* * * * *
7447939 ATAAATTTGTGTAGTAGACATATATAAATTGTTTTGAATTTTCATTTATCATTTTT
1 ATAAATTTATGTAGCAGACACATATAAATTGTTTTGAATGTTCATTTATCATTTAT
7447995 ATATAATTT
1 ATA-AATTT
7448004 TTAAAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
56 50 0.91
57 5 0.09
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (56 bp):
ATAAATTTATGTAGCAGACACATATAAATTGTTTTGAATGTTCATTTATCATTTAT
Found at i:7453879 original size:41 final size:41
Alignment explanation
Indices: 7453778--7453937 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 41
7453768 TGTGTGATTC
* * * **
7453778 GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAAT
1 GTGTAAGACCATGTCTGGGACATTGACATCGTA-T-ATAATTT
7453821 GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
1 GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
* * * *
7453862 GTGTAAGACCCTATCTGGGACATTGATATCGTATATAATTC
1 GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
* * * *
7453903 ATGTAAGACCCTGTCTGGGACAGTGGCATCG-ATAT
1 GTGTAAGACCATGTCTGGGACATTGACATCGTATAT
7453938 GTGATAACAT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
40 4 0.04
41 67 0.65
42 1 0.01
43 31 0.30
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
Found at i:7453955 original size:43 final size:41
Alignment explanation
Indices: 7453779--7453957 Score: 160
Period size: 41 Copynumber: 4.3 Consensus size: 41
7453769 GTGTGATTCG
* * * * **
7453779 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAATG
1 TGTAAGACCATGTCTGGGACATTGACATCGTA-T-ATAATACA
***
7453822 TGTAAGACCATGTCTGGGACATTGACATCGTATATAATTTG
1 TGTAAGACCATGTCTGGGACATTGACATCGTATATAATACA
* * * *
7453863 TGTAAGACCCTATCTGGGACATTGATATCGTATATAATTCA
1 TGTAAGACCATGTCTGGGACATTGACATCGTATATAATACA
* * * * *
7453904 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGACATCG-TATATAAT-ACA
7453947 TGTAAGACCAT
1 TGTAAGACCAT
7453958 ATCCGGGATA
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 67 0.58
42 7 0.06
43 42 0.36
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGACATCGTATATAATACA
Found at i:7459956 original size:17 final size:18
Alignment explanation
Indices: 7459930--7459963 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7459920 GTTTATTCAG
*
7459930 GATAATTACATG-AAATT
1 GATAAGTACATGTAAATT
7459947 GATAAGTACATGTAAAT
1 GATAAGTACATGTAAAT
7459964 GTATGTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (18 bp):
GATAAGTACATGTAAATT
Found at i:7476524 original size:6 final size:6
Alignment explanation
Indices: 7476515--7476591 Score: 154
Period size: 6 Copynumber: 12.8 Consensus size: 6
7476505 TAAGATTGAG
7476515 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
7476563 ATACAT ATACAT ATACAT ATACAT ATACA
1 ATACAT ATACAT ATACAT ATACAT ATACA
7476592 CTTCTTTTCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:7477628 original size:29 final size:29
Alignment explanation
Indices: 7477573--7477628 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7477563 TATTTTCAAA
* * *
7477573 ATTATTTATGAAAATTGGTTAATTTTCTG
1 ATTATTTATGAAAAATGGCTAAATTTCTG
*
7477602 ATTATTTATTAAAAATGGCTAAATTTC
1 ATTATTTATGAAAAATGGCTAAATTTC
7477629 GAGAAAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (29 bp):
ATTATTTATGAAAAATGGCTAAATTTCTG
Found at i:7477851 original size:12 final size:11
Alignment explanation
Indices: 7477815--7477854 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
7477805 CACAAAAGTC
7477815 CTCTCATAA-TT
1 CTCTCA-AATTT
7477826 CTCTCAAATTT
1 CTCTCAAATTT
7477837 CTCTCAAATTT
1 CTCTCAAATTT
7477848 -TCTCAAA
1 CTCTCAAA
7477855 GTTCCTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAAATTT
Found at i:7477907 original size:14 final size:14
Alignment explanation
