Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 22 of 160
Found at i:5951954 original size:20 final size:21
Alignment explanation
Indices: 5951918--5951969 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5951908 CCCGAAATTA
5951918 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
5951940 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
5951961 AT-AAATATT
1 ATAAAATATT
5951970 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:5951960 original size:21 final size:22
Alignment explanation
Indices: 5951918--5951969 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
5951908 CCCGAAATTA
5951918 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
5951940 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
5951961 AT-AAATATT
1 ATAAAATATT
5951970 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:5951977 original size:30 final size:30
Alignment explanation
Indices: 5951942--5951998 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
5951932 TTTAAAATAT
* * *
5951942 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
5951972 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
5951999 ATATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:5951989 original size:16 final size:16
Alignment explanation
Indices: 5951957--5952004 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
5951947 ATTATTTTTT
* *
5951957 AAATATAAATATTTAA
1 AAATATATATATATAA
5951973 AAATATCAT-TATATAA
1 AAATAT-ATATATATAA
*
5951989 ATATATATATATATAA
1 AAATATATATATATAA
5952005 TAAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 24 0.89
17 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATATATATATAA
Found at i:5953137 original size:32 final size:32
Alignment explanation
Indices: 5953096--5953156 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
5953086 TATAGTTACT
* *
5953096 TTTTTTATTTCTTTCATCTAT-TTTTTCTTAAA
1 TTTTTTATTT-TTTAATATATATTTTTCTTAAA
5953128 TTTTTTATTTTTTAATATATATTTTTCTT
1 TTTTTTATTTTTTAATATATATTTTTCTT
5953157 TCAAGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (32 bp):
TTTTTTATTTTTTAATATATATTTTTCTTAAA
Found at i:5953290 original size:19 final size:19
Alignment explanation
Indices: 5953249--5953289 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
5953239 ATTATAACTC
5953249 AAAATTTATAAATATTATT
1 AAAATTTATAAATATTATT
* *
5953268 AAAATTT-TTAATTTTATT
1 AAAATTTATAAATATTATT
5953286 AAAA
1 AAAA
5953290 ACAATAGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATTTATAAATATTATT
Found at i:5963326 original size:12 final size:14
Alignment explanation
Indices: 5963285--5963343 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
5963275 AAACTTGGTA
*
5963285 TATATATATAATATT
1 TATATTTAT-ATATT
* *
5963300 TTTA-TTATTTATT
1 TATATTTATATATT
5963313 TA-ATTT-TATATT
1 TATATTTATATATT
5963325 TATATTTATATA-T
1 TATATTTATATATT
5963338 TATATT
1 TATATT
5963344 AATAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
12 8 0.22
13 18 0.50
14 7 0.19
15 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATTTATATATT
Found at i:5963387 original size:26 final size:24
Alignment explanation
Indices: 5963342--5963389 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
5963332 ATATATTATA
* *
5963342 TTAATAAAATTATTATTTAATACT
1 TTAATAAAAATATTACTTAATACT
5963366 TTAATTAAAAATATTAACTTAATA
1 TTAA-TAAAAATATT-ACTTAATA
5963390 AAATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 9 0.45
26 7 0.35
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATAAAAATATTACTTAATACT
Found at i:5963465 original size:33 final size:30
Alignment explanation
Indices: 5963407--5963466 Score: 75
Period size: 33 Copynumber: 1.9 Consensus size: 30
5963397 ATATCTATGT
*
5963407 ATAATTAAAATATAATTTACATTAAAAATA
1 ATAATTAAAATATAATTTAAATTAAAAATA
*
5963437 ATAATTTATAAATATTATATTAAATTAAAA
1 ATAA-TTA-AAATATAAT-TTAAATTAAAA
5963467 TTACTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 3 0.12
32 8 0.32
33 10 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAATTAAAATATAATTTAAATTAAAAATA
Found at i:5967858 original size:7 final size:7
Alignment explanation
Indices: 5967846--5967871 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5967836 GAGGGAAGGA
5967846 GCTGGTG
1 GCTGGTG
5967853 GCTGGTG
1 GCTGGTG
5967860 GCTGGTG
1 GCTGGTG
5967867 GCTGG
1 GCTGG
5967872 AGATGATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.58, T:0.27
Consensus pattern (7 bp):
GCTGGTG
Found at i:5968225 original size:2 final size:2
Alignment explanation
Indices: 5968218--5968255 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5968208 CATTTCTTTA
5968218 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5968256 GGGAGTGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5981805 original size:15 final size:16
Alignment explanation
Indices: 5981780--5981812 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5981770 GCAGAGTCAA
5981780 AAAACAATTTTATTTT
1 AAAACAATTTTATTTT
*
5981796 AAAA-AATTTTCTTTT
1 AAAACAATTTTATTTT
5981811 AA
1 AA
5981813 TAGTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAACAATTTTATTTT
Found at i:5982733 original size:30 final size:32
Alignment explanation
Indices: 5982691--5982781 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 32
5982681 CCCGATCCGA
5982691 AATTAA-TAAAAATATTATTTTTTAAATATA-
1 AATTAATTAAAAATATTATTTTTTAAATATAT
* * *
5982721 AA-TATTTAAAAATATTATTATATAAATATATAT
1 AATTAATTAAAAATATTATT-TTTTAA-ATATAT
*
5982754 AATTAATTAAAAA-ATAATTTTTTAAATA
1 AATTAATTAAAAATATTATTTTTTAAATA
5982782 ATATCGGGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.04
30 15 0.31
31 7 0.14
32 9 0.18
33 7 0.14
34 9 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTAATTAAAAATATTATTTTTTAAATATAT
Found at i:5991517 original size:41 final size:41
Alignment explanation
Indices: 5991457--5991534 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
5991447 TTTTTGTGAG
*
5991457 ATAAAATTGTGAGACCAACGGATCAAAACGAATAATATCTC
1 ATAAAATCGTGAGACCAACGGATCAAAACGAATAATATCTC
* *
5991498 ATAAAATCGTGAGATCAACGGATCAAAATGAATAATA
1 ATAAAATCGTGAGACCAACGGATCAAAACGAATAATA
5991535 CCCTCACAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (41 bp):
ATAAAATCGTGAGACCAACGGATCAAAACGAATAATATCTC
Found at i:5995735 original size:30 final size:30
Alignment explanation
Indices: 5995701--5995763 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
5995691 GATTAAAAAG
5995701 ATTAAGAATGAAAATT-TTGTTAATTTAATA
1 ATTAA-AATGAAAATTATTGTTAATTTAATA
* * * *
5995731 ATTAAAATTAAAATTATTTTTTATTTTATA
1 ATTAAAATGAAAATTATTGTTAATTTAATA
5995761 ATT
1 ATT
5995764 CAATTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (30 bp):
ATTAAAATGAAAATTATTGTTAATTTAATA
Found at i:5996458 original size:16 final size:16
Alignment explanation
Indices: 5996439--5996469 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5996429 TTGTTTTTGT
5996439 TTTAAAAATTTTTTAA
1 TTTAAAAATTTTTTAA
*
5996455 TTTAAAATTTTTTTA
1 TTTAAAAATTTTTTA
5996470 TATATTTTTT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAAATTTTTTAA
Found at i:5996796 original size:102 final size:100
Alignment explanation
Indices: 5996557--5996816 Score: 283
Period size: 102 Copynumber: 2.6 Consensus size: 100
5996547 AGAAATATAG
* * *
5996557 TATTTAACTTGATGGCTTTTGGTTTAATGAGAATTTATTATAGGTATAGCAATTATTGATTTCTT
1 TATTTGACTTGATGGCTTTTGATTTAATGAGAATTTATTATAAGTATAGCAATTATTGATTTCTT
* *
5996622 TAACATAAATGCAATATTTGGCATTTTAATTTTTTT
66 TAACATAAATACAATATTTGACATTTT-ATTTTTTT
*** * * *
5996658 TGCATGA-TTAGATGACTTTTGATTTAATGA-ACATTTATTATAATTATGGCAATTATTGCATTT
1 TATTTGACTT-GATGGCTTTTGATTTAATGAGA-ATTTATTATAAGTATAGCAATTATTG-ATTT
* * *
5996721 CTTTGAATATAAATATAGTATTTGACATTTT-TTTTTATT
63 CTTT-AACATAAATACAATATTTGACATTTTATTTTT-TT
* * * *
5996760 TATTTGACTTGATGGCTTTTGATTTAATGAGTATTTATTATTAGTCTATCAATTATT
1 TATTTGACTTGATGGCTTTTGATTTAATGAGAATTTATTATAAGTATAGCAATTATT
5996817 ATGTTTATTC
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
100 3 0.02
101 49 0.38
102 53 0.41
103 23 0.18
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (100 bp):
TATTTGACTTGATGGCTTTTGATTTAATGAGAATTTATTATAAGTATAGCAATTATTGATTTCTT
TAACATAAATACAATATTTGACATTTTATTTTTTT
Found at i:5997636 original size:30 final size:30
Alignment explanation
Indices: 5997594--5997671 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
5997584 TTGATTTATA
* *
5997594 TTAAATGTTTATTTGAATAT-AAATTAAAG
1 TTAAAAGTTTATTTGAATATAAAATAAAAG
* * *
5997623 TTTAAGAGTTTATTTGGATGTAAAATAAAAG
1 -TTAAAAGTTTATTTGAATATAAAATAAAAG
*
5997654 TTAAAAATTTATTTGAAT
1 TTAAAAGTTTATTTGAAT
5997672 GCAATAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 31 0.79
31 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (30 bp):
TTAAAAGTTTATTTGAATATAAAATAAAAG
Found at i:5998026 original size:12 final size:12
Alignment explanation
