Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 42 of 64
Found at i:6642445 original size:21 final size:20
Alignment explanation
Indices: 6642421--6642467 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
6642411 ATTCATACTT
6642421 TCTCTTTCCAAAAACTCATTA
1 TCTCTTTCCAAAAACTCA-TA
* * *
6642442 TCTCTCTCTAAAAATTCATA
1 TCTCTTTCCAAAAACTCATA
6642462 T-TCTTT
1 TCTCTTT
6642468 GCCTTAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.18
20 3 0.14
21 15 0.68
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.45
Consensus pattern (20 bp):
TCTCTTTCCAAAAACTCATA
Found at i:6643225 original size:3 final size:3
Alignment explanation
Indices: 6643217--6643251 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6643207 AAATTAAACT
6643217 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6643252 AAGCAGCCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6644268 original size:21 final size:21
Alignment explanation
Indices: 6644235--6644283 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6644225 TTTTAATTTA
* *
6644235 ATATAATATTTATA-ATATATT
1 ATATAAAAATTATATATA-ATT
*
6644256 ATATAAAAATTATATTTAATT
1 ATATAAAAATTATATATAATT
6644277 ATATAAA
1 ATATAAA
6644284 TATGTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATAAAAATTATATATAATT
Found at i:6645242 original size:12 final size:11
Alignment explanation
Indices: 6645216--6645252 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
6645206 AGAAATTTTT
6645216 AAAAATTCTTA
1 AAAAATTCTTA
6645227 AAAAATTCTTA
1 AAAAATTCTTA
6645238 GAAAAATT-TTA
1 -AAAAATTCTTA
6645249 AAAA
1 AAAA
6645253 TATACGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 14 0.56
12 7 0.28
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (11 bp):
AAAAATTCTTA
Found at i:6645261 original size:20 final size:21
Alignment explanation
Indices: 6645238--6645277 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6645228 AAAATTCTTA
6645238 GAAAAATTT-TAAAAATATAC
1 GAAAAATTTATAAAAATATAC
* *
6645258 GAAATATTTATAAAATTATA
1 GAAAAATTTATAAAAATATA
6645278 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
GAAAAATTTATAAAAATATAC
Found at i:6645408 original size:18 final size:18
Alignment explanation
Indices: 6645368--6645409 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6645358 TTTGAAAATT
*
6645368 TTAAAAATAAAAATTTTA
1 TTAAAAATAAAAATGTTA
* *
6645386 ATAAAAATAAAAATGTTC
1 TTAAAAATAAAAATGTTA
6645404 TTAAAA
1 TTAAAA
6645410 TTCTATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAAATAAAAATGTTA
Found at i:6645521 original size:19 final size:18
Alignment explanation
Indices: 6645454--6645532 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 18
6645444 AATTTTAAAT
*
6645454 TTTTAAAAAATTTTGAAAA
1 TTTTAAAAAA-TCTGAAAA
**
6645473 TTAAAAAAAAGCTTCTGAAAAA
1 TTTTAAAAAA---TCTG-AAAA
* *
6645495 TTTTAAAATATTTGAAAA
1 TTTTAAAAAATCTGAAAA
6645513 TTTTAAAAAAATCTGAAAA
1 TTTT-AAAAAATCTGAAAA
6645532 T
1 T
6645533 ATTTTTTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
18 8 0.17
19 24 0.51
21 4 0.09
22 11 0.23
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (18 bp):
TTTTAAAAAATCTGAAAA
Found at i:6645540 original size:41 final size:40
Alignment explanation
Indices: 6645450--6645544 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 40
6645440 TTTAAATTTT
*
6645450 AAATTTTTAAAAAATTTTGAAAATTAAAAAAAAGCTTCTGAA
1 AAATTTTTAAAATATTTTGAAAATTAAAAAAAA-C-TCTGAA
*
6645492 AAA-TTTTAAAATA-TTTGAAAATTTTAAAAAAA-TCTGAA
1 AAATTTTTAAAATATTTTGAAAA-TTAAAAAAAACTCTGAA
6645530 AATATTTTTTAAAAT
1 AA-A-TTTTTAAAAT
6645545 TATAATAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 8 0.17
39 1 0.02
40 8 0.17
41 27 0.57
42 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (40 bp):
AAATTTTTAAAATATTTTGAAAATTAAAAAAAACTCTGAA
Found at i:6645573 original size:19 final size:19
Alignment explanation
Indices: 6645540--6645581 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6645530 AATATTTTTT
6645540 AAAATTATAATAAATTAATA
1 AAAATTATAATAAATTAA-A
*
6645560 AAAATTATGA-AAATTAAA
1 AAAATTATAATAAATTAAA
6645578 AAAA
1 AAAA
6645582 AACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATTATAATAAATTAAA
Found at i:6645583 original size:20 final size:20
Alignment explanation
Indices: 6645540--6645582 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
6645530 AATATTTTTT
*
6645540 AAAATTATAATAAATTAATA
1 AAAATTATAATAAATTAAAA
*
6645560 AAAATTATGA-AAATTAAAA
1 AAAATTATAATAAATTAAAA
6645579 AAAA
1 AAAA
6645583 ACAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATTATAATAAATTAAAA
Found at i:6645715 original size:20 final size:20
Alignment explanation
Indices: 6645692--6645739 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6645682 CAAAAATTTA
6645692 AAAAATTTTTAGAATTTT-TT
1 AAAAATTTTTAG-ATTTTGTT
*
6645712 AAAAACTTTTAGATTTTGTT
1 AAAAATTTTTAGATTTTGTT
*
6645732 ACAAATTT
1 AAAAATTT
6645740 AGGCTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (20 bp):
AAAAATTTTTAGATTTTGTT
Found at i:6653898 original size:16 final size:16
Alignment explanation
Indices: 6653873--6653903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6653863 ATTAAATGCA
*
6653873 TTAAAGTTAAATTTTT
1 TTAAAATTAAATTTTT
6653889 TTAAAATTAAATTTT
1 TTAAAATTAAATTTT
6653904 GTTCTTAAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTAAAATTAAATTTTT
Found at i:6654914 original size:2 final size:2
Alignment explanation
Indices: 6654907--6654935 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6654897 AATTACTACC
6654907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6654936 AGCAATTGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6657075 original size:3 final size:3
Alignment explanation
Indices: 6657067--6657116 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
6657057 TTATTGTTTT
6657067 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6657115 AT
1 AT
6657117 GATTTCAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6657358 original size:27 final size:26
Alignment explanation
Indices: 6657334--6657392 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
6657324 AAAAAAAAGT
6657334 ATAAAAAAGATAATAAATAATAAAACA
1 ATAAAAAAGATAAT-AATAATAAAACA
* * *
6657361 ATAATAAAGTTAATAATAATAATAATA
1 ATAAAAAAGATAATAATAATAA-AACA
6657388 ATAAA
1 ATAAA
6657393 TTTTCACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (26 bp):
ATAAAAAAGATAATAATAATAAAACA
Found at i:6657549 original size:30 final size:30
Alignment explanation
Indices: 6657509--6657847 Score: 284
Period size: 30 Copynumber: 11.4 Consensus size: 30
6657499 CGTTTTCTCT
*
6657509 AAACCCTAAAATCAAAACCCTCAACCCTTC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
* ** * * * *
6657539 AAATCCTAAAATCTTAATCATAAATCCTTA
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
* *
6657569 AAACCCCAAAATCAAAA-CCTCAAATCC-TC
1 AAACCCTAAAATCAAAACCCT-AAACCCTTC
* *
6657598 AAAACCTTAAAATCAAAACCTTAAA-CC-TC
1 -AAACCCTAAAATCAAAACCCTAAACCCTTC
* * * *
6657627 AAA-CTTCAAAATTAAAACCCCAAACCCTTG
1 AAACCCT-AAAATCAAAACCCTAAACCCTTC
* *
6657657 AAACCTTAAAATCAAAACCCTGAACCCTTC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
** *
6657687 AAACCCTAAAATCAAAACATTAAATCCTTC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
* *
6657717 AAACCCTAAAA-CTAAAACCCTAAATCCTTT
1 AAACCCTAAAATC-AAAACCCTAAACCCTTC
* *
6657747 AAACCCTAAAATCAAAATCTTAAA-CC-TC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
*
6657775 AAACCCTAAAATCAAAACCCTAAACCCCTTT
1 AAACCCTAAAATCAAAACCCTAAA-CCCTTC
*
6657806 AAACCC-AAGAATCAAAATCTCTAAA-CCTTC
1 AAACCCTAA-AATCAAAA-CCCTAAACCCTTC
*
6657836 TAAACCATAAAA
1 -AAACCCTAAAA
6657848 ATTTGAAACT
Statistics
Matches: 251, Mismatches: 42, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.01
28 40 0.16
29 12 0.05
30 160 0.64
31 28 0.11
32 8 0.03
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (30 bp):
AAACCCTAAAATCAAAACCCTAAACCCTTC
Found at i:6657585 original size:14 final size:14
Alignment explanation
Indices: 6657568--6657650 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 14
6657558 ATAAATCCTT
*
6657568 AAAACCCCAAAATC
1 AAAACCTCAAAATC
*
6657582 AAAACCTCAAATCCTC
1 AAAACCTCAAA--ATC
*
6657598 AAAACCTTAAAATC
1 AAAACCTCAAAATC
* *