Indices: 7477890--7477919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7477880 CTCTGTTTAA
*
7477890 AATTTTTTTGAATT
1 AATTTTTTTAAATT
7477904 AATTTTTTTAAATT
1 AATTTTTTTAAATT
7477918 AA
1 AA
7477920 AAAATATTCG
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
AATTTTTTTAAATT
Found at i:7478076 original size:47 final size:48
Alignment explanation
Indices: 7478015--7478118 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 48
7478005 AGTGGTAATT
7478015 TTAATTTTTCAATACTATTTAATATTTTTTT-ATTTACACAATTTTAA
1 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACACAATTTTAA
**
7478062 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTATGCAATTTTAA
1 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACACAATTTTAA
7478110 TTAATTTTT
1 TTAATTTTT
7478119 ATTTTATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 31 0.57
48 23 0.43
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.60
Consensus pattern (48 bp):
TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACACAATTTTAA
Found at i:7478091 original size:22 final size:22
Alignment explanation
Indices: 7478019--7478094 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
7478009 GTAATTTTAA
7478019 TTTTTCAATACTATTTAATATT
1 TTTTTCAATACTATTTAATATT
* * *
7478041 TTTTT-ATTTACACAATTTTAAT-TAA
1 TTTTTCA---ATACTA-TTTAATAT-T
7478066 TTTTTCAATACTATTTAATATT
1 TTTTTCAATACTATTTAATATT
7478088 TTTTTCA
1 TTTTTCA
7478095 TTTATGCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 1 0.02
22 18 0.44
23 5 0.12
24 5 0.12
25 11 0.27
26 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTTCAATACTATTTAATATT
Found at i:7479011 original size:7 final size:7
Alignment explanation
Indices: 7478995--7479048 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
7478985 TTGTCGTTTC
*
7478995 GTATTCA
1 GTATTTA
7479002 GTATTTA
1 GTATTTA
7479009 GTATTTA
1 GTATTTA
7479016 GTATTTA
1 GTATTTA
7479023 GTATTTA
1 GTATTTA
7479030 GTATTTA
1 GTATTTA
7479037 GTATTTA
1 GTATTTA
7479044 GTATT
1 GTATT
7479049 ATGTATATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:7479686 original size:18 final size:18
Alignment explanation
Indices: 7479663--7479724 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
7479653 ATGCTAAGTG
7479663 TGTATCCTAGCCCTTATA
1 TGTATCCTAGCCCTTATA
7479681 TGTATCCTAGCCCTTATA
1 TGTATCCTAGCCCTTATA
* *
7479699 TGTATCCTAACCCTTACA
1 TGTATCCTAGCCCTTATA
*
7479717 TGTTTCCT
1 TGTATCCT
7479725 TTTCTCAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (18 bp):
TGTATCCTAGCCCTTATA
Found at i:7480251 original size:8 final size:9
Alignment explanation
Indices: 7480234--7480264 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7480224 TTGAATAAGG
7480234 TAATATTTT
1 TAATATTTT
7480243 TAATATTTT
1 TAATATTTT
7480252 T-ATATTTT
1 TAATATTTT
7480260 TAATA
1 TAATA
7480265 AAATATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATATTTT
Found at i:7482623 original size:21 final size:22
Alignment explanation
Indices: 7482581--7482623 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7482571 TAAACGAAGT
*
7482581 ATAATATTATTTAACTACATAA
1 ATAATATTATTTAACTAAATAA
7482603 ATAAT-TTAATTT-ACTAAATAA
1 ATAATATT-ATTTAACTAAATAA
7482624 TTATATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATATTATTTAACTAAATAA
Found at i:7487513 original size:26 final size:26
Alignment explanation
Indices: 7487477--7487585 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
7487467 ATGTTCCATG
* *
7487477 ATGTTCAATGATAATAGGTTAGGTAA
1 ATGTTCCATGATAATGGGTTAGGTAA
*
7487503 ATGTTCCATGATAATGGGCTAGGTAA
1 ATGTTCCATGATAATGGGTTAGGTAA
*
7487529 ATGTTTCATGATAATGGGTTAGGTAA
1 ATGTTCCATGATAATGGGTTAGGTAA
*
7487555 ATGTTCTATGATAATGGGTTAGGTAA