Indices: 5998001--5998041 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
5997991 CAATATATAA
5998001 AATTATTT-TTT
1 AATTATTTATTT
5998012 AATTATTTATTT
1 AATTATTTATTT
*
5998024 AATTATATATTT
1 AATTATTTATTT
5998036 ATATTA
1 A-ATTA
5998042 AAAAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 8 0.30
12 15 0.56
13 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:5998056 original size:20 final size:21
Alignment explanation
Indices: 5998028--5998079 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
5998018 TTATTTAATT
5998028 ATATATTTATA-TTAAAAAATA
1 ATAT-TTTATATTTAAAAAATA
5998049 ATATTTTATATTTTAAAAAATA
1 ATATTTTATA-TTTAAAAAATA
5998071 ATATTTTAT
1 ATATTTTAT
5998080 TAATTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 19 0.66
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:5998337 original size:4 final size:4
Alignment explanation
Indices: 5998300--5998346 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
5998290 ATAATTACAT
* * *
5998300 ATAC ATGC ATAC -TACC ATAC GTAC ATAC AAAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
5998347 TATATATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
3 2 0.06
4 31 0.89
5 2 0.06
ACGTcount: A:0.47, C:0.26, G:0.04, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:6003633 original size:3 final size:3
Alignment explanation
Indices: 6003625--6003652 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6003615 CACCCCACTT
6003625 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6003653 GATTCTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6004560 original size:18 final size:18
Alignment explanation
Indices: 6004539--6004575 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6004529 ATATTTTTTA
* *
6004539 ATTTTATAATATCAATTT
1 ATTTTACAAAATCAATTT
6004557 ATTTTACAAAATCAATTT
1 ATTTTACAAAATCAATTT
6004575 A
1 A
6004576 ATTAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTACAAAATCAATTT
Found at i:6004588 original size:14 final size:14
Alignment explanation
Indices: 6004571--6004603 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6004561 TACAAAATCA
6004571 ATTTAATTAAT-TAT
1 ATTTAA-TAATATAT
6004585 ATTTAATAATATAT
1 ATTTAATAATATAT
6004599 ATTTA
1 ATTTA
6004604 TACTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTAATAATATAT
Found at i:6005907 original size:21 final size:19
Alignment explanation
Indices: 6005879--6005932 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
6005869 TTTATTTGTA
6005879 ATAA-TAATTTTTTACATT
1 ATAATTAATTTTTTACATT
* *
6005897 ACTAAATTAATTATTTACGTT
1 A-T-AATTAATTTTTTACATT
*
6005918 ATAATAAATTTTTTA
1 ATAATTAATTTTTTA
6005933 TGCTTGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAATTAATTTTTTACATT
Found at i:6005967 original size:216 final size:216
Alignment explanation
Indices: 6005626--6006214 Score: 596
Period size: 216 Copynumber: 2.7 Consensus size: 216
6005616 TCTTTTTACT
* * * * *
6005626 TTAACACTTATTTTT-TAATTTAGAATTA-ATTTTATTTGTAATACTAATTTTTTTATGTTA-TA
1 TTAATACTTATTTTTCTTATTTAAAATTATTTTTTATTTGTAATAATAA-TTTTTTATGTTACTA
* * *
6005688 AAT--TTA-TTAGTT-TCAATAATATCTTTTTACGTTTGTTGTTACTTTTCATTATATTTAAAAT
65 AATAATTATTTAGTTAT-AATAATAT-TTTTTATGCTTGTTGTTACTTTTCATTATGTTTAAAAT
* *
6005749 TATTATAATTTTTTTGTTAACA-T-ATATCGATACTTCTAACCATTTTACATAAAATAAT-TTCA
128 TATTATAA-CTTTTTGTTAA-AGTGATAT-GATACTTCTAACCATTTTACACAAAATAATATT-A
*
6005811 ATTTTATGATTATTCTCATC-GTTTTATG
189 ATTTTATGATTATTCTCA-CAGTTTTATA
* **
6005839 TTAACT-CTT-TTTTT-TTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTACATTACTA
1 TTAA-TACTTATTTTTCTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTATGTTACTA
*
6005901 AATTAATTATTTACGTTATAATAA-ATTTTTTATGCTTGTTGTTACCTTTCATTATGTTTAAAAT
65 AA-TAATTATTTA-GTTATAATAATATTTTTTATGCTTGTTGTTACTTTTCATTATGTTTAAAAT
* * ** *
6005965 TATTATAACTTTTTCTTAAAGGTGTTATGATACTTCTAATTATTTTACGCAAAATAATATTAATT
128 TATTATAACTTTTTGTTAAA-GTGATATGATACTTCTAACCATTTTACACAAAATAATATTAATT
* * *
6006030 TTATTATTATTTTCACATTTTTTATA
192 TTATGATTATTCTCACA-GTTTTATA
* * * *
6006056 TTAATACTTATTTTTCTTATTTAGAATTATTATTTATTTGTAATAATAATTCTTTTATGTTGCCA
1 TTAATACTTATTTTTCTTATTTAAAATTATTTTTTATTTGTAATAATAATT-TTTTATGTTACTA
* * * * * * *
6006121 AAAATATTATTTATGTTAGAATAATTTTTTTTATACTTGTTTTTATTTTTTATTATGTTTAAAAT
65 AATA-ATTATTTA-GTTATAATAATATTTTTTATGCTTGTTGTTACTTTTCATTATGTTTAAAAT
* * *
6006186 TATCATAACTTTTTGTTAAGGTGTTATGA
128 TATTATAACTTTTTGTTAAAGTGATATGA
6006215 CGCTTTTAAT
Statistics
Matches: 313, Mismatches: 42, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
212 25 0.08
213 28 0.09
214 2 0.01
215 10 0.03
216 90 0.29
217 23 0.07
218 13 0.04
219 34 0.11
220 37 0.12
221 51 0.16
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.55
Consensus pattern (216 bp):
TTAATACTTATTTTTCTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTATGTTACTAA
ATAATTATTTAGTTATAATAATATTTTTTATGCTTGTTGTTACTTTTCATTATGTTTAAAATTAT
TATAACTTTTTGTTAAAGTGATATGATACTTCTAACCATTTTACACAAAATAATATTAATTTTAT
GATTATTCTCACAGTTTTATA
Found at i:6006235 original size:221 final size:219
Alignment explanation
Indices: 6005847--6006263 Score: 532
Period size: 221 Copynumber: 1.9 Consensus size: 219
6005837 TGTTAACTCT
* * * * *
6005847 TTTTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTACATTACTAAATTAATTATT
1 TTTTTCTTATTTAAAATTATTATTTATTTGTAATAATAATTTTTTACATTACAAAAATAATTATT
* * *
6005912 TACGTTATAATAAATTTTTTATGCTTGTTGTTACCTTTCATTATGTTTAAAATTATTATAACTTT
66 TACGTTAGAATAAATTTTTTATACTTGTTGTTACCTTTCATTATGTTTAAAATTATCATAACTTT
* * * * *
6005977 TTCTTAAAGGTGTTATGATACTTCTAATTATTTTACGCAAAATAATATTAATTTTATTATTATTT
131 TTCTTAAAGGTGTTATGACACTTCTAATTAATTTACGCAAAACAATACTAATTTTATAATTATTT
6006042 TCACATTTTTTATATTAATACTTA
196 TCACATTTTTTATATTAATACTTA
* ** *
6006066 TTTTTCTTATTTAGAATTATTATTTATTTGTAATAATAATTCTTTTATGTTGCCAAAAAT-ATTA
1 TTTTTCTTATTTAAAATTATTATTTATTTGTAATAATAATT-TTTTACATT-ACAAAAATAATTA
* * * ** *
6006130 TTTATGTTAGAATAATTTTTTTTATACTTGTTTTTATTTTTTATTATGTTTAAAATTATCATAAC
64 TTTACGTTAGAATAA-ATTTTTTATACTTGTTGTTACCTTTCATTATGTTTAAAATTATCATAAC
* * * * *
6006195 TTTTTGTT-AAGGTGTTATGACGCTTTTAATCTAATTTACGCTAAACGATACTAATTTTATAATT
128 TTTTTCTTAAAGGTGTTATGACACTTCTAAT-TAATTTACGCAAAACAATACTAATTTTATAATT
6006259 ATTTT
192 ATTTT
6006264 ATCCTTTTAC
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
219 37 0.22
220 43 0.26
221 86 0.52
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (219 bp):
TTTTTCTTATTTAAAATTATTATTTATTTGTAATAATAATTTTTTACATTACAAAAATAATTATT
TACGTTAGAATAAATTTTTTATACTTGTTGTTACCTTTCATTATGTTTAAAATTATCATAACTTT
TTCTTAAAGGTGTTATGACACTTCTAATTAATTTACGCAAAACAATACTAATTTTATAATTATTT
TCACATTTTTTATATTAATACTTA
Found at i:6007221 original size:3 final size:3
Alignment explanation
Indices: 6007207--6007280 Score: 59
Period size: 3 Copynumber: 26.3 Consensus size: 3
6007197 TCTTTTTTAT
* * *
6007207 ATA ATA ACA ATA ATA ATT TTA ATA ATA ATA ATA ATA ATA A-A AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
6007253 TTA A-A A-A ATA TTA TTA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6007281 ATAAAAAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 10 0.18
3 47 0.82
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:6010204 original size:19 final size:18
Alignment explanation
Indices: 6010178--6010224 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
6010168 ATGATTATTT
*
6010178 TTATTTTTTTATGTTAACA
1 TTATTTTTTTGTG-TAACA
*
6010197 CTTATTTTTTTGTGTAAGA
1 -TTATTTTTTTGTGTAACA
6010216 TTATTTTTT
1 TTATTTTTT
6010225 GTTTAGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 4 0.16
20 12 0.48
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (18 bp):
TTATTTTTTTGTGTAACA
Found at i:6010436 original size:20 final size:22
Alignment explanation
Indices: 6010413--6010467 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 22
6010403 TTTTACATTG
*
6010413 AATTTTATTTTTTGGTT-TAA-
1 AATTTTATTTTTTAGTTGTAAT
* *
6010433 AATTAT-TTTTTTATTTGTAAT
1 AATTTTATTTTTTAGTTGTAAT
6010454 AATATTTATTTTTT
1 AAT-TTTATTTTTT
6010468 CGTTATCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 3 0.11
22 2 0.07
23 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
AATTTTATTTTTTAGTTGTAAT
Found at i:6010493 original size:21 final size:20
Alignment explanation
Indices: 6010463--6010508 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 20
6010453 TAATATTTAT
6010463 TTTTTCGTTATCAACTTAAT-TC
1 TTTTTCGTTA-CAA--TAATATC
6010485 TTTTT-GTTACAATAATATC
1 TTTTTCGTTACAATAATATC
6010504 TTTTT
1 TTTTT
6010509 ATACGTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 3 0.13
21 4 0.17
22 5 0.22
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTCGTTACAATAATATC
Found at i:6010520 original size:220 final size:218
Alignment explanation
Indices: 6010037--6010731 Score: 535
Period size: 220 Copynumber: 3.2 Consensus size: 218
6010027 TTATATTTTT