6657612 AAAACCTTAAACCTC
1 AAAACCTCAAA-ATC
* *
6657627 -AAACTTCAAAATT
1 AAAACCTCAAAATC
*
6657640 AAAACCCCAAA
1 AAAACCTCAAA
6657651 CCCTTGAAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
13 1 0.02
14 39 0.72
15 2 0.04
16 12 0.22
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAACCTCAAAATC
Found at i:6657591 original size:8 final size:8
Alignment explanation
Indices: 6657568--6657629 Score: 53
Period size: 8 Copynumber: 8.4 Consensus size: 8
6657558 ATAAATCCTT
*
6657568 AAAACCCC
1 AAAACCTC
6657576 AAAA--TC
1 AAAACCTC
6657582 AAAACCTC
1 AAAACCTC
*
6657590 AAATCCTC
1 AAAACCTC
*
6657598 AAAACCTT
1 AAAACCTC
6657606 AAAA--TC
1 AAAACCTC
6657612 AAAACCT-
1 AAAACCTC
*
6657619 TAAACCTC
1 AAAACCTC
6657627 AAA
1 AAA
6657630 CTTCAAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
6 10 0.24
7 6 0.14
8 26 0.62
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAACCTC
Found at i:6657653 original size:118 final size:118
Alignment explanation
Indices: 6657516--6657847 Score: 279
Period size: 118 Copynumber: 2.8 Consensus size: 118
6657506 TCTAAACCCT
** * *
6657516 AAAATCAAAACCCTCAACCCTTCAAATCC-TAAAATCTTAATCATAAATCCTTAAAACCCCAAAA
1 AAAATCAAAACCCTCAACCCTTCAAA-CCTTAAAATCAAAACCATAAACCCTTAAAACCCCAAAA
* * *
6657580 TCAAAACCTCAAATCC-TCAAAACCTTAAAA-TCAAAACCTTAAACCTCAAACTTC
65 TCAAAACATCAAATCCTTC-AAACCCTAAAACT-AAAACCCTAAACCTCAAACTTC
* * * * * *
6657634 AAAATTAAAACCC-CAAACCCTTGAAACCTTAAAATCAAAACCCTGAACCCTTCAAACCCTAAAA
1 AAAATCAAAACCCTC-AACCCTTCAAACCTTAAAATCAAAACCATAAACCCTTAAAACCCCAAAA
* * *
6657698 TCAAAACATTAAATCCTTCAAACCCTAAAACTAAAACCCTAAATCCTTTAAAC-CC
65 TCAAAACATCAAATCCTTCAAACCCTAAAACTAAAACCCTAAA-CC-TCAAACTTC
* * * * * *
6657753 TAAAATCAAAA-TCTTAAACC-TCAAACCCTAAAATCAAAACCCTAAACCCCTTTAAA-CCCAAG
1 -AAAATCAAAACCCTCAACCCTTCAAACCTTAAAATCAAAACCATAAA-CCCTTAAAACCCCAA-
*
6657815 AATCAAAATC-TCTAAA-CCTTCTAAACCATAAAA
63 AATCAAAA-CATC-AAATCCTTC-AAACCCTAAAA
6657848 ATTTGAAACT
Statistics
Matches: 174, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
117 3 0.02
118 110 0.63
119 33 0.19
120 28 0.16
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (118 bp):
AAAATCAAAACCCTCAACCCTTCAAACCTTAAAATCAAAACCATAAACCCTTAAAACCCCAAAAT
CAAAACATCAAATCCTTCAAACCCTAAAACTAAAACCCTAAACCTCAAACTTC
Found at i:6657689 original size:148 final size:149
Alignment explanation
Indices: 6657509--6657822 Score: 406
Period size: 148 Copynumber: 2.1 Consensus size: 149
6657499 CGTTTTCTCT
* * *
6657509 AAACCCTAAAATCAAAACCCTCAACCCTTCAAATCCTAAAATCTTAATCA-TAAATCCTTAAAAC
1 AAACCCTAAAATCAAAACCCTCAACCCTTCAAACCCTAAAATC-AAAACATTAAATCCTTAAAAC
* *
6657573 CCCAAAA-TCAAAA-CCTCAAATCCTCAAAACCTTAAAATCAAAACCTTAAACCTCAAA-CTTCA
65 CCCAAAACT-AAAACCCT-AAATCCTCAAAACCCTAAAATCAAAACCTTAAACCTCAAACCCT-A
*
6657635 AAATTAAAACCCCAAA-CCCTTG
127 AAATCAAAACCCCAAACCCCTTG
* * *
6657657 AAACCTTAAAATCAAAACCCTGAACCCTTCAAACCCTAAAATCAAAACATTAAATCCTTCAAACC
1 AAACCCTAAAATCAAAACCCTCAACCCTTCAAACCCTAAAATCAAAACATTAAATCCTTAAAACC
* ** *
6657722 CTAAAACTAAAACCCTAAATCCTTTAAACCCTAAAATCAAAATCTTAAACCTCAAACCCTAAAAT
66 CCAAAACTAAAACCCTAAATCCTCAAAACCCTAAAATCAAAACCTTAAACCTCAAACCCTAAAAT
* *
6657787 CAAAACCCTAAACCCCTTT
131 CAAAACCCCAAACCCCTTG
6657806 AAACCC-AAGAATCAAAA
1 AAACCCTAA-AATCAAAA
6657823 TCTCTAAACC
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
147 4 0.03
148 116 0.81
149 24 0.17
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (149 bp):
AAACCCTAAAATCAAAACCCTCAACCCTTCAAACCCTAAAATCAAAACATTAAATCCTTAAAACC
CCAAAACTAAAACCCTAAATCCTCAAAACCCTAAAATCAAAACCTTAAACCTCAAACCCTAAAAT
CAAAACCCCAAACCCCTTG
Found at i:6657726 original size:16 final size:16
Alignment explanation
Indices: 6657707--6657756 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
6657697 ATCAAAACAT
*
6657707 TAAATCCTTCAAACCC
1 TAAATCCTTAAAACCC
*
6657723 TAAA-AC-TAAAACCC
1 TAAATCCTTAAAACCC
*
6657737 TAAATCCTTTAAACCC
1 TAAATCCTTAAAACCC
6657753 TAAA
1 TAAA
6657757 ATCAAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATCCTTAAAACCC
Found at i:6657736 original size:14 final size:14
Alignment explanation
Indices: 6657717--6657798 Score: 60
Period size: 14 Copynumber: 5.7 Consensus size: 14
6657707 TAAATCCTTC
6657717 AAACCCTAAAACTA
1 AAACCCTAAAACTA
* *
6657731 AAACCCTAAATCCTTT
1 AAACCCTAAA-AC-TA
6657747 AAACCCTAAAA-TCA
1 AAACCCTAAAACT-A
* * * *
6657761 AAATCTTAAACCTC
1 AAACCCTAAAACTA
6657775 AAACCCTAAAA-TCA
1 AAACCCTAAAACT-A
6657789 AAACCCTAAA
1 AAACCCTAAA
6657799 CCCCTTTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
13 2 0.04
14 36 0.71
15 2 0.04
16 11 0.22
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAACTA
Found at i:6663672 original size:6 final size:6
Alignment explanation
Indices: 6663634--6663663 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6663624 GCGAGGACTG
6663634 TGTTTT T-TTTT TGTTTT TGTTTT TGTTTT T
1 TGTTTT TGTTTT TGTTTT TGTTTT TGTTTT T
6663664 TTTATTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TGTTTT
Found at i:6663804 original size:23 final size:22
Alignment explanation
Indices: 6663778--6663821 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
6663768 AGAGATCTGT
**
6663778 TGAAGGGGTTTTCAGAGAGAGCC
1 TGAAGGGGGGTTC-GAGAGAGCC
6663801 TGAAGGGGGGTTCGAGAGAGC
1 TGAAGGGGGGTTCGAGAGAGC
6663822 TTCCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.25, C:0.11, G:0.45, T:0.18
Consensus pattern (22 bp):
TGAAGGGGGGTTCGAGAGAGCC
Found at i:6664059 original size:15 final size:15
Alignment explanation
Indices: 6664026--6664058 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
6664016 TTTCTTTTTC
6664026 TTTTGTTTGTTTATT
1 TTTTGTTTGTTTATT
*
6664041 TTTTGTTT-TTTGTT
1 TTTTGTTTGTTTATT
6664055 TTTT
1 TTTT
6664059 TTGTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTGTTTGTTTATT
Found at i:6665186 original size:23 final size:25
Alignment explanation
Indices: 6665143--6665191 Score: 84
Period size: 23 Copynumber: 2.0 Consensus size: 25
6665133 AACATAAAAG
6665143 ATAATAATATTTTTATATTAAAATA
1 ATAATAATATTTTTATATTAAAATA
6665168 ATAATAAT-TTTTTAT-TTAAAATA
1 ATAATAATATTTTTATATTAAAATA
6665191 A
1 A
6665192 AGTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.38
24 7 0.29
25 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATAATATTTTTATATTAAAATA
Found at i:6665501 original size:16 final size:15
Alignment explanation
Indices: 6665469--6665513 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
6665459 CGAAATCTAC
*
6665469 TTTATTATTATTATTT
1 TTTATTATCA-TATTT
6665485 TGTTATTATCATATTT
1 T-TTATTATCATATTT
6665501 TTATATTATCATA
1 TT-TATTATCATA
6665514 CTGTTATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 17 0.65
17 8 0.31
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTATTATCATATTT
Found at i:6665536 original size:5 final size:5
Alignment explanation
Indices: 6665526--6665602 Score: 70
Period size: 5 Copynumber: 15.6 Consensus size: 5
6665516 GTTATCATAC
* * *
6665526 TATAT TATAT TATAT TGTAT CATA- T-TAT TGTAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* *
6665574 TGTAT TATTAT TATTAT TTTAT TAT-T TAT
1 TATAT TA-TAT TA-TAT TATAT TATAT TAT
6665603 TTTGTTTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
3 2 0.03
4 5 0.08
5 43 0.72
6 10 0.17
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:6665610 original size:17 final size:17
Alignment explanation
Indices: 6665556--6665599 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
6665546 CATATTATTG
*
6665556 TATTATATTA-TATTA-
1 TATTTTATTATTATTAT
*
6665571 TATTGTATTATTATTAT
1 TATTTTATTATTATTAT
6665588 TATTTTATTATT
1 TATTTTATTATT
6665600 TATTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.36
16 5 0.20
17 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTTTATTATTATTAT
Found at i:6667440 original size:41 final size:41
Alignment explanation
Indices: 6667383--6667468 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
6667373 TACTATTTAA
* *
6667383 AGATACCTAAGTCAATCTTAAGACTTTTTTTTAAATAGGAT
1 AGATACCTAAGTCAATCTTAAGACTCTTCTTTAAATAGGAT
* *
6667424 AGATACCTAAGTCAATCTTGAGACTCTTCTTTAAATATGAT
1 AGATACCTAAGTCAATCTTAAGACTCTTCTTTAAATAGGAT
6667465 AGAT
1 AGAT
6667469 TCTATCAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (41 bp):