1 ATGTTCCATGATAATGGGTTAGGTAA
7487581 ATGTT
1 ATGTT
7487586 ATTGGTGATA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
ATGTTCCATGATAATGGGTTAGGTAA
Found at i:7494108 original size:127 final size:125
Alignment explanation
Indices: 7493858--7494206 Score: 511
Period size: 127 Copynumber: 2.8 Consensus size: 125
7493848 AAATGGCCAT
* * * **
7493858 TATTGTAGTCTAAGTACTTTATTTGTGGTTGTTATAATTAAATTATAGTTCATTTTGA-TAATTT
1 TATTGTAGTCTAAGTAC-TTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTTTTTT
*
7493922 TTTGTGATAACGTGAATCAAACCTGGACCACATCTTTATATCAATATTTTAGTTAGATTAC
65 TTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATTAC
* *
7493983 TATTGTAGTCGAAGTATCTTATTTGTGATTGTTATGATTAAATTGTAGTTCATTTTAATTGTTTT
1 TATTGTAGTCTAAGTA-CTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATT-TTTT
** * * * *
7494048 TTTTGTGATAACGTGAATCAAATTTAGACCACATTTTTATATTAATATTTTTGTTAGATTAT
64 TTTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATTAC
**
7494110 TATTGTAGTCTAAGTACCTTATTTGTGGTTGTTATGACCAAATTGTAGTTCATTTTAATTTTTTT
1 TATTGTAGTCTAAGTA-CTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTTTTTT
7494175 TTTGTGATAACGTGAATCAAACCTAGACCACA
65 TTTGTGATAACGTGAATCAAACCTAGACCACA
7494207 CATAAGGCAG
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
125 51 0.25
126 37 0.19
127 112 0.56
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (125 bp):
TATTGTAGTCTAAGTACTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTTTTTTT
TTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATTAC
Found at i:7496673 original size:20 final size:20
Alignment explanation
Indices: 7496642--7496689 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7496632 TAAATATTAA
7496642 AATATAAATATTTACAGAATT
1 AATAT-AATATTTACAGAATT
* *
7496663 AATATAATATTTACGGGATT
1 AATATAATATTTACAGAATT
7496683 AATATAA
1 AATATAA
7496690 AAATGTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
AATATAATATTTACAGAATT
Found at i:7515041 original size:3 final size:3
Alignment explanation
Indices: 7515033--7515058 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7515023 TGTGTACCAG
7515033 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
7515059 CAGCAGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7520096 original size:3 final size:3
Alignment explanation
Indices: 7520078--7520128 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
7520068 TCAAATATCC
* * * * *
7520078 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7520125 TTA T
1 TTA T
7520129 GTACTAGTGT
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:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:7520258 original size:3 final size:3
Alignment explanation
Indices: 7520250--7520396 Score: 294
Period size: 3 Copynumber: 49.0 Consensus size: 3
7520240 TATTCCAATG
7520250 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7520298 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7520346 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7520394 TTA
1 TTA
7520397 GTTTATGCTT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 144 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7532742 original size:23 final size:23
Alignment explanation
Indices: 7532660--7532746 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
7532650 CCTGATCAGT
*
7532660 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
7532682 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
7532702 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
7532725 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
7532747 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:7533142 original size:15 final size:15