** * * * *
6010037 AACTTAATTATTTACATTATAATAATATTTTTT-TGCTTGTTGTTACTTTTCATTATGTTTAATA
1 AACTTAATTATTTATGTTACAATAATATTTTTTATACTTGTTGTTACTTTTCATTATATTTAAAA
* * * * *
6010101 TTATTATAACTTTTTTTAAAGGTGTTACGATATTTCTAATCATTTTACATTAAAAAAAATTAGTT
66 TTATTATAACTTTTTTTAAAGGTGTAACGATACTTATAATCATTTTACATTAAAAAAAACTAATT
* * * * ** * *
6010166 TTATGATTATTTTTATTTTTTTATGTTAACACTTATTTTTTTGTGTAAGATTATTTTTTGTTTAG
131 TTACGATTATTCTCACTTTTTTACATTAACACTTATTTTTTGGTGTAAAATTATTTTTTGTTTAG
**
6010231 AATGCTAGTTTTTTTACATTACC
196 AATAATAGTTTTTTTACATTACC
* ** * *
6010254 AATTTAATTATTTATGTTTTAATAATATTTTTTTTACACTTGTTGTTACTTTTTATTATATTTAA
1 AACTTAATTATTTATGTTACAATAATA--TTTTTTATACTTGTTGTTACTTTTCATTATATTTAA
* * *
6010319 AATTATTATAA-TATTTTATT-AAGGTGTAACGATACTTATAATCA-TTTACGTTAAATAATACT
64 AATTATTATAACT-TTTT-TTAAAGGTGTAACGATACTTATAATCATTTTACATTAAAAAAAACT
** *
6010381 AATTTTACGATTATTCTCACTTTTTTACATTGAA-TTTTATTTTTTGGTTTAAAATTATTTTTT-
127 AATTTTACGATTATTCTCACTTTTTTACATT-AACACTTATTTTTTGGTGTAAAATTATTTTTTG
* * * * *
6010444 TATTTGTAATAATATTTATTTTTTCGTTATC
191 T-TTAG-AATAATAGTT-TTTTTACATTACC
* * * * * * *
6010475 AACTTAATTCTTTTTGTTACAATAATATCTTTTTATACGTGTTGTTTCTTTTCATTATGTCTATA
1 AACTTAATTATTTATGTTACAATAATAT-TTTTTATACTTGTTGTTACTTTTCATTATATTTAAA
* * * * * * * * * * * * **
6010540 ACTATCACAACTCTTTGTT-AGGGTGTTATGATAATTTTTACTCATTTTATATTAAATAGCA-TC
65 ATTATTATAACT-TTTTTTAAAGGTGTAACGAT-ACTTATAATCATTTTACATTAAAAAAAACT-
* * * * * * * * *
6010603 AATCTTATGATTATTCTCAATTTTTTACGTTAACATTTATTTATTGGTTTAGAATTATTCTTTAG
127 AATTTTACGATTATTCTCACTTTTTTACATTAACACTTATTTTTTGGTGTAAAATTATT-TTT-T
* * ***
6010668 GTTTCAG-GTAATAATTTTTTTACATTGTA
190 GTTT-AGAATAATAGTTTTTTTACATTACC
6010697 AACTTAATTATTTATGTTACAATAATATATTTTTA
1 AACTTAATTATTTATGTTACAATAATAT-TTTTTA
6010732 CCCTTATTCT
Statistics
Matches: 379, Mismatches: 80, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
217 23 0.06
218 1 0.00
219 73 0.19
220 117 0.31
221 49 0.13
222 102 0.27
223 10 0.03
224 2 0.01
225 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (218 bp):
AACTTAATTATTTATGTTACAATAATATTTTTTATACTTGTTGTTACTTTTCATTATATTTAAAA
TTATTATAACTTTTTTTAAAGGTGTAACGATACTTATAATCATTTTACATTAAAAAAAACTAATT
TTACGATTATTCTCACTTTTTTACATTAACACTTATTTTTTGGTGTAAAATTATTTTTTGTTTAG
AATAATAGTTTTTTTACATTACC
Found at i:6031829 original size:2 final size:2
Alignment explanation
Indices: 6031817--6031855 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
6031807 TTTAACTAAC
* * *
6031817 TA TA CA TA TA TA TA TA TA TA TA TA TT TA TT 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
6031856 TTTAAGTACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:6035344 original size:17 final size:17
Alignment explanation
Indices: 6035322--6035358 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6035312 TGAGTTTATC
6035322 TAATTGTATTAGAA-GTA
1 TAATTGTATTA-AATGTA
6035339 TAATTGTATTAAATGTA
1 TAATTGTATTAAATGTA
6035356 TAA
1 TAA
6035359 AGGTATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TAATTGTATTAAATGTA
Found at i:6037598 original size:27 final size:26
Alignment explanation
Indices: 6037568--6037621 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6037558 GAAATGCTAC
*
6037568 CTAGAAAAACCTTGTAAAAAAAAAAAA
1 CTAG-AAAACCTTGCAAAAAAAAAAAA
* *
6037595 CTAGAAAACTTTGCCAAAAAAAAAAA
1 CTAGAAAACCTTGCAAAAAAAAAAAA
6037621 C
1 C
6037622 CAAAAAGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (26 bp):
CTAGAAAACCTTGCAAAAAAAAAAAA
Found at i:6039419 original size:60 final size:57
Alignment explanation
Indices: 6039321--6039632 Score: 170
Period size: 60 Copynumber: 5.2 Consensus size: 57
6039311 AATAAATAAA
*
6039321 TAAAAGAAAATATTTCAAAAAATA--TTTT-AAGGAAAAGTTAAAAGTATCAATTTTTCT
1 TAAAATAAAAT-TTT-AAAAAATATTTTTTGAA-GAAAAGTTAAAAGTATCAATTTTTCT
* * *
6039378 TAAACATAAAATTTTCAAAAGATATTCTTTTGAAGAAAAGTTAAGAGTATTAA-TTTTCTT
1 TAAA-ATAAAATTTT-AAAAAATATT-TTTTGAAGAAAAGTTAAAAGTATCAATTTTTC-T
* * * * * **
6039438 TGAAAATAAATTTTTAAAAAAAATGAATTTCTAAATAAACTTTTTTTTAAGGAAAGTATCAATTT
1 T-AAAATAAAATTTT--AAAAAAT-ATTTTTTGAAGAAA-----AGTT-A--AAAGTATCAATTT
6039503 TTCT
54 TTCT
* *
6039507 TGAAAATAAAAATTTTTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
1 T-AAAAT-AAAA-TTTTAAAAAATATTTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCT
* * ** * * *
6039567 CGT-AAATAAAAATTTTGAAAGAT-GCTTTTGAAGAAAAGTTAAAAATATCAATTGTCCT
1 --TAAAAT-AAAATTTTAAAAAATATTTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCT
6039625 T-AAATAAA
1 TAAAATAAA
6039633 TGCATGAGCT
Statistics
Matches: 200, Mismatches: 33, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
55 3 0.01
56 5 0.03
57 15 0.08
58 34 0.17
59 14 0.07
60 58 0.29
61 19 0.09
62 3 0.01
63 2 0.01
66 2 0.01
67 1 0.00
68 9 0.05
69 23 0.12
70 8 0.04
71 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (57 bp):
TAAAATAAAATTTTAAAAAATATTTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCT
Found at i:6040725 original size:12 final size:12
Alignment explanation
Indices: 6040708--6040734 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6040698 TTAGTTGAAT
6040708 TTTTTTCTTTCA
1 TTTTTTCTTTCA
6040720 TTTTTTCTTTCA
1 TTTTTTCTTTCA
6040732 TTT
1 TTT
6040735 AAAGTAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTTCA
Found at i:6048003 original size:15 final size:15
Alignment explanation
Indices: 6047964--6048004 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6047954 TTTTTTTGCT
6047964 TTTTTTTTCTCTTTTA
1 TTTTTTTT-TCTTTTA
* *
6047980 TCTTATTTTCTTTTA
1 TTTTTTTTTCTTTTA
6047995 TTTTTTTTTC
1 TTTTTTTTTC
6048005 AAACTCTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTCTTTTA
Found at i:6048510 original size:15 final size:15
Alignment explanation
Indices: 6048490--6048522 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6048480 TGTTTTTCTC
6048490 ATGATGCAAATACAA
1 ATGATGCAAATACAA
*
6048505 ATGATGCAAATGCAA
1 ATGATGCAAATACAA
6048520 ATG
1 ATG
6048523 TCTTTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (15 bp):
ATGATGCAAATACAA
Found at i:6053579 original size:14 final size:15
Alignment explanation
Indices: 6053562--6053623 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 15
6053552 TTTCTTTTTC
6053562 TTTTTCG-TTTTTGA
1 TTTTTCGATTTTTGA
*
6053576 TTTTTTGATTTTTGA
1 TTTTTCGATTTTTGA
6053591 TTTTT-GATTTTTGA
1 TTTTTCGATTTTTGA
* *
6053605 ATTTT-GAATTTTGA
1 TTTTTCGATTTTTGA
*
6053619 ATTTT
1 TTTTT
6053624 GAATTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
14 32 0.73
15 12 0.27
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.69
Consensus pattern (15 bp):
TTTTTCGATTTTTGA
Found at i:6053580 original size:8 final size:7
Alignment explanation
Indices: 6053569--6053631 Score: 81
Period size: 7 Copynumber: 8.7 Consensus size: 7
6053559 TTCTTTTTCG
6053569 TTTTTGA
1 TTTTTGA
6053576 TTTTTTGA
1 -TTTTTGA
6053584 TTTTTGA
1 TTTTTGA
6053591 TTTTTGA
1 TTTTTGA
6053598 TTTTTGA
1 TTTTTGA
*
6053605 ATTTTGA
1 TTTTTGA
*
6053612 ATTTTGA
1 TTTTTGA
*
6053619 ATTTTGAA
1 TTTTTG-A
6053627 TTTTT
1 TTTTT
6053632 TTTATTATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
7 40 0.77
8 12 0.23
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (7 bp):
TTTTTGA
Found at i:6058294 original size:3 final size:3
Alignment explanation
Indices: 6058288--6058328 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6058278 ATAATAACAA
* *
6058288 TAG TAG TAG TAG AAG TAG TAA TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
6058329 ATAATAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:6058333 original size:3 final size:3
Alignment explanation
Indices: 6058327--6058372 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
6058317 GTAGTAGTAG
6058327 TAA TAA TAA TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6058373 GTTTGGGCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6059000 original size:23 final size:24
Alignment explanation
Indices: 6058973--6059020 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
6058963 GTGAAATTTT
*
6058973 TATTTTTCATTCAT-GGAATTGAA
1 TATTTTTAATTCATAGGAATTGAA
*
6058996 TATTTTTAATTCATAGGGATTGAA
1 TATTTTTAATTCATAGGAATTGAA
6059020 T
1 T
6059021 TTATGGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (24 bp):
TATTTTTAATTCATAGGAATTGAA
Found at i:6073870 original size:143 final size:141
Alignment explanation
Indices: 6073612--6073895 Score: 532
Period size: 143 Copynumber: 2.0 Consensus size: 141
6073602 ATGTAAAATG
6073612 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
*
6073677 AGAGCTTAGGTGCGACTGTTTATATTTAAGATCCCAATTTTATTATACTTTTTTTATTTATTAAT
66 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATAC--TTTTTATTTATTAAT
6073742 CTTATTATTAATA
129 CTTATTATTAATA
6073755 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
*
6073820 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCTCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