AGATACCTAAGTCAATCTTAAGACTCTTCTTTAAATAGGAT
Found at i:6668144 original size:38 final size:37
Alignment explanation
Indices: 6668082--6668156 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
6668072 TATGTATTGT
6668082 CTTTTTGTATATATTTGTATACTAACCCTATATATTA
1 CTTTTTGTATATATTTGTATACTAACCCTATATATTA
* * *
6668119 CTTTTTGTATATTATTTTTTTACTAACCCTGTATATTA
1 CTTTTTGTATA-TATTTGTATACTAACCCTATATATTA
6668157 GCTAGTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 11 0.32
38 23 0.68
ACGTcount: A:0.27, C:0.13, G:0.05, T:0.55
Consensus pattern (37 bp):
CTTTTTGTATATATTTGTATACTAACCCTATATATTA
Found at i:6671106 original size:10 final size:9
Alignment explanation
Indices: 6671087--6671170 Score: 55
Period size: 10 Copynumber: 8.6 Consensus size: 9
6671077 GAGGTGTTAA
6671087 AAAAATAAAG
1 AAAAA-AAAG
6671097 CAAAAAAAAG
1 -AAAAAAAAG
6671107 AAACAAAAAAG
1 -AA-AAAAAAG
6671118 AAATAAAAAGTG
1 AAA-AAAAA--G
6671130 AAAAAAATTA-
1 AAAAAAA--AG
6671140 AAAAAAAAG
1 AAAAAAAAG
6671149 AAAAAAAA-
1 AAAAAAAAG
* *
6671157 AAAATAAGG
1 AAAAAAAAG
6671166 AAAAA
1 AAAAA
6671171 GGGAAACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
8 7 0.11
9 13 0.21
10 20 0.33
11 16 0.26
12 4 0.07
13 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.07
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:6671152 original size:17 final size:17
Alignment explanation
Indices: 6671111--6671170 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 17
6671101 AAAAAGAAAC
6671111 AAAAAAGAAATAAA-AAGTG
1 AAAAAA-AAA-AAATAAG-G
* *
6671130 AAAAAAATTAAAAAAAAAG
1 AAAAAAA--AAAAATAAGG
6671149 AAAAAAAAAAAATAAGG
1 AAAAAAAAAAAATAAGG
6671166 AAAAA
1 AAAAA
6671171 GGGAAACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 13 0.37
18 1 0.03
19 17 0.49
20 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAAAATAAGG
Found at i:6671158 original size:11 final size:10
Alignment explanation
Indices: 6671086--6671157 Score: 72
Period size: 10 Copynumber: 6.9 Consensus size: 10
6671076 TGAGGTGTTA
6671086 AAAAAATAAAG
1 AAAAAA-AAAG
*
6671097 CAAAAAAAAG
1 AAAAAAAAAG
6671107 AAACAAAAAAG
1 AAA-AAAAAAG
*
6671118 AAATAAAAAG
1 AAAAAAAAAG
* **
6671128 TGAAAAAAATT
1 -AAAAAAAAAG
6671139 AAAAAAAAAG
1 AAAAAAAAAG
6671149 AAAAAAAAA
1 AAAAAAAAA
6671158 AAATAAGGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
10 28 0.57
11 21 0.43
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.07
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6672101 original size:121 final size:121
Alignment explanation
Indices: 6671868--6672326 Score: 374
Period size: 121 Copynumber: 3.8 Consensus size: 121
6671858 CACTTATCAC
* * * * *
6671868 TCATTCGATCTTAGCTCAGTCCAGATCATTTTCTTGATTCG-CGATTATATCTCAGTCATTCATC
1 TCATTCTATCTTAGCTCAGTCCAGATCATTTTTTTGACTCGTAG-TTTTATCTCAGTCATTCATC
* * * * * * * * *
6671932 TTCGACTTCGATTCGGT-TCTAGTCACTTTATCTTTTGGACTTGTGGTTTTGGCCTAA
65 TTTGACCTCGACTCGATCT-TGGTCGCTTTATCTTTTCGACTTGTGGTTTCGTCCTAA
* * *
6671989 TCATTCTTTCTTGGCTCAATCCAGATCATTTTTTTGACTCGTAGTTTTATCTCAGTCATTCATCT
1 TCATTCTATCTTAGCTCAGTCCAGATCATTTTTTTGACTCGTAGTTTTATCTCAGTCATTCATCT
* * * * *
6672054 TTGACCTCTACTCGATCTTGGTCGCTTTTAT-TTTTTGACTCGCGGTTTCGTCCTGA
66 TTGACCTCGACTCGATCTTGGTCGC-TTTATCTTTTCGACTTGTGGTTTCGTCCTAA
* * * * * * * * * *
6672110 TCATTCAATCTCAGTTCAGTCTAGATCTTTTTTTTTTACTCATGATTTTGTAT-T-GGCCATTCA
1 TCATTCTATCTTAGCTCAGTCCAGATC-ATTTTTTTGACTCGT-AGTTT-TATCTCAGTCATTCA
* * * * ** *
6672173 TCTTTGACCTCAACTCGATCCTGGTTGCTTTATCTTTTCGATTTGTAATTTCATCCTAA
63 TCTTTGACCTCGACTCGATCTTGGTCGCTTTATCTTTTCGACTTGTGGTTTCGTCCTAA
* * ** * *
6672232 TCATT-TGATCTTGGCTCAGTCCAGATCATTTTTTTGACTTGCGGTTTCATCTCGGTCATTCATC
1 TCATTCT-ATCTTAGCTCAGTCCAGATCATTTTTTTGACTCGTAGTTTTATCTCAGTCATTCATC
* *
6672296 TTTGATCTCGACTC-AGTCTTGGTTGCTTTAT
65 TTTGACCTCGACTCGA-TCTTGGTCGCTTTAT
6672327 TTTCAAATTC
Statistics
Matches: 265, Mismatches: 62, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
119 2 0.01
120 5 0.02
121 161 0.61
122 89 0.34
123 5 0.02
124 3 0.01
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (121 bp):
TCATTCTATCTTAGCTCAGTCCAGATCATTTTTTTGACTCGTAGTTTTATCTCAGTCATTCATCT
TTGACCTCGACTCGATCTTGGTCGCTTTATCTTTTCGACTTGTGGTTTCGTCCTAA
Found at i:6672251 original size:122 final size:122
Alignment explanation
Indices: 6672045--6672266 Score: 266
Period size: 122 Copynumber: 1.8 Consensus size: 122
6672035 TTATCTCAGT
* * * ** * *
6672045 CATTCATCTTTGACCTCTACTCGATCTTGGTCGCTTTTATTTTTTGACTCGCGGTTTCGTCCTGA
1 CATTCATCTTTGACCTCAACTCGATCCTGGTCGCTTTTATTTTTCGACTCGCAATTTCATCCTAA
* * *
6672110 TCATTCAATCTCAGTTCAGTCTAGATCTTTTTTTTTTACTCATGATTTTGTATTGGC
66 TCATTCAATCTCAGCTCAGTCCAGATCATTTTTTTTTACTCATGATTTTGTATTGGC
* * * *
6672167 CATTCATCTTTGACCTCAACTCGATCCTGGTTGC-TTTATCTTTTCGATTTGTAATTTCATCCTA
1 CATTCATCTTTGACCTCAACTCGATCCTGGTCGCTTTTAT-TTTTCGACTCGCAATTTCATCCTA
** **
6672231 ATCATTTGATCTTGGCTCAGTCCAGATCATTTTTTT
65 ATCATTCAATCTCAGCTCAGTCCAGATCATTTTTTT
6672267 GACTTGCGGT
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
121 5 0.06
122 76 0.94
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.47
Consensus pattern (122 bp):
CATTCATCTTTGACCTCAACTCGATCCTGGTCGCTTTTATTTTTCGACTCGCAATTTCATCCTAA
TCATTCAATCTCAGCTCAGTCCAGATCATTTTTTTTTACTCATGATTTTGTATTGGC
Found at i:6672626 original size:11 final size:11
Alignment explanation
Indices: 6672612--6672636 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6672602 CATATTTTTA
6672612 TATTATCATAC
1 TATTATCATAC
6672623 TATTATCATAC
1 TATTATCATAC
6672634 TAT
1 TAT
6672637 ACTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTATCATAC
Found at i:6672648 original size:5 final size:5
Alignment explanation
Indices: 6672634--6672750 Score: 68
Period size: 5 Copynumber: 23.8 Consensus size: 5
6672624 ATTATCATAC
* * * *
6672634 TATAC TATAT TATAT TGTAT CATGT T--AT TACTAT TATA- T-TAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
* *
6672681 TATAGT T-TAT TATA- T-TAG TATAT TATAT TACTAA TATTAT TATTAT
1 TATA-T TATAT TATAT TATAT TATAT TATAT TA-TAT TA-TAT TA-TAT
* *
6672727 TATAT CATAT TATCT TATAT TATA
1 TATAT TATAT TATAT TATAT TATA
6672751 CTATTTTTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 20
0.71 0.12 0.16
Matches are distributed among these distances:
3 6 0.07
4 6 0.07
5 55 0.63
6 20 0.23
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:6672674 original size:47 final size:48
Alignment explanation
Indices: 6672609--6672723 Score: 121
Period size: 47 Copynumber: 2.4 Consensus size: 48
6672599 TATCATATTT
* *
6672609 TTATATTA-TCATACTATTATCATACTATACTATATTATATT-GTATCA
1 TTATATTACTAATATTATTATCATACTATACTATATTATATTAGTAT-A
* * * * *
6672656 TGT-TATTACTATTA-TATTATTATATTATAGTTTATTATATTAGTATA
1 T-TATATTACTAATATTATTATCATACTATACTATATTATATTAGTATA
6672703 TTATATTACTAATATTATTAT
1 TTATATTACTAATATTATTAT
6672724 TATTATATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
46 1 0.02
47 41 0.73
48 14 0.25
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (48 bp):
TTATATTACTAATATTATTATCATACTATACTATATTATATTAGTATA
Found at i:6672678 original size:3 final size:3
Alignment explanation
Indices: 6672658--6672729 Score: 50
Period size: 3 Copynumber: 26.3 Consensus size: 3
6672648 TTGTATCATG
* * *
6672658 TTA TTA CTA TTA -TA TTA TTA -TA TTA -TA GT- TTA TTA -TA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6672701 -TA TTA -TA TTA CTA ATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6672730 ATCATATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
2 13 0.24
3 42 0.76
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:6672680 original size:37 final size:37
Alignment explanation
Indices: 6672639--6672720 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
6672629 CATACTATAC
* *
6672639 TATATTATA-TTGTATCATGTTATTACTATTATATTA-T
1 TATATTATAGTT-TATCATATTAGTA-TATTATATTACT
*
6672676 TATATTATAGTTTATTATATTAGTATATTATATTACT
1 TATATTATAGTTTATCATATTAGTATATTATATTACT
*
6672713 AATATTAT
1 TATATTAT
6672721 TATTATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 10 0.26
37 27 0.69
38 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (37 bp):
TATATTATAGTTTATCATATTAGTATATTATATTACT
Found at i:6672747 original size:23 final size:24
Alignment explanation