Alignment explanation
Indices: 7533117--7533174 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
7533107 TCATATATAT
7533117 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
7533133 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
7533148 AATAATTTCAATCAA
1 TATAAATTCAATCAA
7533163 TATAAATTCAAT
1 TATAAATTCAAT
7533175 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:7534462 original size:5 final size:5
Alignment explanation
Indices: 7534452--7534490 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
7534442 TTACTTATTT
7534452 ATATA ATATA ATATAA TATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATAT-A -ATATA ATATA ATATA ATATA AT
7534491 TAAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 26 0.81
6 2 0.06
7 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:7534473 original size:17 final size:17
Alignment explanation
Indices: 7534451--7534488 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
7534441 TTTACTTATT
7534451 TATATAATATAATATAA
1 TATATAATATAATATAA
7534468 TATATAATATAATATAA
1 TATATAATATAATATAA
7534485 TATA
1 TATA
7534489 ATTAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATAATATAATATAA
Found at i:7534526 original size:8 final size:8
Alignment explanation
Indices: 7534513--7534541 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7534503 TATTTTTATT
7534513 ATATAATA
1 ATATAATA
7534521 ATATAATA
1 ATATAATA
7534529 ATATAATA
1 ATATAATA
7534537 ATATA
1 ATATA
7534542 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:7535703 original size:10 final size:10
Alignment explanation
Indices: 7535690--7535732 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
7535680 AAAATTAGTC
7535690 TAATTAACTA
1 TAATTAACTA
7535700 TAATTAACTA
1 TAATTAACTA
*
7535710 -AACTTAATTA
1 TAA-TTAACTA
7535720 TAATTAA-TA
1 TAATTAACTA
7535729 TAAT
1 TAAT
7535733 CAATGGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTAACTA
Found at i:7546410 original size:23 final size:24
Alignment explanation
Indices: 7546382--7546427 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
7546372 GATGGGTTGT
*
7546382 GAAGGGGAGGAAGGGAGA-GAAGG
1 GAAGGGGAGGAAAGGAGATGAAGG
7546405 GAAGGGGAGGAAAGGAGATGAAG
1 GAAGGGGAGGAAAGGAGATGAAG
7546428 AGATGGAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (24 bp):
GAAGGGGAGGAAAGGAGATGAAGG
Found at i:7549100 original size:12 final size:12
Alignment explanation
Indices: 7549085--7549123 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7549075 ATAAATAAAT
7549085 ATATATATATAG
1 ATATATATATAG
*
7549097 ATATAGATATAG
1 ATATATATATAG
* *
7549109 ATAGATAGATAG
1 ATATATATATAG
7549121 ATA
1 ATA
7549124 GATAATGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (12 bp):
ATATATATATAG
Found at i:7552631 original size:17 final size:19
Alignment explanation
Indices: 7552592--7552632 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
7552582 TTAAAATTTG
7552592 TAAATAAATATAGTGAATT
1 TAAATAAATATAGTGAATT
7552611 TAAA-AAAT-TAGT-AATT
1 TAAATAAATATAGTGAATT
7552627 CTAAAT
1 -TAAAT
7552633 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 4 0.20
19 4 0.20
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAATAAATATAGTGAATT
Found at i:7554580 original size:18 final size:20
Alignment explanation
Indices: 7554543--7554583 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7554533 CAATATAATA
7554543 ATATATAATGTACTACTATT
1 ATATATAATGTACTACTATT
*
7554563 ATATATAAT-TATTA-TATT
1 ATATATAATGTACTACTATT
7554581 ATA
1 ATA
7554584 GATTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATATAATGTACTACTATT
Found at i:7554981 original size:16 final size:15
Alignment explanation