6073885 TATTATTAATA
131 TATTATTAATA
6073896 TGAATTATGA
Statistics
Matches: 139, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
141 28 0.20
143 111 0.80
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (141 bp):
AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
TATTATTAATA
Found at i:6074606 original size:12 final size:12
Alignment explanation
Indices: 6074586--6074636 Score: 66
Period size: 12 Copynumber: 4.0 Consensus size: 12
6074576 AGGTCTGACC
6074586 GGTTCGGCGGTT
1 GGTTCGGCGGTT
*
6074598 GGATCGGCGGTT
1 GGTTCGGCGGTT
6074610 CGGTTCGGTCTGGTT
1 -GGTTCGG-C-GGTT
6074625 GGTTCGGCGGTT
1 GGTTCGGCGGTT
6074637 TAGTACCGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 15 0.44
13 7 0.21
14 8 0.24
15 4 0.12
ACGTcount: A:0.02, C:0.18, G:0.47, T:0.33
Consensus pattern (12 bp):
GGTTCGGCGGTT
Found at i:6074631 original size:27 final size:25
Alignment explanation
Indices: 6074585--6074636 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
6074575 GAGGTCTGAC
6074585 CGGTTCGGCGGTTGGATCGGCGGTT
1 CGGTTCGGCGGTTGGATCGGCGGTT
*
6074610 CGGTTCGGTCTGGTTGGTTCGGCGGTT
1 CGGTTCGG-C-GGTTGGATCGGCGGTT
6074637 TAGTACCGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 15 0.62
ACGTcount: A:0.02, C:0.19, G:0.46, T:0.33
Consensus pattern (25 bp):
CGGTTCGGCGGTTGGATCGGCGGTT
Found at i:6075587 original size:17 final size:18
Alignment explanation
Indices: 6075565--6075627 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 18
6075555 TTCTTTTTTT
*
6075565 TTTTG-TTTGTTTACTTG
1 TTTTGTTTTGTTTTCTTG
6075582 TTTTG-TTT-TTTTC-TG
1 TTTTGTTTTGTTTTCTTG
*
6075597 TTTTGTTTTTTTTTCTT-
1 TTTTGTTTTGTTTTCTTG
6075614 TTTTGTTTTGTTTT
1 TTTTGTTTTGTTTT
6075628 GTTAAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 26 0.63
18 1 0.02
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.81
Consensus pattern (18 bp):
TTTTGTTTTGTTTTCTTG
Found at i:6075607 original size:22 final size:22
Alignment explanation
Indices: 6075582--6075627 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6075572 TGTTTACTTG
*
6075582 TTTTGTTT-TTTTCTGTTTTGT
1 TTTTTTTTCTTTTCTGTTTTGT
*
6075603 TTTTTTTTCTTTTTTGTTTTGT
1 TTTTTTTTCTTTTCTGTTTTGT
6075625 TTT
1 TTT
6075628 GTTAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (22 bp):
TTTTTTTTCTTTTCTGTTTTGT
Found at i:6075628 original size:5 final size:5
Alignment explanation
Indices: 6075579--6075630 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
6075569 GTTTGTTTAC
*
6075579 TTGTT TTGTT TT-TT TCTGTT TTGTT TT-TT TT-TC TT-TT TTGTT TTGTT
1 TTGTT TTGTT TTGTT T-TGTT TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT
6075626 TTGTT
1 TTGTT
6075631 AAATATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 13 0.31
5 26 0.62
6 3 0.07
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (5 bp):
TTGTT
Found at i:6075954 original size:49 final size:49
Alignment explanation
Indices: 6075794--6076895 Score: 1494
Period size: 48 Copynumber: 22.7 Consensus size: 49
6075784 ACAGAAAAGG
* * * *
6075794 GCTCCTCTTAGCAGAGACTCAACAACTTTAAAATTTCTTT-TTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* *
6075842 GCTCCTCTCAACAGAGGTTCCACAACTTTAAAATTT-TATT-TCGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
* * *
6075890 GCTCCTCTCAGCAGAGGCTCAACAACTTCAAAATTTCTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* * *
6075939 GCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTT-TCATCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
6075988 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TTCTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
*
6076036 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTCATTTC--G-AAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATT-TC-TTTCTTGAAAAA
*
6076084 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* * *
6076133 GCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTT-TCATCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
*
6076182 GCTCCTCTCAACAGAGACTCCACAACTTTAAAATTT-TTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* * * *
6076230 GCTCCTCTAAACAGAGGCTCTACAACTTTAAAAATTCTTAT-TTCGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTT-TCTT-GAAAAA
*
6076280 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAGA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* * *
6076329 GCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTT-TCATCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
6076378 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TTCTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* * *
6076426 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAAATTCTTAT-TTCGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTT-TCTT-GAAAAA
*
6076476 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAGA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* * *
6076525 GCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTT-TCATCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
* * *
6076574 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAA-ATCTCAT-TTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
* * *
6076622 GCTCCTCTCAACAGAGGCTTCATAACTTTAAAATTTCATT-TTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
* *
6076670 -CTCCTCTCAACAGAGGCTCCACAACTTTAAAA-ATCTCATC-TGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCT-TTCTTGAAAAA
* * *
6076717 GCTCCTCTCAACAGAGGCTTCATAACTTTAAAATTTCATT-TTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
*
6076765 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAA-TTCTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
*
6076813 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATT-TCTTTCTTGAAAAA
*
6076863 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAA
6076896 ATCTCATTTG
Statistics
Matches: 937, Mismatches: 84, Indels: 64
0.86 0.08 0.06
Matches are distributed among these distances:
46 6 0.01
47 45 0.05
48 399 0.43
49 347 0.37
50 136 0.15
51 4 0.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (49 bp):
GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTTCTTGAAAAA
Found at i:6076391 original size:196 final size:195
Alignment explanation
Indices: 6075794--6076895 Score: 1758
Period size: 196 Copynumber: 5.7 Consensus size: 195
6075784 ACAGAAAAGG
* * * *
6075794 GCTCCTCTTAGCAGAGACTCAACAACTTTAAAATTTCTTT-TTGAAAAAGCTCCTCTCAACAGAG
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TTCTTTCTTGAAAAAGCTCCTCTCAACAGAG
* * * * * *
6075858 GTTCCACAACTTTAAAATT-TTATTTCGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTCAAA
65 GCTCTACAACTTTAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAA
6075922 ATTTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAA
130 ATTTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAA
6075987 A
195 A
6075988 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
*
6076053 CTCTACAACTTTAAAATTCTCATTTC-GAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA
66 CTCTACAACTTTAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA
*
6076117 TTTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAAA
131 TTTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAAA
* * *
6076182 GCTCCTCTCAACAGAGACTCCACAACTTTAAAATTTTTTCTTGAAAAAGCTCCTCTAAACAGAGG
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
6076247 CTCTACAACTTTAAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAA
66 CTCTACAACTTT-AAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAA
*
6076312 ATTTCTTTCTTGAAAGAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAA
130 ATTTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAA
6076377 A
195 A
6076378 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
6076443 CTCTACAACTTTAAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAA
66 CTCTACAACTTT-AAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAA
*
6076508 ATTTCTTTCTTGAAAGAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAA
130 ATTTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAA
6076573 A
195 A
* * *
6076574 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAAATCTCAT-TTGAAAAAGCTCCTCTCAACAGAG
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCT-TTCTTGAAAAAGCTCCTCTCAACAGAG
* * * *
6076638 GCT-TCATAACTTTAAAATT-TCATTT-TGAAAAACTCCTCTCAACAGAGGCTCCACAACTTTAA
65 GCTCT-ACAACTTTAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
* * * * *
6076700 AA-ATCTCATC-TGAAAAAGCTCCTCTCAACAGAGGCTTCATAACTTTAAAA-TTTCATTTTGAA
129 AATTTCT-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGA
6076762 AAA
193 AAA
*
6076765 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
* * *
6076830 CTCCACAACTTTAAAATTCTT-TTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
66 CTCTACAACTTTAAAATTCTTATTTC--GGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6076894 AA
129 AA