Indices: 6672665--6672749 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 24
6672655 ATGTTATTAC
6672665 TATTATATTATTATATTATAGTT-
1 TATTATATTATTATATTATAGTTA
* *
6672688 TATTATATTAGTATATTATATTACTAA
1 TATTATATTATTATATTATAGT--T-A
*
6672715 TATTATTATTATTATATCATA-TTA
1 TATTA-TATTATTATATTATAGTTA
*
6672739 TCTTATATTAT
1 TATTATATTAT
6672750 ACTATTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
23 26 0.50
24 5 0.10
25 2 0.04
27 6 0.12
28 13 0.25
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTATATTATTATATTATAGTTA
Found at i:6672755 original size:28 final size:27
Alignment explanation
Indices: 6672646--6672755 Score: 84
Period size: 28 Copynumber: 4.1 Consensus size: 27
6672636 TACTATATTA
* * * *
6672646 TATTGTATCATGTTATTACTATTATAT
1 TATTATATCATATTACTAATATTATAT
* *
6672673 TATTATAT--TA-TAGT-TTATTATAT
1 TATTATATCATATTACTAATATTATAT
* *
6672696 TAGTATATTATATTACTAATATTATTAT
1 TATTATATCATATTACTAATATTA-TAT
* *
6672724 TATTATATCATATTATCTTATATTATAC
1 TATTATATCATATTA-CTAATATTATAT
6672752 TATT
1 TATT
6672756 TTTTTTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
23 15 0.23
24 3 0.05
25 3 0.05
26 3 0.05
27 12 0.18
28 22 0.33
29 8 0.12
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (27 bp):
TATTATATCATATTACTAATATTATAT
Found at i:6673651 original size:6 final size:6
Alignment explanation
Indices: 6673642--6673697 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
6673632 TTTTCCATTT
*
6673642 TTTTTA -TTTTA --TTTA TTTTATA TTTTTA -ATTTA -TTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
6673686 TTTTTA TTTTTA
1 TTTTTA TTTTTA
6673698 ACTTCTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 13 0.30
6 21 0.48
7 6 0.14
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:6673667 original size:22 final size:22
Alignment explanation
Indices: 6673642--6673695 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
6673632 TTTTCCATTT
6673642 TTTTTATTTTA-TTTATTTTATA
1 TTTTTATTTTATTTTATTTT-TA
*
6673664 TTTTTAATTTATTTTATTTTTA
1 TTTTTATTTTATTTTATTTTTA
6673686 TTTTTATTTT
1 TTTTTATTTT
6673696 TAACTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTATTTTATTTTATTTTTA
Found at i:6673673 original size:18 final size:16
Alignment explanation
Indices: 6673648--6673695 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
6673638 ATTTTTTTTA
6673648 TTTTATTTATTTTATAT
1 TTTTATTTATTTTAT-T
6673665 TTTTAATTTATTTTATT
1 TTTT-ATTTATTTTATT
*
6673682 TTTATTTTTATTTT
1 TTT-TATTTATTTT
6673696 TAACTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTTATT
Found at i:6673706 original size:28 final size:29
Alignment explanation
Indices: 6673645--6673711 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
6673635 TCCATTTTTT
*
6673645 TTATTTTA--TTTATTTTATATTTTTAAT
1 TTATTTTATTTTTATTTTATATTTTTAAC
6673672 TTATTTTATTTTTATTTT-TATTTTTAAC
1 TTATTTTATTTTTATTTTATATTTTTAAC
*
6673700 TTCTTTTATTTT
1 TTATTTTATTTT
6673712 ACTGATTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 8 0.22
28 20 0.56
29 8 0.22
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (29 bp):
TTATTTTATTTTTATTTTATATTTTTAAC
Found at i:6673712 original size:5 final size:5
Alignment explanation
Indices: 6673638--6673695 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
6673628 TTCCTTTTCC
* *
6673638 ATTTT -TTTT ATTTT A-TTT ATTTT A-TAT -TTTT AATTT ATTTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT
6673685 ATTTTT ATTTT
1 A-TTTT ATTTT
6673696 TAACTTCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 12 0.27
5 21 0.48
6 11 0.25
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:6674567 original size:41 final size:39
Alignment explanation
Indices: 6674496--6674578 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 39
6674486 TTAAAAATAC
* *
6674496 CTAAGTCAATCTTAGGACTCTTCTTTAAATAAGACAGATAT
1 CTAAGTCAATCTTAAGACTATTCTTTAAAT-AGACAGAT-T
*
6674537 CTAAGTCAATCTTAAGATTATT-TTTGAAATAGACAGATT
1 CTAAGTCAATCTTAAGACTATTCTTT-AAATAGACAGATT
6674576 CTA
1 CTA
6674579 TCAAGTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 4 0.11
40 11 0.29
41 23 0.61
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (39 bp):
CTAAGTCAATCTTAAGACTATTCTTTAAATAGACAGATT
Found at i:6675773 original size:1 final size:1
Alignment explanation
Indices: 6675767--6675794 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6675757 AACTGTAGCG
6675767 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
6675795 AAATGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:6676982 original size:27 final size:26
Alignment explanation
Indices: 6676935--6676989 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
6676925 TTTAATACAC
6676935 AATATTATAATAAAATAAAATAAAAT
1 AATATTATAATAAAATAAAATAAAAT
* * *
6676961 AATATTATAAATAAGATTAAATTAAAT
1 AATATTAT-AATAAAATAAAATAAAAT
6676988 AA
1 AA
6676990 GGTCATCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AATATTATAATAAAATAAAATAAAAT
Found at i:6677071 original size:16 final size:17
Alignment explanation
Indices: 6677039--6677073 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6677029 ATAAAATAAT
6677039 TTATTTATTTATCAAAA
1 TTATTTATTTATCAAAA
*
6677056 TTATTT-TTTTTCAAAA
1 TTATTTATTTATCAAAA
6677072 TT
1 TT
6677074 TATATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTATTTATCAAAA
Found at i:6677076 original size:17 final size:18
Alignment explanation
Indices: 6677036--6677076 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
6677026 ATGATAAAAT
6677036 AATTTATTTATTTATCAA
1 AATTTATTTATTTATCAA
*
6677054 AA-TTATTT-TTTTTCAA
1 AATTTATTTATTTATCAA
6677070 AATTTAT
1 AATTTAT
6677077 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATTTATTTATCAA
Found at i:6682027 original size:21 final size:21
Alignment explanation
Indices: 6682001--6682053 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
6681991 AGCAATGGGA
6682001 CCTGGTGGACCGGGAGGAGGG
1 CCTGGTGGACCGGGAGGAGGG
6682022 CCTGGTGGACCGGGAGGAGGG
1 CCTGGTGGACCGGGAGGAGGG
*
6682043 CCTGGAGGACC
1 CCTGGTGGACC
6682054 TGGCGGATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.53, T:0.09
Consensus pattern (21 bp):
CCTGGTGGACCGGGAGGAGGG
Found at i:6682050 original size:30 final size:30
Alignment explanation
Indices: 6682015--6682129 Score: 158
Period size: 30 Copynumber: 3.8 Consensus size: 30
6682005 GTGGACCGGG
* ** *
6682015 AGGAGGGCCTGGTGGACCGGGAGGAGGGCC
1 AGGAGGACCTGGTGGATGGGGAGGAGGTCC
* * *
6682045 TGGAGGACCTGGCGGATGGGGGGGAGGTCC
1 AGGAGGACCTGGTGGATGGGGAGGAGGTCC
6682075 AGGAGGACCTGGTGGATGGGGAGGAGGTCC
1 AGGAGGACCTGGTGGATGGGGAGGAGGTCC
*
6682105 AGGAGGACCCGGTGGATGGGGAGGA
1 AGGAGGACCTGGTGGATGGGGAGGA
6682130 CCAGGTGGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.18, C:0.16, G:0.56, T:0.10
Consensus pattern (30 bp):
AGGAGGACCTGGTGGATGGGGAGGAGGTCC
Found at i:6682099 original size:18 final size:17
Alignment explanation
Indices: 6682076--6682143 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 17
6682066 GGGAGGTCCA
6682076 GGAGGACCTGGTGGATGG
1 GGAGGACC-GGTGGATGG
**
6682094 GGAGGA--GGTCCA--G
1 GGAGGACCGGTGGATGG
6682107 G-AGGACCCGGTGGATGG
1 GGAGGA-CCGGTGGATGG
6682124 GGAGGACCAGGTGGATGG
1 GGAGGACC-GGTGGATGG
6682142 GG
1 GG
6682144 CGGAGGTCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
15 8 0.21
17 4 0.10
18 21 0.54
ACGTcount: A:0.19, C:0.13, G:0.56, T:0.12
Consensus pattern (17 bp):
GGAGGACCGGTGGATGG
Found at i:6682128 original size:48 final size:48
Alignment explanation
Indices: 6682076--6682177 Score: 168
Period size: 48 Copynumber: 2.1 Consensus size: 48
6682066 GGGAGGTCCA
* *
6682076 GGAGGACCTGGTGGATGGGGAGGAGGTCCAGGAGGACCCGGTGGATGG
1 GGAGGACCAGGTGGATGGGGAGGAGGTCCAGGAGGACCCGGGGGATGG
* *
6682124 GGAGGACCAGGTGGATGGGGCGGAGGTCCAGGAGGACCTGGGGGATGG
1 GGAGGACCAGGTGGATGGGGAGGAGGTCCAGGAGGACCCGGGGGATGG
6682172 GGAGGA
1 GGAGGA
6682178 GGTCCAGGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.20, C:0.14, G:0.56, T:0.11
Consensus pattern (48 bp):
GGAGGACCAGGTGGATGGGGAGGAGGTCCAGGAGGACCCGGGGGATGG
Found at i:6682149 original size:21 final size:18
Alignment explanation
Indices: 6682106--6682143 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6682096 AGGAGGTCCA
*
6682106 GGAGGACCCGGTGGATGG
1 GGAGGACCAGGTGGATGG