Indices: 7554939--7554981 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
7554929 ATGAATCATT
7554939 AAATTTAAAA-TTAA
1 AAATTTAAAATTTAA
*
7554953 AATATTTATAATTTATA
1 AA-ATTTAAAATTTA-A
7554970 AAATTTAAAATT
1 AAATTTAAAATT
7554982 ATTTGAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 12 0.50
17 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTAAAATTTAA
Found at i:7554990 original size:25 final size:24
Alignment explanation
Indices: 7554944--7554990 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
7554934 TCATTAAATT
*
7554944 TAAAATTAAAATATTTATAATTTA
1 TAAAATTAAAATATTTAGAATTTA
7554968 TAAAATTTAAAATTATTT-GAATT
1 TAAAA-TTAAAA-TATTTAGAATT
7554991 CGTCAAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAATTAAAATATTTAGAATTTA
Found at i:7555574 original size:21 final size:21
Alignment explanation
Indices: 7555546--7555592 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
7555536 CTATATTACA
7555546 TTTA-AATTTGAGATTTAAGC
1 TTTATAATTTGAGATTTAAGC
7555566 TTTATAATTTGAGATTTAAGC
1 TTTATAATTTGAGATTTAAGC
7555587 TTTATA
1 TTTATA
7555593 CTTTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTATAATTTGAGATTTAAGC
Found at i:7559743 original size:26 final size:26
Alignment explanation
Indices: 7559715--7559765 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
7559705 GTAATTTAAA
* *
7559715 AAAAAAGATAAATAA-AGATAAAAGT
1 AAAAAATAAAAATAATAGATAAAAGT
7559740 AAAAAATAAAAATAATAGATAAAAGT
1 AAAAAATAAAAATAATAGATAAAAGT
7559766 CTTCAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (26 bp):
AAAAAATAAAAATAATAGATAAAAGT
Found at i:7561091 original size:29 final size:30
Alignment explanation
Indices: 7561059--7561115 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
7561049 ACCATGAATA
* *
7561059 TAATTAAACTAA-AAAATTCAACCAAAAAC
1 TAATGAAACTAACAAAACTCAACCAAAAAC
* *
7561088 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAAACTCAACCAAAA
7561116 GCAATCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.18
Consensus pattern (30 bp):
TAATGAAACTAACAAAACTCAACCAAAAAC
Found at i:7570114 original size:42 final size:42
Alignment explanation
Indices: 7570051--7570207 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
7570041 TCATGTTCAT
* * *
7570051 TTTCCGTTTAGCTCTCATGAGCTTCTGTTCAACTCATT-TGAG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAAC-CCTTATGGG
* * * *
7570093 TTTCCGTTTAGCTTTTTTGAGCTTTTGGTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* * *
7570135 TTTCCATTCAGCTCTTATGAGCTTTTGTTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* * *
7570177 TTTCTGTTTAGCACTTATGTGCTTCTGTTCA
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCA
7570208 GCCTTCAGGC
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
41 3 0.03
42 93 0.97
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
Found at i:7570165 original size:21 final size:20
Alignment explanation
Indices: 7570141--7570209 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
7570131 TGGGTTTCCA
*
7570141 TTCAGCTCTTATGAGCTTTTG
1 TTCAGCACTTATG-GCTTTTG
* * *
7570162 TTCAACCCTTATGGGTTTCTG
1 TTCAGCACTTATGGCTTT-TG
* *
7570183 TTTAGCACTTATGTGCTTCTG
1 TTCAGCACTTATG-GCTTTTG
7570204 TTCAGC
1 TTCAGC
7570210 CTTCAGGCTT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 4 0.11
21 30 0.81
22 3 0.08
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (20 bp):
TTCAGCACTTATGGCTTTTG
Found at i:7572004 original size:42 final size:42
Alignment explanation
Indices: 7571870--7572003 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
7571860 TTCGAATGCG
* *
7571870 CACACGGCCTGAGACACGGGCATGTCTCCTGACCGTGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
*