6076896 ATCTCATTTG
Statistics
Matches: 852, Mismatches: 43, Indels: 26
0.93 0.05 0.03
Matches are distributed among these distances:
190 1 0.00
191 92 0.11
192 42 0.05
193 45 0.05
194 282 0.33
195 26 0.03
196 363 0.43
197 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (195 bp):
GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
CTCTACAACTTTAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA
TTTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAATTTTCATCTTGGAAAA
Found at i:6080987 original size:17 final size:17
Alignment explanation
Indices: 6080965--6080998 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6080955 GAAATGAAGA
6080965 GAAAAAAAAAAGGAGAG
1 GAAAAAAAAAAGGAGAG
*
6080982 GAAAAAAAAAATGAGAG
1 GAAAAAAAAAAGGAGAG
6080999 TGCCACCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAAAGGAGAG
Found at i:6082170 original size:8 final size:8
Alignment explanation
Indices: 6082159--6082210 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
6082149 CCTAAACTCC
6082159 AAAACCTT
1 AAAACCTT
*
6082167 AAAACCTC
1 AAAACCTT
*
6082175 AAAATCTT
1 AAAACCTT
6082183 -AAACCTT
1 AAAACCTT
*
6082190 AAAACTTTT
1 AAAAC-CTT
*
6082199 AAAACCCT
1 AAAACCTT
6082207 AAAA
1 AAAA
6082211 ATCCAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
7 6 0.17
8 22 0.63
9 7 0.20
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAACCTT
Found at i:6082171 original size:16 final size:16
Alignment explanation
Indices: 6082158--6082204 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
6082148 CCCTAAACTC
6082158 CAAAACCTTAAAACCT
1 CAAAACCTTAAAACCT
*
6082174 CAAAATCTT-AAACCT
1 CAAAACCTTAAAACCT
* *
6082189 TAAAACTTTTAAAACC
1 CAAAAC-CTTAAAACC
6082205 CTAAAAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
CAAAACCTTAAAACCT
Found at i:6082179 original size:55 final size:54
Alignment explanation
Indices: 6082086--6082250 Score: 156
Period size: 55 Copynumber: 3.0 Consensus size: 54
6082076 AAAAAAAAAC
* * *
6082086 TTAAAACCATAAAAATCCAAAAC-TACGATACCTTAAAATTTTGAAAACCTAAAATT
1 TTAAAACCCTAAAAATCCAAACCTTA--AAACCTTAAAATTTTG-AAACCTAAAATT
* * * *
6082142 TTAAGACCCT-AAACTCCAAAACCTTAAAACCTCAAAATCTT-AAACCTTAAAACTT
1 TTAAAACCCTAAAAATCC-AAACCTTAAAACCTTAAAATTTTGAAACC-TAAAA-TT
** *
6082197 TTAAAACCCTAAAAATCCAAATTTTGAAACCTTAAAATTTTGAAACTCTAAAAT
1 TTAAAACCCTAAAAATCCAAACCTTAAAACCTTAAAATTTTGAAAC-CTAAAAT
6082251 CAAAACTCTA
Statistics
Matches: 88, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
53 5 0.06
54 5 0.06
55 48 0.55
56 27 0.31
57 3 0.03
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (54 bp):
TTAAAACCCTAAAAATCCAAACCTTAAAACCTTAAAATTTTGAAACCTAAAATT
Found at i:6082306 original size:24 final size:25
Alignment explanation
Indices: 6082269--6082341 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 25
6082259 TAAACCTTTG
*
6082269 CTTAAACTCT-AAAAT-TTCAAAACC
1 CTTAAAATCTCAAAATCTT-AAAACC
*
6082293 CTA-AAATCTCAAAATCTTAAAACC
1 CTTAAAATCTCAAAATCTTAAAACC
* * *
6082317 CTTCAAATACTCAAAACCCTAAAAC
1 CTTAAAAT-CTCAAAATCTTAAAAC
6082342 TCACAAAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 5 0.12
24 15 0.38
25 6 0.15
26 14 0.35
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (25 bp):
CTTAAAATCTCAAAATCTTAAAACC
Found at i:6082314 original size:16 final size:16
Alignment explanation
Indices: 6082272--6082306 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6082262 ACCTTTGCTT
* *
6082272 AAACTCTAAAATTTCA
1 AAACCCTAAAATCTCA
6082288 AAACCCTAAAATCTCA
1 AAACCCTAAAATCTCA
6082304 AAA
1 AAA
6082307 TCTTAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
AAACCCTAAAATCTCA
Found at i:6082362 original size:23 final size:22
Alignment explanation
Indices: 6082330--6082401 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 22
6082320 CAAATACTCA
*
6082330 AAACCCTAAAACTCACAAAA-CCT
1 AAACCTTAAAACT-A-AAAACCCT
6082353 AAACCTTAAATACTAAAAACCCT
1 AAACCTTAAA-ACTAAAAACCCT
*
6082376 AAACCTTCAAAACCT-TAAACCCT
1 AAACCTT-AAAA-CTAAAAACCCT
6082399 AAA
1 AAA
6082402 ACCCAAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 4 0.09
23 31 0.72
24 8 0.19
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (22 bp):
AAACCTTAAAACTAAAAACCCT
Found at i:6082387 original size:16 final size:15
Alignment explanation
Indices: 6082368--6082424 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
6082358 TTAAATACTA
*
6082368 AAAACCCTAAACCTT
1 AAAACCCTAAACCCT
*
6082383 CAAAACCTTAAACCCT
1 -AAAACCCTAAACCCT
* *
6082399 AAAACCCAAAACTCT
1 AAAACCCTAAACCCT
*
6082414 AAAACCTTAAA
1 AAAACCCTAAA
6082425 ACACTAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 21 0.62
16 13 0.38
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAACCCTAAACCCT
Found at i:6082418 original size:23 final size:23
Alignment explanation
Indices: 6082368--6082426 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
6082358 TTAAATACTA
6082368 AAAACCCT-AAACCTTCAAAACCT
1 AAAACCCTAAAACC-TCAAAACCT
*
6082391 TAAACCCTAAAACC-CAAAACTCT
1 AAAACCCTAAAACCTCAAAAC-CT
*
6082414 AAAACCTTAAAAC
1 AAAACCCTAAAAC
6082427 ACTAAAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 6 0.19
23 20 0.65
24 5 0.16
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (23 bp):
AAAACCCTAAAACCTCAAAACCT
Found at i:6082730 original size:30 final size:32
Alignment explanation
Indices: 6082694--6082754 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
6082684 CTTAACCCAC
6082694 AATAAT-AATGAGA-TTAAATAAAAATAAATA
1 AATAATAAATGAGATTTAAATAAAAATAAATA
*
6082724 AATAATAAAATGAGATTTTAAATATAAATAA
1 AATAAT-AAATGAGA-TTTAAATAAAAATAA
6082755 TCAGACACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
32 7 0.27
34 13 0.50
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (32 bp):
AATAATAAATGAGATTTAAATAAAAATAAATA
Found at i:6084471 original size:81 final size:81
Alignment explanation
Indices: 6084373--6084565 Score: 194
Period size: 81 Copynumber: 2.4 Consensus size: 81
6084363 TAAGACTTCT
* * * **
6084373 TTTTAGAGAAGCATTTGTAAATGTTAAGATTCGTAAGTCCTTTGAGA-AAAATATTTTAAATATT
1 TTTTAGAGAAGCATTTGTAAATATCAAGATTCATAAGTCCTCCG-GATAAAATATTTTAAATATT
*
6084437 AAAGTTTCAAGGCCTCA
65 AAAGTTCCAAGGCCTCA
* * * *
6084454 TTTTAGATG-AGCATTTGTAGATATCGAGATTTATAAGTCCTCCGGATAAAATATTTTAAATTTT
1 TTTTAGA-GAAGCATTTGTAAATATCAAGATTCATAAGTCCTCCGGATAAAATATTTTAAATATT
* **
6084518 AAAGTTCCAATGCCTTTT
65 AAAGTTCCAAGGCC-TCA
* * *
6084536 TTTTA-AGGAGCATTTATAGATATCAAGATT
1 TTTTAGAGAAGCATTTGTAAATATCAAGATT
6084566 TGTAAGACCT
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
80 3 0.03
81 83 0.89
82 7 0.08
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (81 bp):
TTTTAGAGAAGCATTTGTAAATATCAAGATTCATAAGTCCTCCGGATAAAATATTTTAAATATTA
AAGTTCCAAGGCCTCA
Found at i:6084566 original size:81 final size:81
Alignment explanation
Indices: 6084420--6084576 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
6084410 TCCTTTGAGA
* * * *
6084420 AAAATATTTTAAATATTAAAGTTTCAAGGCCTCATTTTAGATGAGCATTTGTAGATATCGAGATT
1 AAAATATTTTAAATATTAAAGTTCCAAGGCCTCATTTTAGAGGAGCATTTATAGATATCAAGATT
*
6084485 TATAAGTCCTCCGGAT
66 TATAAGACCTCCGGAT
* * **
6084501 AAAATATTTTAAATTTTAAAGTTCCAATGCCTTTTTTTTA-AGGAGCATTTATAGATATCAAGAT
1 AAAATATTTTAAATATTAAAGTTCCAAGGCC-TCATTTTAGAGGAGCATTTATAGATATCAAGAT
*
6084565 TTGTAAGACCTC
65 TTATAAGACCTC
6084577 TGGGCATTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 59 0.91
82 6 0.09
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (81 bp):
AAAATATTTTAAATATTAAAGTTCCAAGGCCTCATTTTAGAGGAGCATTTATAGATATCAAGATT
TATAAGACCTCCGGAT
Found at i:6092525 original size:118 final size:115
Alignment explanation
Indices: 6092150--6092567 Score: 458
Period size: 111 Copynumber: 3.6 Consensus size: 115
6092140 TTAATGCGGC
* *
6092150 TTTGAGTGTGGACTTGAAAAGGGTTACTGTTTTTGTTGATGATTTCTTGGTTTATCAATATGTAA
1 TTTGAGTTTGGACTTGAAAAGGGTTTCTGTTTTTGTTGATGATTTCTTGGTTTATCAATATGTAA
* * *
6092215 GTTCACAATGTTAGGCCTTTCTTCAAGTTTATGTTGGTTTTCAATTATGGCTAGCT
66 TTTCACAATATT--GCC-TTCTTCAAG-TTAT-TTGGTTTTCAATTATGGGTAG-T
* * * *
6092271 TTT-AGTTTGAACTTTAAAACGGTTTCTGTTTCTGTTGATGATTTCTTGGTTTATCAATATGTAA
1 TTTGAGTTTGGACTTGAAAAGGGTTTCTGTTTTTGTTGATGATTTCTTGGTTTATCAATATGTAA
* * * *
6092335 GTAT-ACAATGTTATGCC-T-TTC----TACTTGGTTTTCAATTATGGGTAGC
66 -TTTCACAAT-AT-TGCCTTCTTCAAGTTATTTGGTTTTCAATTATGGGTAGT
* ** *
6092381 TATGAGTTTGGACTTGAAAAAAGTTTCT-TTCTTTGGTGATGATTTCTTGGTTTATCAATATGTA
1 TTTGAGTTTGGACTTGAAAAGGGTTTCTGTT-TTTGTTGATGATTTCTTGGTTTATCAATATGTA
*
6092445 ATTTCACAATATTGCCATTCTTCAAGTTAAGTTTGGTTTTTAATTATGGGTAGT
65 ATTTCACAATATTGCC-TTCTTCAAGTT-A-TTTGGTTTTCAATTATGGGTAGT
* * *
6092499 TTTGAGTTTGGACTTGAAAAGGGTTTCTTTTTTTGTTGATCATTTCTTGGTTTATTAATATGTGA
1 TTTGAGTTTGGACTTGAAAAGGGTTTCTGTTTTTGTTGATGATTTCTTGGTTTATCAATATGT-A
6092564 ATTT
65 ATTT
6092568 AGAATTTCAT
Statistics
Matches: 250, Mismatches: 30, Indels: 36
0.79 0.09 0.11