6682124 GGAGGACCAGGTGGATGG
1 GGAGGACCAGGTGGATGG
6682142 GG
1 GG
6682144 CGGAGGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.58, T:0.11
Consensus pattern (18 bp):
GGAGGACCAGGTGGATGG
Found at i:6682149 original size:78 final size:78
Alignment explanation
Indices: 6682046--6682191 Score: 247
Period size: 78 Copynumber: 1.9 Consensus size: 78
6682036 AGGAGGGCCT
* * *
6682046 GGAGGACCTGGCGGATGGGGGGGAGGTCCAGGAGGACCTGGTGGATGGGGAGGAGGTCCAGGAGG
1 GGAGGACCAGGCGGATGGGGCGGAGGTCCAGGAGGACCTGGGGGATGGGGAGGAGGTCCAGGAGG
6682111 ACCCGGTGGATGG
66 ACCCGGTGGATGG
* *
6682124 GGAGGACCAGGTGGATGGGGCGGAGGTCCAGGAGGACCTGGGGGATGGGGAGGAGGTCCAGGGGG
1 GGAGGACCAGGCGGATGGGGCGGAGGTCCAGGAGGACCTGGGGGATGGGGAGGAGGTCCAGGAGG
6682189 ACC
66 ACC
6682192 TGGCTGGGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.18, C:0.16, G:0.55, T:0.10
Consensus pattern (78 bp):
GGAGGACCAGGCGGATGGGGCGGAGGTCCAGGAGGACCTGGGGGATGGGGAGGAGGTCCAGGAGG
ACCCGGTGGATGG
Found at i:6682192 original size:30 final size:30
Alignment explanation
Indices: 6682124--6682194 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
6682114 CGGTGGATGG
* * *
6682124 GGAGGACCAGGTGGATGGGGCGGAGGTCCA
1 GGAGGACCTGGGGGATGGGGAGGAGGTCCA
6682154 GGAGGACCTGGGGGATGGGGAGGAGGTCCA
1 GGAGGACCTGGGGGATGGGGAGGAGGTCCA
*
6682184 GGGGGACCTGG
1 GGAGGACCTGG
6682195 CTGGGGTCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.15, G:0.56, T:0.10
Consensus pattern (30 bp):
GGAGGACCTGGGGGATGGGGAGGAGGTCCA
Found at i:6693816 original size:24 final size:23
Alignment explanation
Indices: 6693783--6693849 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 23
6693773 CCTTTTCAGC
6693783 TTCTTCCTTCTTTTTTTTTCTTGT
1 TTCTTCCTTCTTTTTTTTTCTT-T
*
6693807 TTCTTGCTTCTTGTTCCTTTTTCTTT
1 TTCTTCCTTCTT-TT--TTTTTCTTT
*
6693833 TTCTATTC-TCTTTTTTT
1 TTCT-TCCTTCTTTTTTT
6693850 CCTTCTCAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 3 0.08
24 11 0.30
25 4 0.11
26 9 0.24
27 10 0.27
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.73
Consensus pattern (23 bp):
TTCTTCCTTCTTTTTTTTTCTTT
Found at i:6694232 original size:7 final size:6
Alignment explanation
Indices: 6694223--6694252 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6694213 ATTATTTTAT
*
6694223 TTTTTG TTTTTG TTTTTG TTTATG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
6694253 GCTTCCAAAG
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:0.03, C:0.00, G:0.17, T:0.80
Consensus pattern (6 bp):
TTTTTG
Found at i:6694232 original size:12 final size:13
Alignment explanation
Indices: 6694217--6694252 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6694207 TTTTTAATTA
6694217 TTTTAT-TTTTTG
1 TTTTATGTTTTTG
6694229 TTTT-TGTTTTTG
1 TTTTATGTTTTTG
6694241 -TTTATGTTTTTG
1 TTTTATGTTTTTG
6694253 GCTTCCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.06, C:0.00, G:0.14, T:0.81
Consensus pattern (13 bp):
TTTTATGTTTTTG
Found at i:6697349 original size:3 final size:3
Alignment explanation
Indices: 6697341--6697387 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
6697331 CATGCTTTAG
6697341 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
6697387 A
1 A
6697388 AAAAATAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6704842 original size:22 final size:22
Alignment explanation
Indices: 6704817--6704860 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6704807 AAGACCTTGT
6704817 ATCTAACTCAGATCAAGCACAA
1 ATCTAACTCAGATCAAGCACAA
6704839 ATCTAACTCAGATCAAGCACAA
1 ATCTAACTCAGATCAAGCACAA
6704861 CTGTGACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.18
Consensus pattern (22 bp):
ATCTAACTCAGATCAAGCACAA
Found at i:6707459 original size:431 final size:431
Alignment explanation
Indices: 6706652--6707514 Score: 1681
Period size: 431 Copynumber: 2.0 Consensus size: 431
6706642 CCCTTCTCTT
6706652 TACTTTAACCTGTAGTCAGAAATGATAAAATACAAAGAGAATAATCAACTGAAGATAACAGCAAA
1 TACTTTAACCTGTAGTCAGAAATGATAAAATACAAAGAGAATAATCAACTGAAGATAACAGCAAA
6706717 ATGCAATCAAAGTAGACTAGAAACATAAACAAATAAACAACAGCTCCGAGTTATGAGAAAGAAAA
66 ATGCAATCAAAGTAGACTAGAAACATAAACAAATAAACAACAGCTCCGAGTTATGAGAAAGAAAA
*
6706782 TTGAAATCACTGATATATGCAGTACTTGATGATTTTATAAACTTCACTTAACAACCAAGGCCAAG
131 TTGAAATCACTAATATATGCAGTACTTGATGATTTTATAAACTTCACTTAACAACCAAGGCCAAG
*
6706847 AAGTCCATGTGACATGGGCAGTAAGGGCCATGAGATAGGACACAAGCCGCTTCAAACTCCTCATC
196 AAGTCCATGTGACATGGGCAGTAAGGGCCATGAGATAGGACACAAGCCACTTCAAACTCCTCATC
6706912 TGAGTAAAGAAAACTTAAAAATCCCAATCTATACGCATCTAAATCCAAACAGTATGAAGGAATAA
261 TGAGTAAAGAAAACTTAAAAATCCCAATCTATACGCATCTAAATCCAAACAGTATGAAGGAATAA
6706977 TGCAAATATCCAATTAAGAAATTGGGAACTAAAAATAAATAAATAAGCACTTCTGAATTATTATT
326 TGCAAATATCCAATTAAGAAATTGGGAACTAAAAATAAATAAATAAGCACTTCTGAATTATTATT
6707042 TCTCAACATCAATCCATAAATGATCTTCACTTTCCTTGAAA
391 TCTCAACATCAATCCATAAATGATCTTCACTTTCCTTGAAA
6707083 TACTTTAACCTGTAGTCAGAAATGATAAAATACAAAGAGAATAATCAACTGAAGATAACAGCAAA
1 TACTTTAACCTGTAGTCAGAAATGATAAAATACAAAGAGAATAATCAACTGAAGATAACAGCAAA
6707148 ATGCAATCAAAGTAGACTAGAAACATAAACAAATAAACAACAGCTCCGAGTTATGAGAAAGAAAA
66 ATGCAATCAAAGTAGACTAGAAACATAAACAAATAAACAACAGCTCCGAGTTATGAGAAAGAAAA
*
6707213 TTGAAATCACTAATATATGCAGTACTTGATGATTTTATGAACTTCACTTAACAACCAAGGCCAAG
131 TTGAAATCACTAATATATGCAGTACTTGATGATTTTATAAACTTCACTTAACAACCAAGGCCAAG
6707278 AAGTCCATGTGACATGGGCAGTAAGGGCCATGAGATAGGACACAAGCCACTTCAAACTCCTCATC
196 AAGTCCATGTGACATGGGCAGTAAGGGCCATGAGATAGGACACAAGCCACTTCAAACTCCTCATC
*
6707343 TGAGTAAAGAAAACTTAAAAATCCCAATCTATACGCATCTAAATCGAAACAGTATGAAGGAATAA
261 TGAGTAAAGAAAACTTAAAAATCCCAATCTATACGCATCTAAATCCAAACAGTATGAAGGAATAA
*
6707408 TGCAAATATCCAATTAAGAAATTGGGAACTAAAAATAAATAAATGAGCACTTCTGAATTATTATT
326 TGCAAATATCCAATTAAGAAATTGGGAACTAAAAATAAATAAATAAGCACTTCTGAATTATTATT
6707473 TCTCAACATCAATCCATAAATGATCTTCACTTTCCTTGAAA
391 TCTCAACATCAATCCATAAATGATCTTCACTTTCCTTGAAA
6707514 T
1 T
6707515 GCCATTCTTC
Statistics
Matches: 427, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
431 427 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (431 bp):
TACTTTAACCTGTAGTCAGAAATGATAAAATACAAAGAGAATAATCAACTGAAGATAACAGCAAA
ATGCAATCAAAGTAGACTAGAAACATAAACAAATAAACAACAGCTCCGAGTTATGAGAAAGAAAA
TTGAAATCACTAATATATGCAGTACTTGATGATTTTATAAACTTCACTTAACAACCAAGGCCAAG
AAGTCCATGTGACATGGGCAGTAAGGGCCATGAGATAGGACACAAGCCACTTCAAACTCCTCATC
TGAGTAAAGAAAACTTAAAAATCCCAATCTATACGCATCTAAATCCAAACAGTATGAAGGAATAA
TGCAAATATCCAATTAAGAAATTGGGAACTAAAAATAAATAAATAAGCACTTCTGAATTATTATT
TCTCAACATCAATCCATAAATGATCTTCACTTTCCTTGAAA
Found at i:6710197 original size:167 final size:167
Alignment explanation
Indices: 6709921--6710237 Score: 616
Period size: 167 Copynumber: 1.9 Consensus size: 167
6709911 CGTTCAAATC
*
6709921 AAATTACGCTATAGTACTGATTTATAGTACTAATCTCTTACCCAAACGACATTTCCAATTGCCTA
1 AAATTACGCTATAATACTGATTTATAGTACTAATCTCTTACCCAAACGACATTTCCAATTGCCTA
6709986 ATCTTAAATGAAGAGATCACAACTTCCAAAAATTACGTGTAAATAAACTAACAAACAATGCGTGA
66 ATCTTAAATGAAGAGATCACAACTTCCAAAAATTACGTGTAAATAAACTAACAAACAATGCGTGA
6710051 TTAATGAAACTATAAAGTACTGATTTAATGAAACTAT
131 TTAATGAAACTATAAAGTACTGATTTAATGAAACTAT
6710088 AAATTACGCTATAATACTGATTTATAGTACTAATCTCTTACCCAAACGACATTTCCAATTGCCTA
1 AAATTACGCTATAATACTGATTTATAGTACTAATCTCTTACCCAAACGACATTTCCAATTGCCTA
*
6710153 ATCTTAAATGAAGAGATCACAACTTCCAAAACTTACGTGTAAATAAACTAACAAACAATGCGTGA
66 ATCTTAAATGAAGAGATCACAACTTCCAAAAATTACGTGTAAATAAACTAACAAACAATGCGTGA
6710218 TTAATGAAACTATAAAGTAC
131 TTAATGAAACTATAAAGTAC
6710238 AAACAATTAA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 148 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.29
Consensus pattern (167 bp):
AAATTACGCTATAATACTGATTTATAGTACTAATCTCTTACCCAAACGACATTTCCAATTGCCTA
ATCTTAAATGAAGAGATCACAACTTCCAAAAATTACGTGTAAATAAACTAACAAACAATGCGTGA
TTAATGAAACTATAAAGTACTGATTTAATGAAACTAT
Found at i:6710982 original size:22 final size:20
Alignment explanation
Indices: 6710942--6710983 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
6710932 AAGCATTTCA
6710942 TTTATAATTTTTATTATAAT
1 TTTATAATTTTTATTATAAT
6710962 TTTATAATTATTTAATTATAAT
1 TTTATAATT-TTT-ATTATAAT
6710984 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATAATTTTTATTATAAT
Found at i:6713496 original size:34 final size:34
Alignment explanation