7571912 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTAAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
* * *
7571954 TACATGGCTTGAGACACGGGCGTGTCTCCTGACCATGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
7571996 CACATGGC
1 CACATGGC
7572004 TGTGTGACCT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (42 bp):
CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
Found at i:7581769 original size:34 final size:34
Alignment explanation
Indices: 7581695--7581769 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
7581685 ATACTGCATG
*
7581695 ACTGC-TACTGATACTGTGATGGTCTAAGGCCCT
1 ACTGCATACTGATACTGTGATGGGCTAAGGCCCT
**
7581728 AAAGCATACTGATACTGTGATGGGCTAAGGCCCT
1 ACTGCATACTGATACTGTGATGGGCTAAGGCCCT
7581762 ACTGCATA
1 ACTGCATA
7581770 TTTGTCACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (34 bp):
ACTGCATACTGATACTGTGATGGGCTAAGGCCCT
Found at i:7586321 original size:5 final size:5
Alignment explanation
Indices: 7586313--7586395 Score: 59
Period size: 5 Copynumber: 16.6 Consensus size: 5
7586303 GCCATCCCAT
*
7586313 TTTTA TTTTA TTTTA TTTTA -TTTA TTATTA TTTGTTA TATTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA -TT-TTA TTTTA TTTTA
* *
7586359 TTTTTA TTTTA -CTAA TTTTTA TTTTA -TTTA -TTTA TTT
1 -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTT
7586396 ATTATTCTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
4 17 0.27
5 31 0.49
6 10 0.16
7 5 0.08
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:7586333 original size:15 final size:15
Alignment explanation
Indices: 7586311--7586391 Score: 85
Period size: 15 Copynumber: 5.3 Consensus size: 15
7586301 TAGCCATCCC
7586311 ATTTTTATTTTATTT
1 ATTTTTATTTTATTT
7586326 -TATTTTA-TTTATTATT
1 AT-TTTTATTTTA-T-TT
*
7586342 ATTTGTTATATTATTT
1 ATTT-TTATTTTATTT
* *
7586358 ATTTTTATTTTACTA
1 ATTTTTATTTTATTT
7586373 ATTTTTATTTTATTT
1 ATTTTTATTTTATTT
7586388 ATTT
1 ATTT
7586392 ATTTATTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 5 0.09
15 31 0.57
16 10 0.19
17 5 0.09
18 3 0.06
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (15 bp):
ATTTTTATTTTATTT
Found at i:7586350 original size:22 final size:20
Alignment explanation
Indices: 7586314--7586436 Score: 79
Period size: 19 Copynumber: 6.4 Consensus size: 20
7586304 CCATCCCATT
*
7586314 TTTATTTTA-TTTTATTTTA
1 TTTATTTTATTTTTATATTA
7586333 TTTATTATTATTTGTTATATTA
1 TTTATT-TTATTT-TTATATTA
7586355 TTTATTTT-TATTTTACTAATT-
1 TTTATTTTAT-TTTTA-T-ATTA
7586376 TTTATTTTA--TTTAT-TTA
1 TTTATTTTATTTTTATATTA
*
7586393 TTTA--TTATTCTTATACTTA
1 TTTATTTTATTTTTATA-TTA
**
7586412 --TATTTTAAATTTAT-TTA
1 TTTATTTTATTTTTATATTA
7586429 TTTATTTT
1 TTTATTTT
7586437 TTGCTATTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 32
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.04
16 2 0.02
17 13 0.16
18 1 0.01
19 26 0.31
20 7 0.08
21 15 0.18
22 16 0.19
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTATTTTATTTTTATATTA
Found at i:7586438 original size:60 final size:62
Alignment explanation
Indices: 7586311--7586427 Score: 152
Period size: 60 Copynumber: 1.9 Consensus size: 62
7586301 TAGCCATCCC
* **
7586311 ATTTTTATTTTATTTTATTTTATTTATTATTATTTGTTATATTATTTATTTTTATTTTACTA
1 ATTTTTATTTTATTTTATTTTATTTATTATTATTTCTTATATTATTTAAATTTATTTTACTA
*
7586373 ATTTTTATTTTA-TTTA-TTTATTTATTATTCTTATACTTATA-T-TTTAAATTTATTT
1 ATTTTTATTTTATTTTATTTTATTTATTATTATT-T-CTTATATTATTTAAATTTATTT
7586428 ATTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
60 26 0.53
61 6 0.12
62 17 0.35
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.71
Consensus pattern (62 bp):
ATTTTTATTTTATTTTATTTTATTTATTATTATTTCTTATATTATTTAAATTTATTTTACTA