Matches are distributed among these distances:
109 4 0.02
110 7 0.03
111 78 0.31
112 5 0.02
116 1 0.00
117 4 0.02
118 75 0.30
119 7 0.03
120 63 0.25
121 5 0.02
122 1 0.00
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.48
Consensus pattern (115 bp):
TTTGAGTTTGGACTTGAAAAGGGTTTCTGTTTTTGTTGATGATTTCTTGGTTTATCAATATGTAA
TTTCACAATATTGCCTTCTTCAAGTTATTTGGTTTTCAATTATGGGTAGT
Found at i:6095522 original size:2 final size:2
Alignment explanation
Indices: 6095515--6095573 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
6095505 TTTTATTAGC
* *
6095515 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA 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
*
6095557 TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA T
6095574 TTTTTAAGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6095759 original size:3 final size:3
Alignment explanation
Indices: 6095753--6095784 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6095743 TAGTAGTAGT
6095753 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
6095785 TTGTTGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:6096592 original size:2 final size:2
Alignment explanation
Indices: 6096585--6096623 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6096575 TTTAATGTTA
*
6096585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6096624 CCCATTTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6097405 original size:27 final size:27
Alignment explanation
Indices: 6097367--6097422 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6097357 ATTTGGTAGC
6097367 ATAGAATGTATCAATCTGACATTTTCA
1 ATAGAATGTATCAATCTGACATTTTCA
6097394 ATAGAATGTATCAATCTGACATTTTCA
1 ATAGAATGTATCAATCTGACATTTTCA
6097421 AT
1 AT
6097423 GTAAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (27 bp):
ATAGAATGTATCAATCTGACATTTTCA
Found at i:6099176 original size:17 final size:17
Alignment explanation
Indices: 6099156--6099193 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6099146 TGAATTAATC
*
6099156 ATTTAA-AATTGTTTGTG
1 ATTTAAGAATT-TCTGTG
6099173 ATTTAAGAATTTCTGTG
1 ATTTAAGAATTTCTGTG
6099190 ATTT
1 ATTT
6099194 CTCATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (17 bp):
ATTTAAGAATTTCTGTG
Found at i:6104022 original size:16 final size:16
Alignment explanation
Indices: 6104001--6104031 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6103991 TAAATTTATG
6104001 AATAGTTTAACTCATA
1 AATAGTTTAACTCATA
*
6104017 AATAGTTTGACTCAT
1 AATAGTTTAACTCAT
6104032 GCAATTTGGG
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:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (16 bp):
AATAGTTTAACTCATA
Found at i:6104580 original size:5 final size:5
Alignment explanation
Indices: 6104556--6104621 Score: 57
Period size: 5 Copynumber: 13.4 Consensus size: 5
6104546 AATAAATAAC
* * *
6104556 AAAAT AAAA- AAAAT -ACAT AAAAT AAAAC AAAAT AAACT AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
6104603 GAAACT AAAAT GAAAAT AA
1 -AAAAT AAAAT -AAAAT AA
6104622 CAAAAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
4 11 0.23
5 28 0.58
6 9 0.19
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:6104590 original size:15 final size:14
Alignment explanation
Indices: 6104556--6104630 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 14
6104546 AATAAATAAC
6104556 AAAATAAAA-AAAA
1 AAAATAAAATAAAA
* *
6104569 TACATAAAATAAAA
1 AAAATAAAATAAAA
*
6104583 CAAAATAAACTAAAA
1 -AAAATAAAATAAAA
*
6104598 AAAATGAAACTAAAA
1 AAAAT-AAAATAAAA
6104613 TGAAAATAACAA-AAAA
1 --AAAATAA-AATAAAA
6104629 AA
1 AA
6104631 TACCTTGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
13 7 0.14
14 11 0.22
15 20 0.40
16 6 0.12
17 6 0.12
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAATAAAATAAAA
Found at i:6108208 original size:3 final size:3
Alignment explanation
Indices: 6108200--6108240 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6108190 CGTAGTTTTG
*
6108200 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6108241 CAAGAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6108971 original size:3 final size:3
Alignment explanation
Indices: 6108963--6109158 Score: 98
Period size: 3 Copynumber: 67.3 Consensus size: 3
6108953 TAGAAACCAT
6108963 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
6109011 TTA GTT- TT- TTA TTA -TA TTA TT- TTA TAA GGT- TTA TT- TTA AT-
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
** * ** * *
6109051 TTA AAA TTA TAAA AAA TT- TCAA CT- TTA TTA TTCA TTA TTTA TCT-
1 TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TT-A TTA -TTA T-TA
* *
6109095 TTA TT- TTG TT- TT- TTG TT- TTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
6109137 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
6109159 AAAAAACAAC
Statistics
Matches: 153, Mismatches: 18, Indels: 44
0.71 0.08 0.20
Matches are distributed among these distances:
2 24 0.16
3 116 0.76
4 13 0.08
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6110893 original size:44 final size:42
Alignment explanation
Indices: 6110716--6110903 Score: 152
Period size: 44 Copynumber: 4.4 Consensus size: 42
6110706 TAAATAATTT
* * *
6110716 TTTTGAAAATTTAAAAAGCTGCTT-TAAGTAACGGCTCGATAAC
1 TTTTGAAAATTTAAAAGGCT-CTTCTAAGTAA-AGCTCGACAAC
* * * *
6110759 TTTT-TAAATTT-AAAGGCACCTCTAAGTAGAAGCTCGATAAC
1 TTTTGAAAATTTAAAAGGCTCTTCTAAGTA-AAGCTCGACAAC
* *
6110800 TTTTGAAAACTTTGAAAA-GCT-TATCTAAGTAAAGACTCAACTAC
1 TTTTGAAAA-TTT-AAAAGGCTCT-TCTAAGTAAAG-CTCGACAAC
* *
6110844 ATTTGAAAACTTTAAAAGGCTCTTCTAAGTAGAAGTTCGACAAC
1 TTTTGAAAA-TTTAAAAGGCTCTTCTAAGTA-AAGCTCGACAAC
*
6110888 TTTTGAAATTTTAAAA
1 TTTTGAAAATTTAAAA
6110904 TATTTTGCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 25 0.21
42 10 0.09
43 21 0.18
44 52 0.44
45 7 0.06
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (42 bp):
TTTTGAAAATTTAAAAGGCTCTTCTAAGTAAAGCTCGACAAC
Found at i:6111316 original size:22 final size:23
Alignment explanation
Indices: 6111285--6111343 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
6111275 TCGATGCCAA
*
6111285 CTAATTTGGGCTTAACGT-CTAG
1 CTAATTTGGGCTTAAAGTACTAG
*
6111307 CTAATATGGGCTTAAAGTACTAG
1 CTAATTTGGGCTTAAAGTACTAG
6111330 CTAATTTGGGCTTA
1 CTAATTTGGGCTTA
6111344 GTTTCATCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (23 bp):
CTAATTTGGGCTTAAAGTACTAG
Found at i:6111524 original size:22 final size:22
Alignment explanation
Indices: 6111499--6111580 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
6111489 TGATCTTAAA
6111499 GTGCTAGCTAATCTGGGTTTAG
1 GTGCTAGCTAATCTGGGTTTAG
* * *
6111521 GTGCTAGTTAATCCGGGCTTTAA
1 GTGCTAGCTAATCTGGG-TTTAG
* *
6111544 GTGCAAGCTAATATGGGTTTAG
1 GTGCTAGCTAATCTGGGTTTAG
* *
6111566 GTGCCATCTAATCTG
1 GTGCTAGCTAATCTG
6111581 AACTTAATTG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 31 0.65
23 17 0.35
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (22 bp):
GTGCTAGCTAATCTGGGTTTAG
Found at i:6112181 original size:21 final size:21
Alignment explanation
Indices: 6112156--6112207 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
6112146 GTCTTTCTTA
6112156 TGATGTAAATATCAATGCAAG
1 TGATGTAAATATCAATGCAAG
*
6112177 TGATGTAAATATGAATGCAAG
1 TGATGTAAATATCAATGCAAG
6112198 TGATGTAAAT
1 TGATGTAAAT
6112208 GCGAAAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (21 bp):
TGATGTAAATATCAATGCAAG
Found at i:6113404 original size:7 final size:7
Alignment explanation
Indices: 6113394--6113477 Score: 50
Period size: 7 Copynumber: 11.7 Consensus size: 7
6113384 CTTTTTTTGC
6113394 TTTTTAT
1 TTTTTAT
6113401 TTTTTAT
1 TTTTTAT
*
6113408 TTTTTGT
1 TTTTTAT
6113415 TGTTGTT-T
1 T-TT-TTAT
6113423 TTTTT-T
1 TTTTTAT
6113429 TTTTT-T
1 TTTTTAT
*
6113435 TTTGCT-T
1 TTT-TTAT
6113442 TTTTTAT
1 TTTTTAT
*
6113449 CTTTTAT
1 TTTTTAT
*
6113456 CTTTTAT
1 TTTTTAT
6113463 TATTATTAT
1 T-TT-TTAT
6113472 TATTTT
1 T-TTTT
6113478 GAAACATTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
6 13 0.20
7 35 0.53
8 8 0.12
9 10 0.15
ACGTcount: A:0.11, C:0.04, G:0.05, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:6113452 original size:10 final size:9
Alignment explanation
Indices: 6113381--6113453 Score: 51
Period size: 10 Copynumber: 7.9 Consensus size: 9
6113371 GGTGCATATC
6113381 TTTCTTTTT
1 TTTCTTTTT
*
6113390 TTGCTTTTT
1 TTTCTTTTT
*
6113399 ATTTTTTATTT
1 -TTTCTT-TTT
* *
6113410 TTTGTTGTTG
1 TTTCTT-TTT
6113420 TTT-TTTTT
1 TTTCTTTTT
6113428 TTT-TTTTT
1 TTTCTTTTT
*
6113436 TTGCTTTTT
1 TTTCTTTTT
6113445 TTATCTTTT
1 TT-TCTTTT
6113454 ATCTTTTATT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
8 12 0.24
9 17 0.33
10 19 0.37
11 3 0.06
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:6120947 original size:3 final size:3
Alignment explanation
Indices: 6120939--6120984 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6120929 TTAGAAACCA