Indices: 6713453--6713521 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
6713443 ACTTTTGATT
* *
6713453 TATGAGGTACCTTTTGTAAGACAAAATCATGAAG
1 TATGAGGTACCTTTTGTAAGAAAAAATCATAAAG
6713487 TATGAGGTACCTTTTGTAAGAAAAAATCATAAAG
1 TATGAGGTACCTTTTGTAAGAAAAAATCATAAAG
6713521 T
1 T
6713522 CAAGTGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (34 bp):
TATGAGGTACCTTTTGTAAGAAAAAATCATAAAG
Found at i:6718952 original size:66 final size:66
Alignment explanation
Indices: 6718840--6718968 Score: 242
Period size: 66 Copynumber: 2.0 Consensus size: 66
6718830 TCAAATTAAG
6718840 ATTTAGAACACCCACATGACACTGGACTTGTTCACACCATTCAAAAAAATTAAGTCCATTGAACA
1 ATTTAGAACACCCACATGACACTGGACTTGTTCACACCATTCAAAAAAATTAAGTCCATTGAACA
6718905 A
66 A
*
6718906 ATTTAGAACACCCACATGATACTGGACTTGTTCA-ACCATTCAAAAAAATTAAGTCCATTGAAC
1 ATTTAGAACACCCACATGACACTGGACTTGTTCACACCATTCAAAAAAATTAAGTCCATTGAAC
6718969 TTTATAATAG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 29 0.47
66 33 0.53
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (66 bp):
ATTTAGAACACCCACATGACACTGGACTTGTTCACACCATTCAAAAAAATTAAGTCCATTGAACA
A
Found at i:6719559 original size:2 final size:2
Alignment explanation
Indices: 6719552--6719585 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6719542 CATACCAATA
6719552 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6719586 GAAGGTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6721784 original size:21 final size:21
Alignment explanation
Indices: 6721750--6721803 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
6721740 ATCTCACTAT
*
6721750 TAATTATATTTTCATCGTTACAA
1 TAATTA-A-TTTCATCGCTACAA
* *
6721773 TATTTAATTTCATTGCTACAA
1 TAATTAATTTCATCGCTACAA
6721794 TAATTAATTT
1 TAATTAATTT
6721804 TACTATCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 21 0.78
22 1 0.04
23 5 0.19
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (21 bp):
TAATTAATTTCATCGCTACAA
Found at i:6722925 original size:1 final size:1
Alignment explanation
Indices: 6722919--6722949 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
6722909 ATATAAACTG
6722919 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6722950 CTGAAGAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6724993 original size:11 final size:11
Alignment explanation
Indices: 6724979--6725011 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
6724969 AAATTTTAAA
6724979 TAATATTATTT
1 TAATATTATTT
6724990 TAATA-TATTT
1 TAATATTATTT
6725000 TAATATTATTT
1 TAATATTATTT
6725011 T
1 T
6725012 TATTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TAATATTATTT
Found at i:6725003 original size:21 final size:22
Alignment explanation
Indices: 6724979--6725020 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6724969 AAATTTTAAA
6724979 TAATATTA-TTTTAATATATTT
1 TAATATTATTTTTAATATATTT
*
6725000 TAATATTATTTTTATTATATT
1 TAATATTATTTTTAATATATT
6725021 ATTATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATATTATTTTTAATATATTT
Found at i:6725139 original size:32 final size:33
Alignment explanation
Indices: 6725064--6725141 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
6725054 AAATAATTTT
*
6725064 ATTAATGCATTATCTTTTCCGTGAATTATATTC
1 ATTAATGCATTATTTTTTCCGTGAATTATATTC
*
6725097 A-TAGTGCATTATTTTTTCCGTGAATTATATTC
1 ATTAATGCATTATTTTTTCCGTGAATTATATTC
6725129 ATTAAT-CATTATT
1 ATTAATGCATTATT
6725142 ATAATCCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
32 37 0.90
33 4 0.10
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (33 bp):
ATTAATGCATTATTTTTTCCGTGAATTATATTC
Found at i:6725450 original size:19 final size:21
Alignment explanation
Indices: 6725406--6725451 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
6725396 TTATTTATTT
*
6725406 ATTAAATTTAAAAAATCATGA
1 ATTAAATTTAAAAAATCATAA
*
6725427 A-TAAATTT-TAAAAT-ATAA
1 ATTAAATTTAAAAAATCATAA
6725445 ATTAAAT
1 ATTAAAT
6725452 GAATATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 7 0.32
21 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTAAATTTAAAAAATCATAA
Found at i:6726488 original size:15 final size:16
Alignment explanation
Indices: 6726463--6726518 Score: 80
Period size: 16 Copynumber: 3.5 Consensus size: 16
6726453 TTGTCCGGTG
6726463 GATAGAAAAATGGAAA
1 GATAGAAAAATGGAAA
6726479 GATA-AAAAATTGGAAGA
1 GATAGAAAAA-TGGAA-A
6726496 GA-AGAAAAATGGAAA
1 GATAGAAAAATGGAAA
6726511 GATAGAAA
1 GATAGAAA
6726519 TCATATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.22
16 20 0.56
17 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (16 bp):
GATAGAAAAATGGAAA
Found at i:6732435 original size:16 final size:16
Alignment explanation
Indices: 6732401--6732434 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6732391 TAATATTATT
6732401 AAATACAATAATATAA
1 AAATACAATAATATAA
6732417 AAATACAA-AATATAA
1 AAATACAATAATATAA
6732432 AAA
1 AAA
6732435 AATTAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATACAATAATATAA
Found at i:6733412 original size:8 final size:9
Alignment explanation
Indices: 6733396--6733420 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6733386 CAGGTAAAAA
6733396 AATTTTTTT
1 AATTTTTTT
6733405 AATTTTTTT
1 AATTTTTTT
6733414 AATTTTT
1 AATTTTT
6733421 ATATATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
AATTTTTTT
Found at i:6733450 original size:24 final size:22
Alignment explanation
Indices: 6733407--6733451 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6733397 ATTTTTTTAA
* *
6733407 TTTTTTTAATTTTTATATATTC
1 TTTTATTAATTTTTACATATTC
6733429 TTTTATTAATATTTATACATATT
1 TTTTATTAAT-TTT-TACATATT
6733452 AAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTAATTTTTACATATTC
Found at i:6734555 original size:49 final size:48
Alignment explanation
Indices: 6734405--6735155 Score: 640
Period size: 47 Copynumber: 15.8 Consensus size: 48
6734395 ACAGATGAAT
* *
6734405 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGAAGC-TTTTC-CAAATG-GA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGCTTTTTCTAAAATGAGA
* * * * * *
6734451 TTTTTAAAGTTATTGAGTCTCTGCTAAGAG-GAATTTTT-TCAGATGAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGAG-CTTTTTCTAAAATGAGA
*
6734499 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCTAAAATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAAATGAGA
* * *
6734548 TTTTAAAGTGGTTGAGTCTCTGCTGAGAGAAGTTTTTTCTAAAATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGCTTTTTCTAAAATGAGA
* *
6734597 TTTTAAAATTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCT-AAATGA-A
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAAATGAGA
* * * * *
6734644 TTTTTAAAATTGTTAAGCCTTTGCTAAGAGAAACTTTTTCTAAAATGAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGCTTTTTCTAAAATGAGA
*
6734694 -TTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTC--AAAT-AGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAAATGAGA
* * * *
6734739 TTTTAAAGTTGTT---CATCTGTTGATATGAGCTTTTTCTAAAATAAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAAATGAGA
* * *
6734785 TTTTAAAGTTGTTGAGCCTCTGTTTATAGAGGCTTTTTC--AAATG-GA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGA-GCTTTTTCTAAAATGAGA
6734831 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTC--AAATGA-A
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGCTTTTTCTAAAATGAGA
* * * * *
6734878 TTTTTAAAATTATTGAGCCTTTGCTGAGAAAAGCTTTTTC--AGATGAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAG-AGAGCTTTTTCTAAAATGAGA
* * * * * * *
6734926 TTTTAAAGTCGTTGAGCCTTTGCTTAGAGGAGTTTTTTTTAAGATAAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAAATGAGA
* * *
6734975 TTTTAAAGTTATTAAGCCTCTGCTAAGAGAGCTTTTT-T-AAATG-GA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGAGCTTTTTCTAAAATGAGA
* ** *
6735020 TTTTTAAAGTTTTTGAGCCTCTATTGAGAGGAGCTTTTTCTAAGATGAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAAATGAGA
* * *
6735070 TTTTAAAGTTGTTGAGCCTCTACTCAGATGAGCTTTTTTTAAACA--A-A
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCTAAA-ATGAGA
* * *
6735117 TTTTTAAAGTTGTTGAACCTCTGTTGAGAGGAGTTTTTT
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTT
6735156 TTTCAGATTT
Statistics
Matches: 584, Mismatches: 83, Indels: 73
0.79 0.11 0.10
Matches are distributed among these distances:
43 18 0.03
45 10 0.02