Found at i:7589696 original size:30 final size:30
Alignment explanation
Indices: 7589639--7589697 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
7589629 TATAATTTCA
* * *
7589639 TTTTATTTTTATTTTAATTCATCCCTAATC
1 TTTTATATTTATTTCAATTAATCCCTAATC
7589669 TTTTATATTTATTTCAATTTAAT-CCTAAT
1 TTTTATATTTATTTCAA-TTAATCCCTAAT
7589698 GTCCATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTATATTTATTTCAATTAATCCCTAATC
Found at i:7606673 original size:13 final size:13
Alignment explanation
Indices: 7606655--7606679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7606645 TGTGGGAGCC
7606655 CACGGCCGTGTCG
1 CACGGCCGTGTCG
7606668 CACGGCCGTGTC
1 CACGGCCGTGTC
7606680 TGTCTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:7614676 original size:7 final size:6
Alignment explanation
Indices: 7614639--7614674 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
7614629 TTCAAACTAC
7614639 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
7614675 TAGCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:7628407 original size:16 final size:15
Alignment explanation
Indices: 7628384--7628424 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
7628374 TACTTTAGCC
7628384 ATTTATTTTATTTAA
1 ATTTATTTTATTTAA
*
7628399 ATTTAATTTTATTTTA
1 ATTT-ATTTTATTTAA
7628415 ATTT-TTTTAT
1 ATTTATTTTAT
7628425 ATCACTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 14 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATTTTATTTAA
Found at i:7631928 original size:15 final size:16
Alignment explanation
Indices: 7631891--7631929 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
7631881 CTCCCTTTCC
*
7631891 ATTCTTTCTTTTTCTT
1 ATTCTTTCTTTTCCTT
7631907 ATTCTTTC-TTTCCTT
1 ATTCTTTCTTTTCCTT
*
7631922 CTTCTTTC
1 ATTCTTTC
7631930 CCTTTCTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTCTTTCTTTTCCTT
Found at i:7633609 original size:21 final size:21
Alignment explanation
Indices: 7633569--7633609 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7633559 ACTGTGCTTA
* * *
7633569 GAGGTTCGACGGTCTTGATGC
1 GAGGTTCGACAGTATCGATGC
7633590 GAGGTTCGACAGTATCGATG
1 GAGGTTCGACAGTATCGATG
7633610 AGACTTTGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.27
Consensus pattern (21 bp):
GAGGTTCGACAGTATCGATGC
Found at i:7633728 original size:17 final size:19
Alignment explanation
Indices: 7633708--7633747 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
7633698 CTATTTTATC
7633708 TTTTTTTTATTT-TTTT-A
1 TTTTTTTTATTTATTTTCA
7633725 TTTTTTTTATTTATTTTCA
1 TTTTTTTTATTTATTTTCA
7633744 TTTT
1 TTTT
7633748 ATCTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.57
18 4 0.19
19 5 0.24
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTATTTATTTTCA
Found at i:7633735 original size:9 final size:9
Alignment explanation
Indices: 7633708--7633747 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
7633698 CTATTTTATC
7633708 TTTTTTTTA
1 TTTTTTTTA
7633717 -TTTTTTTA
1 TTTTTTTTA
7633725 TTTTTTTTA
1 TTTTTTTTA
*
7633734 TTTATTTTCA
1 TTT-TTTTTA
7633744 TTTT
1 TTTT
7633748 ATCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
9 12 0.43
10 8 0.29
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:7633767 original size:11 final size:10
Alignment explanation
Indices: 7633701--7633764 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
7633691 AGTCCATCTA
7633701 TTTTATCTTTT
1 TTTTAT-TTTT
7633712 TTTTATTTTT
1 TTTTATTTTT
7633722 TTATT-TTTTT
1 TT-TTATTTTT
*
7633732 TATTTATTTTCA
1 T-TTTATTTT-T
*
7633744 TTTTATCTTTC
1 TTTTAT-TTTT
7633755 TTTTATTTTT
1 TTTTATTTTT
7633765 CTTGAAGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 17 0.38
11 24 0.53
12 4 0.09