6120939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6120985 TTAATTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6122230 original size:34 final size:33
Alignment explanation
Indices: 6122191--6122254 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
6122181 TTATTATTTA
* *
6122191 TTATTTATTATT-TTGTTTTGATTAATTAAATATT
1 TTATTTAATATTATT-TTTT-ATTAATAAAATATT
6122225 TTATTTAATATTATTTTTTATTAATAAAAT
1 TTATTTAATATTATTTTTTATTAATAAAAT
6122255 TAAATAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 10 0.37
34 15 0.56
35 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (33 bp):
TTATTTAATATTATTTTTTATTAATAAAATATT
Found at i:6142027 original size:83 final size:83
Alignment explanation
Indices: 6141880--6142046 Score: 273
Period size: 83 Copynumber: 2.0 Consensus size: 83
6141870 AAGTATGCTT
* *
6141880 TGGGAGCATTTTATATTTTGTTCGCCAGTCTGATATATTTTGTGTGCATGTGATTGTCTTAAATT
1 TGGGAGCATTTCATATTTTGTTCGCCAGTCTGATATATTTTGTGTGCATGTGATTGTCTGAAATT
6141945 TATCGC-TGCTATTTCAAA
66 TATC-CTTGCTATTTCAAA
* * *
6141963 TGGGCGCATTTCATATTTTGTTTGCTAGTCTGATATATTTTGTGTGCATGTGATTGTCTGAAATT
1 TGGGAGCATTTCATATTTTGTTCGCCAGTCTGATATATTTTGTGTGCATGTGATTGTCTGAAATT
6142028 TATCCTTGCTATTTCAAA
66 TATCCTTGCTATTTCAAA
6142046 T
1 T
6142047 CCATCTTTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 1 0.01
83 77 0.99
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (83 bp):
TGGGAGCATTTCATATTTTGTTCGCCAGTCTGATATATTTTGTGTGCATGTGATTGTCTGAAATT
TATCCTTGCTATTTCAAA
Found at i:6161485 original size:59 final size:58
Alignment explanation
Indices: 6161410--6161526 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 58
6161400 TTTTGTCCAC
*
6161410 ACTAATTTCTTTTAATTCAACTTTACCCCTTCT-TTGAAAGTTTATTAAGATTAAAATA
1 ACTAATTTCTTTTAATTCAACTTTACCCCTTCTCTT-AAAATTTATTAAGATTAAAATA
* *
6161468 ACTAATTTGTTTTTAATTCAACTTTACCCTTTCTCTTAAAATTTATTAAGATTAAAATA
1 ACTAATTT-CTTTTAATTCAACTTTACCCCTTCTCTTAAAATTTATTAAGATTAAAATA
6161527 CCTTTAGTGA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
58 8 0.15
59 44 0.81
60 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (58 bp):
ACTAATTTCTTTTAATTCAACTTTACCCCTTCTCTTAAAATTTATTAAGATTAAAATA
Found at i:6161776 original size:31 final size:31
Alignment explanation
Indices: 6161717--6161776 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6161707 TACATCACTA
* *
6161717 TTATTATTATTTTTATATCTAAATATATATT
1 TTATTATTAATTTTATATCTAAAGATATATT
*
6161748 TTATTATTAATTTTA-ATCTTATAGATATA
1 TTATTATTAATTTTATATC-TAAAGATATA
6161777 ATATTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (31 bp):
TTATTATTAATTTTATATCTAAAGATATATT
Found at i:6162249 original size:18 final size:17
Alignment explanation
Indices: 6162222--6162256 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
6162212 TCATATTAAA
6162222 TAAAATAATAATAAAAT
1 TAAAATAATAATAAAAT
6162239 TAAAATCAATAATAAAAT
1 TAAAAT-AATAATAAAAT
6162257 ATATATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAATAATAAAAT
Found at i:6171453 original size:28 final size:30
Alignment explanation
Indices: 6171390--6171453 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
6171380 AATTTTTAAA
*
6171390 TTATAATTCTAAATGTCATATTAATTAATT
1 TTATAATTCTAAATATCATATTAATTAATT
*
6171420 TT-TAATTC-AAATATTATATT-A-TATATT
1 TTATAATTCTAAATATCATATTAATTA-ATT
6171447 TTATAAT
1 TTATAAT
6171454 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 2 0.07
27 6 0.20
28 14 0.47
29 6 0.20
30 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
TTATAATTCTAAATATCATATTAATTAATT
Found at i:6171534 original size:46 final size:47
Alignment explanation
Indices: 6171435--6171539 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 47
6171425 TTCAAATATT
* *
6171435 ATATTATATATTTTATAATAATATAAAAATCATTCATAATATAAATC
1 ATATTAAATATTTTATAATAATATAAAAATCATTCATAACATAAATC
* * * *
6171482 ACATTAAATATTTTATTATAAT-TAAAAATCATTCGTAACATTAATTC
1 ATATTAAATATTTTATAATAATATAAAAATCATTCATAACA-TAAATC
*
6171529 -TATTAATTATT
1 ATATTAAATATT
6171540 AAAAATTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 25 0.51
47 24 0.49
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.45
Consensus pattern (47 bp):
ATATTAAATATTTTATAATAATATAAAAATCATTCATAACATAAATC
Found at i:6175144 original size:13 final size:14
Alignment explanation
Indices: 6175126--6175155 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6175116 ATATGTCTCG
6175126 TATTTATATTT-TA
1 TATTTATATTTATA
6175139 TATTTATATTTATA
1 TATTTATATTTATA
6175153 TAT
1 TAT
6175156 ATTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTATATTTATA
Found at i:6175184 original size:21 final size:22
Alignment explanation
Indices: 6175155--6175212 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
6175145 TATTTATATA
* *
6175155 TATTTAATAAATTAATT-TTTT
1 TATTAAATAAATTAATTATTAT
*
6175176 TATTAAATAATATAAATTATTAT
1 TATTAAATAA-ATTAATTATTAT
*
6175199 T-TTAAATTAATTAA
1 TATTAAATAAATTAA
6175213 AATTAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 13 0.43
22 13 0.43
23 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAAATAAATTAATTATTAT
Found at i:6175191 original size:26 final size:26
Alignment explanation
Indices: 6175161--6175239 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
6175151 TATATATTTA
6175161 ATAAATTAATTTTTTTATTAAATAAT
1 ATAAATTAATTTTTTTATTAAATAAT
* *
6175187 ATAAATT-ATTATTTTA--AATTAAT
1 ATAAATTAATTTTTTTATTAAATAAT
6175210 -TAAAATTAATATATTTTTATTGAAA-AAT
1 AT-AAATTAAT-T-TTTTTATT-AAATAAT
6175238 AT
1 AT
6175240 GTTAATAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
22 1 0.02
23 11 0.27
24 2 0.05
25 9 0.22
26 12 0.29
28 3 0.07
29 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
ATAAATTAATTTTTTTATTAAATAAT
Found at i:6176746 original size:15 final size:15
Alignment explanation
Indices: 6176726--6176755 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6176716 TACAAAAAGG
6176726 AAAAAGAGAAAGAAA
1 AAAAAGAGAAAGAAA
*
6176741 AAAAAGAGAGAGAAA
1 AAAAAGAGAAAGAAA
6176756 TTTGAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAAGAAA
Found at i:6189693 original size:6 final size:6
Alignment explanation
Indices: 6189676--6189705 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6189666 AATAAAATAT
*
6189676 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
6189706 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:6190195 original size:2 final size:2
Alignment explanation
Indices: 6190188--6190216 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6190178 TGGTTAATGT
6190188 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 T
6190217 TAGATTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6190900 original size:19 final size:19
Alignment explanation
Indices: 6190876--6190914 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6190866 TTATATATAC
6190876 AAATAAAA-TGTGAAATTAA
1 AAATAAAAGT-TGAAATTAA
*
6190895 AAATAATAGTTGAAATTAA
1 AAATAAAAGTTGAAATTAA
6190914 A
1 A
6190915 TTAATTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
AAATAAAAGTTGAAATTAA
Found at i:6193300 original size:25 final size:25
Alignment explanation
Indices: 6193270--6193321 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6193260 AGTGGTTGTG
6193270 ATAGTCTTTGTTCTTATTATCCTGA
1 ATAGTCTTTGTTCTTATTATCCTGA
*
6193295 ATAGTCTTTGTTGTTATTATCCTGA
1 ATAGTCTTTGTTCTTATTATCCTGA
6193320 AT
1 AT
6193322 TTATGGTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.52
Consensus pattern (25 bp):
ATAGTCTTTGTTCTTATTATCCTGA
Found at i:6207631 original size:20 final size:20
Alignment explanation
Indices: 6207608--6207645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6207598 AGAAAAAAAT
*
6207608 AAAAAATATTATTTTTATAA
1 AAAAAATATTATATTTATAA
*
6207628 AAAAATTATTATATTTAT
1 AAAAAATATTATATTTAT
6207646 CTTTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAAATATTATATTTATAA
Found at i:6216304 original size:27 final size:27
Alignment explanation
Indices: 6216265--6216318 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6216255 TTATAAACAT
*
6216265 ATAAAAATAATATAATTTTTA-ATTTTA
1 ATAAAAATAATAT-ATTTATATATTTTA
* *
6216292 ATAAAATTTATATATTTATATATTTTA
1 ATAAAAATAATATATTTATATATTTTA
6216319 TATACTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAAAAATAATATATTTATATATTTTA
Found at i:6216310 original size:8 final size:8
Alignment explanation
Indices: 6216297--6216330 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
6216287 TTTTAATAAA
6216297 ATTTATAT
1 ATTTATAT
6216305 ATTTATAT
1 ATTTATAT
6216313 ATTTTATAT
1 A-TTTATAT
*
6216322 ACTTATAT
1 ATTTATAT
6216330 A
1 A
6216331 AATTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTATAT
Found at i:6216320 original size:17 final size:17
Alignment explanation
Indices: 6216298--6216330 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6216288 TTTAATAAAA
*
6216298 TTTATATATTTATATAT
1 TTTATATACTTATATAT
6216315 TTTATATACTTATATA