46 61 0.10
47 184 0.32
48 125 0.21
49 181 0.31
50 5 0.01
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGAGCTTTTTCTAAAATGAGA
Found at i:6736746 original size:14 final size:14
Alignment explanation
Indices: 6736722--6736764 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
6736712 TTTTTGTTTT
6736722 AAAAT-AATTAATA
1 AAAATAAATTAATA
6736735 AAAATAAATTAAT-
1 AAAATAAATTAATA
*
6736748 AAATTAAA-TAATA
1 AAAATAAATTAATA
6736761 AAAA
1 AAAA
6736765 ATGAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 4 0.15
13 15 0.58
14 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAAATTAATA
Found at i:6738019 original size:25 final size:24
Alignment explanation
Indices: 6737970--6738022 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
6737960 AAACCAATAT
*
6737970 TTATTTAATTTATTATTTATATAA
1 TTATTTAATTTATTAGTTATATAA
*
6737994 TTATTTATTTTAATTAGTTACT-TAA
1 TTATTTAATTT-ATTAGTTA-TATAA
6738019 TTAT
1 TTAT
6738023 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
25 14 0.56
26 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATTTAATTTATTAGTTATATAA
Found at i:6738679 original size:53 final size:51
Alignment explanation
Indices: 6738622--6738747 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 51
6738612 TATATGTGAA
* ** *
6738622 ATTAATAAATATTTAAAATTTATTAAAATTATTTTATATCATGTAATATTTTT
1 ATTAATAAATATTTAAAAATTATTAAAATTA-TTTATATCAAATAATA-CTTT
** * *
6738675 ATTAATAAAT-TAAAAAAATT-CTAAAATTATTTGTATCAAATAATACTTT
1 ATTAATAAATATTTAAAAATTATTAAAATTATTTATATCAAATAATACTTT
*
6738724 ATTATTAAATATTTAAAAATTATT
1 ATTAATAAATATTTAAAAATTATT
6738748 TTTTATGTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
49 12 0.20
50 21 0.36
51 9 0.15
52 7 0.12
53 10 0.17
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (51 bp):
ATTAATAAATATTTAAAAATTATTAAAATTATTTATATCAAATAATACTTT
Found at i:6740474 original size:24 final size:24
Alignment explanation
Indices: 6740431--6740477 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6740421 TAAAATAATG
*
6740431 TTGTAGAGATGTAGCCTAACAAAC
1 TTGTAGAGATGTAACCTAACAAAC
**
6740455 TTGTAGAGATGTAATTTAACAAA
1 TTGTAGAGATGTAACCTAACAAA
6740478 ATCTAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (24 bp):
TTGTAGAGATGTAACCTAACAAAC
Found at i:6741350 original size:29 final size:29
Alignment explanation
Indices: 6741308--6741367 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
6741298 CCAAAAAGTA
**
6741308 TATCAATAATTTACTCTAAAACCCTTTAC
1 TATCAATAATTTACAATAAAACCCTTTAC
*
6741337 TATCAGTAATTTACAATAAAACCCTTTAC
1 TATCAATAATTTACAATAAAACCCTTTAC
6741366 TA
1 TA
6741368 AATTAATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.37
Consensus pattern (29 bp):
TATCAATAATTTACAATAAAACCCTTTAC
Found at i:6741973 original size:13 final size:13
Alignment explanation
Indices: 6741955--6741979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6741945 TACATTCATA
6741955 TATTTATATTTGG
1 TATTTATATTTGG
6741968 TATTTATATTTG
1 TATTTATATTTG
6741980 ATGAATTATT
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TATTTATATTTGG
Found at i:6742206 original size:26 final size:26
Alignment explanation
Indices: 6742154--6742202 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6742144 CGTTCAAAAC
*
6742154 TCATTTATTTATTATTTATCTATTGT
1 TCATTTATTTATTATTTAGCTATTGT
6742180 TCATTTA-TTATTCATTT-GCTATT
1 TCATTTATTTATT-ATTTAGCTATT
6742203 TGTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.63
Consensus pattern (26 bp):
TCATTTATTTATTATTTAGCTATTGT
Found at i:6742242 original size:17 final size:17
Alignment explanation
Indices: 6742222--6742254 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6742212 TAATGACAAA
*
6742222 ATTATATTTTTATTTTT
1 ATTATAATTTTATTTTT
6742239 ATTATAATTTTATTTT
1 ATTATAATTTTATTTT
6742255 AAGATTTATT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTATAATTTTATTTTT
Found at i:6742344 original size:20 final size:21
Alignment explanation
Indices: 6742299--6742344 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6742289 TTCATTTAGG
* *
6742299 ATTTATTTATTTTTTGAATTT
1 ATTTAGTTATTATTTGAATTT
6742320 ATTTAGTTATTATTT-AATTT
1 ATTTAGTTATTATTTGAATTT
*
6742340 GTTTA
1 ATTTA
6742345 TTTTTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTTAGTTATTATTTGAATTT
Found at i:6743755 original size:7 final size:7
Alignment explanation
Indices: 6743740--6743781 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
6743730 CTTTGATTTG
6743740 AAAAAAT
1 AAAAAAT
*
6743747 AAAATAT
1 AAAAAAT
6743754 AAAAAA-
1 AAAAAAT
6743760 ATAAAAAT
1 A-AAAAAT
6743768 AAAAAAT
1 AAAAAAT
6743775 AAAAAAT
1 AAAAAAT
6743782 TCAACTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:6743767 original size:21 final size:21
Alignment explanation
Indices: 6743741--6743780 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6743731 TTTGATTTGA
*
6743741 AAAAATAAAATATAAAAAAAT
1 AAAAATAAAAAATAAAAAAAT
6743762 AAAAATAAAAAATAAAAAA
1 AAAAATAAAAAATAAAAAA
6743781 TTCAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAAATAAAAAATAAAAAAAT
Found at i:6743951 original size:20 final size:20
Alignment explanation
Indices: 6743913--6743952 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6743903 GTATTATTTC
* *
6743913 ATCAAAATTCATCATAATAA
1 ATCAAAATTAATCAAAATAA
*
6743933 ATCAAAATTAATGAAAATAA
1 ATCAAAATTAATCAAAATAA
6743953 TTGATATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCAAAATTAATCAAAATAA
Found at i:6744423 original size:14 final size:14
Alignment explanation
Indices: 6744404--6744431 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6744394 CCCCACTTTG
6744404 CAGCCATTTTAATT
1 CAGCCATTTTAATT
6744418 CAGCCATTTTAATT
1 CAGCCATTTTAATT
6744432 ACAATAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
CAGCCATTTTAATT
Found at i:6752515 original size:90 final size:90
Alignment explanation
Indices: 6752362--6752540 Score: 286
Period size: 90 Copynumber: 2.0 Consensus size: 90
6752352 AGGAAATTTT
* * * * *
6752362 GGACTACGTTGAAGCTTGCTGCCCCTGTTCCTTGACAATGGGTGTTGTTTTGTCCGTTTCAGTTG
1 GGACTACGTTGAAGCTTGCTGCCCCCGTCCCTTGACAATAGGTGCTGTTTTGTCCGTTTCAGTTC
6752427 CAGTCATATCTGTCCCTCTTCTTTG
66 CAGTCATATCTGTCCCTCTTCTTTG
* *
6752452 GGACTATGTTGAAGCTTGCTGCCCCCGTCCCTTGACAATAGGTGCTGTTTTGTTCGTTTCAGTTC
1 GGACTACGTTGAAGCTTGCTGCCCCCGTCCCTTGACAATAGGTGCTGTTTTGTCCGTTTCAGTTC
*
6752517 CATTCATATCTGTCCCTCTTCTTT
66 CAGTCATATCTGTCCCTCTTCTTT
6752541 TTCACGCCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (90 bp):
GGACTACGTTGAAGCTTGCTGCCCCCGTCCCTTGACAATAGGTGCTGTTTTGTCCGTTTCAGTTC
CAGTCATATCTGTCCCTCTTCTTTG
Found at i:6753439 original size:2 final size:2
Alignment explanation
Indices: 6753432--6753462 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6753422 TTGCGTGTAA
6753432 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6753463 TTTATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6757422 original size:75 final size:76
Alignment explanation
Indices: 6757283--6757432 Score: 216
Period size: 75 Copynumber: 2.0 Consensus size: 76
6757273 TTTCTCTTGA
* * *
6757283 TTCAACCAAAACCAAGAATGAGATGGAAAAGAACAAGCTATTTTGGGAAGCCTGTCTAGCATCTT
1 TTCAACCAAAACCAAGAATGAGATGGAAAAGAACAAGCTATTTTGAGAAGCCTGGCTAGAATCTT
*
6757348 -AGAGTCTGGG
66 GAAAGTCTGGG
*
6757358 TTCAACCAAAACCATGAATGAGATGGAAAAGAAC-AGTCTATTTTGAGAAGCCTGGCT-GAAATC
1 TTCAACCAAAACCAAGAATGAGATGGAAAAGAACAAG-CTATTTTGAGAAGCCTGGCTAG-AATC
6757421 TTGAAAGTCTGG
64 TTGAAAGTCTGG
6757433 CTTTTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
74 3 0.04
75 56 0.84
76 8 0.12
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (76 bp):
TTCAACCAAAACCAAGAATGAGATGGAAAAGAACAAGCTATTTTGAGAAGCCTGGCTAGAATCTT
GAAAGTCTGGG
Found at i:6759274 original size:14 final size:14
Alignment explanation
Indices: 6759237--6759277 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6759227 TACTTAAATA
6759237 ATATATATATATGT
1 ATATATATATATGT
* *
6759251 ATAAACATATATGT
1 ATATATATATATGT
*
6759265 ATATGTATATATG
1 ATATATATATATG
6759278 CACACTTACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:6761293 original size:26 final size:27
Alignment explanation
Indices: 6761257--6761310 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
6761247 AAATCATTCT