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:7648977 original size:3 final size:3
Alignment explanation
Indices: 7648964--7648998 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7648954 GGAACTCTTG
*
7648964 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7648999 CCTTACAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7658559 original size:26 final size:24
Alignment explanation
Indices: 7658524--7658572 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7658514 ATTTTATTGG
7658524 ATTTTAAATTTATGTTTATATTTTAT
1 ATTTTAAATTTA-GTTTAT-TTTTAT
*
7658550 ATTTTCAATTTAGTTTATTTTTA
1 ATTTTAAATTTAGTTTATTTTTA
7658573 GTAAGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTAGTTTATTTTTAT
Found at i:7664363 original size:31 final size:30
Alignment explanation
Indices: 7664299--7664363 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
7664289 AGTCTATATC
* *
7664299 TTTATAATTTTTAAAGGATTAAATTGAATT
1 TTTATAATTTTTAAAGGATTAAAGTGAAAT
7664329 TTTATAA-TTTTAAAGGAGGTTAAAGTGAAAT
1 TTTATAATTTTTAAAGGA--TTAAAGTGAAAT
7664360 TTTA
1 TTTA
7664364 CATTTACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 10 0.32
30 7 0.23
31 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATTAAAGTGAAAT
Found at i:7669853 original size:18 final size:19
Alignment explanation
Indices: 7669830--7669881 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
7669820 ATTTTTATTT
*
7669830 AAAATAAATATTATTTAA-
1 AAAATAAATATGATTTAAG
*
7669848 AAAATAAGTA-GA-TTAAG
1 AAAATAAATATGATTTAAG
7669865 AAAATAAATATGATTTA
1 AAAATAAATATGATTTA
7669882 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 11 0.39
19 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
AAAATAAATATGATTTAAG
Found at i:7670022 original size:19 final size:20
Alignment explanation
Indices: 7669987--7670025 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7669977 GGCATTATTT
7669987 TTATTTAGAATAAATAAATA
1 TTATTTAGAATAAATAAATA
7670007 TTATTTAGAA-AAATAAATA
1 TTATTTAGAATAAATAAATA
7670026 GATTAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATTTAGAATAAATAAATA
Found at i:7685601 original size:29 final size:27
Alignment explanation
Indices: 7685539--7685602 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
7685529 GTTTTTGTAT
* *
7685539 TATTTATATATTTAGAATTTAATTTTC
1 TATTTTTATATTTAGAATTTAATTCTC
* *
7685566 GATTTTTTATTTTTAAGAATTTAATCTCTC
1 TA-TTTTTATATTT-AGAATTTAAT-TCTC
7685596 TATTTTT
1 TATTTTT
7685603 TGAATTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.03
28 9 0.31
29 15 0.52
30 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTTATATTTAGAATTTAATTCTC
Found at i:7685611 original size:30 final size:29
Alignment explanation
Indices: 7685545--7685619 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
7685535 GTATTATTTA
*
7685545 TATATTT-AGAATTTAATTTTCGATTTTT
1 TATATTTAAGAATTTAATTCTCGATTTTT
* *
7685573 TATTTTTAAGAATTTAATCTCTCTATTTTT
1 TATATTTAAGAATTTAAT-TCTCGATTTTT
*
7685603 TGA-ATTTAAAAATTTAA
1 T-ATATTTAAGAATTTAA
7685620 GTCCAATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 6 0.15
29 10 0.26
30 22 0.56
31 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (29 bp):
TATATTTAAGAATTTAATTCTCGATTTTT
Found at i:7686288 original size:30 final size:30
Alignment explanation
Indices: 7686247--7686307 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
7686237 TGATACCCTC
*
7686247 AACAGCCTTGAAATGAATAGAAGAATGAAG
1 AACAACCTTGAAATGAATAGAAGAATGAAG
7686277 AACAACCTTGAAATGAATAGAAGAATGAAG
1 AACAACCTTGAAATGAATAGAAGAATGAAG
7686307 A
1 A
7686308 CCATCTACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.16
Consensus pattern (30 bp):
AACAACCTTGAAATGAATAGAAGAATGAAG
Done.