1 TTTATATACTTATATA
6216331 AATTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATACTTATATAT
Found at i:6216336 original size:17 final size:17
Alignment explanation
Indices: 6216299--6216339 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6216289 TTAATAAAAT
* **
6216299 TTATATATTTATATATT
1 TTATATACTTATATAAA
6216316 TTATATACTTATATAAA
1 TTATATACTTATATAAA
6216333 TTATATA
1 TTATATA
6216340 ATACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATACTTATATAAA
Found at i:6217614 original size:18 final size:18
Alignment explanation
Indices: 6217591--6217647 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
6217581 ATTTTTTAAT
6217591 TTATTTTTAATTATTATA
1 TTATTTTTAATTATTATA
*
6217609 TTATTTTTAATTATCATA
1 TTATTTTTAATTATTATA
*
6217627 TTATTTTTTATTATTTATA
1 TTATTTTTAATTA-TTATA
6217646 TT
1 TT
6217648 TACATCTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 29 0.83
19 6 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTTAATTATTATA
Found at i:6218005 original size:24 final size:22
Alignment explanation
Indices: 6217964--6218007 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
6217954 TTTTTAATTT
*
6217964 TAATATATTAATTTAATAAAAG
1 TAATATATTAATTAAATAAAAG
6217986 TAATATATATAATTAAAATAAA
1 TAATATAT-TAATT-AAATAAA
6218008 TTTATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAATATATTAATTAAATAAAAG
Found at i:6227900 original size:77 final size:77
Alignment explanation
Indices: 6227773--6227926 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
6227763 TGGAAATGCC
* *
6227773 GGCCAAAAATAAAATAACGTAAAATCTCTAAAGATGGCCAGGGGAGATGAATGCAAGGTTTCACA
1 GGCCAAAAATAAAAAAACATAAAATCTCTAAAGATGGCCAGGGGAGATGAATGCAAGGTTTCACA
*
6227838 AAGTTTGCATTA
66 AAGTTTGAATTA
*
6227850 GGCCAAAAATAAAAAAACATAAAATCTCTAAAGATGGCCAGGGGAGATGAATGCAAGGTTTCGCA
1 GGCCAAAAATAAAAAAACATAAAATCTCTAAAGATGGCCAGGGGAGATGAATGCAAGGTTTCACA
6227915 AAGTTTGAATTA
66 AAGTTTGAATTA
6227927 TGCTCATCGT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (77 bp):
GGCCAAAAATAAAAAAACATAAAATCTCTAAAGATGGCCAGGGGAGATGAATGCAAGGTTTCACA
AAGTTTGAATTA
Found at i:6232879 original size:20 final size:20
Alignment explanation
Indices: 6232838--6232879 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
6232828 ATTAATTTAC
*
6232838 ATTATTTACATTATTGTATT
1 ATTATTTACATTATTATATT
*
6232858 ATTATTTATATTAATTAT-TT
1 ATTATTTACATT-ATTATATT
6232878 AT
1 AT
6232880 ATGTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTATTTACATTATTATATT
Found at i:6232951 original size:28 final size:29
Alignment explanation
Indices: 6232897--6232970 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 29
6232887 ATAAATGTAT
*
6232897 TATAAAATATTAAATAAATGATTATATGAA
1 TATAAAATATTAAATAAATGATAATAT-AA
* *
6232927 TATAATATATT-ATTAAA-GATAATATAA
1 TATAAAATATTAAATAAATGATAATATAA
*
6232954 TA-AAAA-ATTAATTAAAT
1 TATAAAATATTAAATAAAT
6232971 TATTTTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.08
26 9 0.24
27 4 0.11
28 7 0.18
29 5 0.13
30 10 0.26
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (29 bp):
TATAAAATATTAAATAAATGATAATATAA
Found at i:6233616 original size:21 final size:21
Alignment explanation
Indices: 6233585--6233638 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
6233575 ATGATATTAA
* *
6233585 AAATAATTATAGAAGTGAAATT
1 AAAT-ATTATAAAAGTAAAATT
* *
6233607 AATTATTATAAAATTAAAATT
1 AAATATTATAAAAGTAAAATT
6233628 AAATATTATAA
1 AAATATTATAA
6233639 TGATAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
AAATATTATAAAAGTAAAATT
Found at i:6233788 original size:19 final size:20
Alignment explanation
Indices: 6233753--6233790 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6233743 GTATTTATAA
*
6233753 ATTATTTTTATATATTTAAT
1 ATTATTTGTATATATTTAAT
6233773 ATTATTTGTA-ATATTTAA
1 ATTATTTGTATATATTTAA
6233791 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTATTTGTATATATTTAAT
Found at i:6235028 original size:10 final size:11
Alignment explanation
Indices: 6235008--6235034 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6234998 TCTCTCTTTC
6235008 TTTCTTTTTTT
1 TTTCTTTTTTT
6235019 TTTCTTTTTTT
1 TTTCTTTTTTT
6235030 TTTCT
1 TTTCT
6235035 CACTACTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:6235206 original size:10 final size:11
Alignment explanation
Indices: 6235178--6235215 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
6235168 AATAAATATG
6235178 AATTTTACATA
1 AATTTTACATA
6235189 ATATTTTA-ATA
1 A-ATTTTACATA
6235200 AATTTTACA-A
1 AATTTTACATA
6235210 AATTTT
1 AATTTT
6235216 GAACAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 13 0.52
11 6 0.24
12 6 0.24
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTTACATA
Found at i:6236302 original size:48 final size:44
Alignment explanation
Indices: 6236204--6236303 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 44
6236194 TTATATTATA
* *
6236204 ATTAATTAATTATTTATTTATTAATTATAATTTGATTATGATGT
1 ATTAATTAATTATTTATTGATTAATTATAATTTGATCATGATGT
*
6236248 AATAATTAATTATTTAATTGATTATATAATATAATATTTGATCATGA-GT
1 ATTAATTAATTATTT-ATTGATTA-AT--TAT-A-ATTTGATCATGATGT
6236297 -TTAATTA
1 ATTAATTA
6236304 CAAAAATTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
44 14 0.30
45 7 0.15
46 2 0.04
48 9 0.20
49 3 0.07
50 11 0.24
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (44 bp):
ATTAATTAATTATTTATTGATTAATTATAATTTGATCATGATGT
Found at i:6238114 original size:16 final size:16
Alignment explanation
Indices: 6238093--6238123 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6238083 CAGAAGAAGC
6238093 TTTTTTTTTT-CTTTT
1 TTTTTTTTTTACTTTT
6238108 TTTTTTTTTTACTTTT
1 TTTTTTTTTTACTTTT
6238124 AAATGTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTACTTTT
Found at i:6240568 original size:19 final size:19
Alignment explanation
Indices: 6240544--6240584 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6240534 TAATTTTGTA
*
6240544 TTAAATAGATA-TTAAATAT
1 TTAAATAAATATTTAAA-AT
6240563 TTAAATAAATATTTAAAAT
1 TTAAATAAATATTTAAAAT
6240582 TTA
1 TTA
6240585 TATTGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAAATAAATATTTAAAAT
Found at i:6247124 original size:22 final size:24
Alignment explanation
Indices: 6247097--6247144 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
6247087 TATGTATAAA
*
6247097 TTTATTTAAAT-ATAT-TAAAAAT
1 TTTATTAAAATAATATATAAAAAT
6247119 TTTATTAAAATAATATATAAAAAT
1 TTTATTAAAATAATATATAAAAAT
6247143 TT
1 TT
6247145 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 4 0.17
24 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATTAAAATAATATATAAAAAT
Found at i:6249144 original size:21 final size:23
Alignment explanation
Indices: 6249100--6249148 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
6249090 TGCTGTTTAT
*
6249100 GAATTGGTTTGAGTTTAAAGAGA
1 GAATTGATTTGAGTTTAAAGAGA
* *
6249123 GAATTGATTTGATTTTAGAGAGA
1 GAATTGATTTGAGTTTAAAGAGA
6249146 GAA
1 GAA
6249149 AATAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.35
Consensus pattern (23 bp):
GAATTGATTTGAGTTTAAAGAGA
Found at i:6249159 original size:21 final size:21
Alignment explanation
Indices: 6249135--6249190 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
6249125 ATTGATTTGA
6249135 TTTTAGAGAGAGAAA-ATAAAT
1 TTTTA-AGAGAGAAAGATAAAT
*
6249156 TTTTAA-AGAGAAAGTATGAAT
1 TTTTAAGAGAGAAAG-ATAAAT
6249177 TTTTATAGAGAGAA
1 TTTTA-AGAGAGAA
6249191 TAATTCAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 15 0.50
22 1 0.03
23 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
TTTTAAGAGAGAAAGATAAAT
Found at i:6250453 original size:25 final size:25
Alignment explanation
Indices: 6250405--6250456 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
6250395 ATATACTTAC
6250405 AAAATTTTTTATTTAATATTTATTTT
1 AAAATTTTTTATTT-ATATTTATTTT
*
6250431 AAAATTTTTTGTTT-TATTATATTTT
1 AAAATTTTTTATTTATATT-TATTTT
6250456 A
1 A
6250457 TTACATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 7 0.29
26 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
AAAATTTTTTATTTATATTTATTTT
Found at i:6252740 original size:17 final size:18
Alignment explanation
Indices: 6252720--6252759 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6252710 TTAATATTTT
6252720 ATTATTTTAAAA-TAAAA
1 ATTATTTTAAAACTAAAA
* *
6252737 ATTAATTTAAAACTAACA
1 ATTATTTTAAAACTAAAA
6252755 ATTAT
1 ATTAT
6252760 AATACATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTATTTTAAAACTAAAA
Found at i:6254978 original size:18 final size:18
Alignment explanation
Indices: 6254941--6254978 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6254931 TTTTTTTTTC
* *
6254941 TTTTTTATTTTTTGGCTT
1 TTTTTTAGTTTTTGACTT
6254959 TTTTTTAGTTTTTGA-TT
1 TTTTTTAGTTTTTGACTT
6254976 TTT
1 TTT
6254979 GTTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.08, C:0.03, G:0.11, T:0.79
Consensus pattern (18 bp):
TTTTTTAGTTTTTGACTT
Done.