6761257 TAACATTATCCATGA-TTTTTTGTCTA
1 TAACATTATCCATGATTTTTTTGTCTA
6761283 TAACATTATCCATGATTTTTTTGTCTA
1 TAACATTATCCATGATTTTTTTGTCTA
6761310 T
1 T
6761311 GTACCTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (27 bp):
TAACATTATCCATGATTTTTTTGTCTA
Found at i:6762088 original size:168 final size:168
Alignment explanation
Indices: 6761882--6762206 Score: 429
Period size: 168 Copynumber: 1.9 Consensus size: 168
6761872 ATTCCATTAA
* * *
6761882 CAATCATAATTACTTTACAAGCATTAATTGTCTTACAAGCATT-ATTTGCAAATTTATGATTAAA
1 CAATCATAATTACCTTACAAACATTAATTGTCTTACAAGCATTGA-TTGCAAATTTATGACTAAA
* * *
6761946 TAACATATGCTCACAAATATTTT-AAATTTATGACTCAAATATTGTGTTTCTATTAATAGAAACG
65 TAACAGATGCCCACAAA-ATTTTCAAATTTATGACTCAAATATTGCGTTTCTATTAATAGAAACG
* *
6762010 TAATAATTATAAGACAGATATTAATTTTCATGTCCATCAG
129 CAATAATTACAAGACAGATATTAATTTTCATGTCCATCAG
* * * * * *
6762050 CAATCATAATTGCCTTACAAATATTAATTGTTTTACAAGCATTGATTGTAAATTTTTGACTACAT
1 CAATCATAATTACCTTACAAACATTAATTGTCTTACAAGCATTGATTGCAAATTTATGACTAAAT
* * * *
6762115 AACAGATGCCCATAAAATTTTCAAATTTATGACTCAAATATTGCGTTTCTATTCATAGACATGCA
66 AACAGATGCCCACAAAATTTTCAAATTTATGACTCAAATATTGCGTTTCTATTAATAGAAACGCA
* * *
6762180 GTAATTGCAAGACATATATTAATTTTC
131 ATAATTACAAGACAGATATTAATTTTC
6762207 CATCCAGTAA
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
167 5 0.04
168 128 0.96
169 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (168 bp):
CAATCATAATTACCTTACAAACATTAATTGTCTTACAAGCATTGATTGCAAATTTATGACTAAAT
AACAGATGCCCACAAAATTTTCAAATTTATGACTCAAATATTGCGTTTCTATTAATAGAAACGCA
ATAATTACAAGACAGATATTAATTTTCATGTCCATCAG
Found at i:6762430 original size:112 final size:112
Alignment explanation
Indices: 6762215--6762454 Score: 250
Period size: 112 Copynumber: 2.1 Consensus size: 112
6762205 TCCATCCAGT
** * * * * *
6762215 AATATAAAAGAAATTTATTACTAGTCAAATACTGCGTTTTTGTTCAATGAAATGCAATAAATAAT
1 AATATAAAA-AAATTTACAAGTAATCAAATACTGCATTTTTATTCAAAGAAATGCAATAAATAAT
** * ** * *
6762280 CACAATTGTTGTGTTTCAAAGCCTTAAAATGCAGTATTCGAG-TAAAA
65 CACAATTGTTACGTTTCAAAGCCTCAAAACACAATATTCAAGTTAAAA
* * * *
6762327 GAATATAGAAAAATTTACAAGTAATCAAATATTGCATTTTTATTCAAAGAAATGTAGTAAATAAT
1 -AATATAAAAAAATTTACAAGTAATCAAATACTGCATTTTTATTCAAAGAAATGCAATAAATAAT
* * *
6762392 CACAA-TGATTACGTTTCAAAGTCTCCAAACACAATATTCAAGTTGAAA
65 CACAATTG-TTACGTTTCAAAGCCTCAAAACACAATATTCAAGTTAAAA
6762440 AATATAAAAAAATTT
1 AATATAAAAAAATTT
6762455 TAATTTCTTT
Statistics
Matches: 103, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
111 2 0.02
112 89 0.86
113 12 0.12
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (112 bp):
AATATAAAAAAATTTACAAGTAATCAAATACTGCATTTTTATTCAAAGAAATGCAATAAATAATC
ACAATTGTTACGTTTCAAAGCCTCAAAACACAATATTCAAGTTAAAA
Found at i:6763515 original size:6 final size:7
Alignment explanation
Indices: 6763493--6763518 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6763483 TTACTAATAA
6763493 TTTAATT
1 TTTAATT
6763500 TTTAATT
1 TTTAATT
6763507 TTTAATT
1 TTTAATT
6763514 TTTAA
1 TTTAA
6763519 AAAATAAGGT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTAATT
Found at i:6765205 original size:20 final size:21
Alignment explanation
Indices: 6765170--6765220 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
6765160 TTTAAAAAAT
*
6765170 AAACCCTAAACGAATATAAAC
1 AAACCCTAAACAAATATAAAC
6765191 AAACCC-AAACAAATATAAAC
1 AAACCCTAAACAAATATAAAC
*
6765211 AAACCTTAAA
1 AAACCCTAAA
6765221 ATAGAATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.61, C:0.24, G:0.02, T:0.14
Consensus pattern (21 bp):
AAACCCTAAACAAATATAAAC
Found at i:6765601 original size:15 final size:15
Alignment explanation
Indices: 6765565--6765601 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6765555 ATATGTTATT
*
6765565 TTATAAAAAAAAAAG
1 TTATAATAAAAAAAG
6765580 TTATAATAAAAAAAG
1 TTATAATAAAAAAAG
6765595 TTATAAT
1 TTATAAT
6765602 TAATCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
TTATAATAAAAAAAG
Found at i:6772827 original size:70 final size:70
Alignment explanation
Indices: 6772751--6772899 Score: 262
Period size: 70 Copynumber: 2.1 Consensus size: 70
6772741 TCTTACTAAA
*
6772751 TATTGGAAAGTTTAATAAATTTTCTTAAAATAAATTTTATAAATAATTTCACAATGAAATCTCAT
1 TATTGGAAAGTTTAATAAATTTTCTTAAAATAAATTTTATAAATAATTTCACAATGAAATCTCAC
6772816 CAAAC
66 CAAAC
* *
6772821 TATTGGAATGTTTAATGAATTTTCTTAAAATAAATTTTATAAATAATTTCACAATGAAATCTCAC
1 TATTGGAAAGTTTAATAAATTTTCTTAAAATAAATTTTATAAATAATTTCACAATGAAATCTCAC
6772886 CAAAC
66 CAAAC
*
6772891 TATTAGAAA
1 TATTGGAAA
6772900 ATCTACATCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (70 bp):
TATTGGAAAGTTTAATAAATTTTCTTAAAATAAATTTTATAAATAATTTCACAATGAAATCTCAC
CAAAC
Found at i:6774070 original size:162 final size:160
Alignment explanation
Indices: 6773802--6774230 Score: 732
Period size: 162 Copynumber: 2.6 Consensus size: 160
6773792 ATAAGGTCTA
6773802 AACCTAAGTTAGAGCCATGTCTTTCCTTGTGTTAGAAAATCCTAAATAGGACATATGATGTGATA
1 AACCTAAGTTAGAGCCATGTC-TTCCTTGTGTTAGAAAATCCTAAATAGGACATATGATGTGATA
* * *
6773867 TTTATTATATTTGTAAATTTATATGTTATTTTTTATATATATTGTTTGCATACTAACCTTTTATG
65 TTTATTCTA-TTGTAAATTTATATGTTATTTTTTGTATATATTGTTTGCATACTAACCCTTTATG
6773932 TTGTTCTTTGTATTTATGTATTATTCTTTCTG
129 TTGTTCTTTGTATTTATGTATTATTCTTTCTG
*
6773964 AACCTAAGTTAGAGCCATGTCTTCCATTATGTTAGAAAATCCTAAATAGGACATATGATGTGATA
1 AACCTAAGTTAGAGCCATGTCTTCC-TTGTGTTAGAAAATCCTAAATAGGACATATGATGTGATA
*
6774029 TTTATTCTACTTGTAAATTTATATGTTATTTTTTGTATATATTGTTTGTATACTAACCCTTTATG
65 TTTATTCTA-TTGTAAATTTATATGTTATTTTTTGTATATATTGTTTGCATACTAACCCTTTATG
6774094 TTGTTCTTTGTATTTATGTATTATTCTTTCTG
129 TTGTTCTTTGTATTTATGTATTATTCTTTCTG
* *
6774126 AACCTAAGTTAGAGCCATGTCTTCCCTTGTGTTAGAAAATCCTAAATAAGACATATAATGTGATA
1 AACCTAAGTTAGAGCCATGTCTT-CCTTGTGTTAGAAAATCCTAAATAGGACATATGATGTGATA
*
6774191 TTTATTCTATTCATAAATTTATATGTTATTTTTTGTATAT
65 TTTATTCTATT-GTAAATTTATATGTTATTTTTTGTATAT
6774231 GTAGACACCC
Statistics
Matches: 254, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
161 6 0.02
162 246 0.97
163 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (160 bp):
AACCTAAGTTAGAGCCATGTCTTCCTTGTGTTAGAAAATCCTAAATAGGACATATGATGTGATAT
TTATTCTATTGTAAATTTATATGTTATTTTTTGTATATATTGTTTGCATACTAACCCTTTATGTT
GTTCTTTGTATTTATGTATTATTCTTTCTG
Found at i:6774351 original size:14 final size:14
Alignment explanation
Indices: 6774332--6774461 Score: 66
Period size: 14 Copynumber: 9.8 Consensus size: 14
6774322 TCCTATGTAT
6774332 TTATTATTTATTTA
1 TTATTATTTATTTA
*
6774346 TTATTA-CTATTTA
1 TTATTATTTATTTA
* *
6774359 TTAATATATATTTA
1 TTATTATTTATTTA
*
6774373 TTTTTATTCT-TTT-
1 TTATTATT-TATTTA
*
6774386 TTATTTTTTA-TT-
1 TTATTATTTATTTA
6774398 TT-TTATTT-TTGTA
1 TTATTATTTATT-TA
* *
6774411 TTTTTATTTATCTAA
1 TTATTATTTAT-TTA
* *
6774426 TTATATATCT-GTTA
1 TTAT-TATTTATTTA
6774440 TTATTA-TTATTT-
1 TTATTATTTATTTA
6774452 TTA-TATTTAT
1 TTATTATTTAT
6774462 CCTATAATAT
Statistics
Matches: 88, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
11 8 0.09
12 14 0.16
13 23 0.26
14 32 0.36
15 6 0.07
16 5 0.06
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:6774525 original size:18 final size:18
Alignment explanation
Indices: 6774471--6774525 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
6774461 TCCTATAATA
* *
6774471 TTTT-TTTGATTTATCTT
1 TTTTATTTGATTTTTATT
* *
6774488 TTTTAATT-ATCTATTATT
1 TTTTATTTGAT-TTTTATT
6774506 TTTTATTTGATTTTTATT
1 TTTTATTTGATTTTTATT
6774524 TT
1 TT
6774526 GGAAGGTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 6 0.21
18 21 0.72
19 2 0.07
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTATTTGATTTTTATT
Found at i:6775374 original size:4 final size:4
Alignment explanation
Indices: 6775367--6775420 Score: 64
Period size: 4 Copynumber: 14.5 Consensus size: 4
6775357 TTTTTTAATT
6775367 TTTA TTTA TTTA TTTTA TTTA -TTA -TTA TTTA TTTA TTTA -TTA -TTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
6775412 -TTA TTTA TT
1 TTTA TTTA TT
6775421 AGATTAGGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 15 0.32
4 28 0.60
5 4 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:6775377 original size:10 final size:10
Alignment explanation
Indices: 6775358--6775524 Score: 75
Period size: 9 Copynumber: 16.8 Consensus size: 10
6775348 CCAGATTTTT
6775358 TTTTTAATTT-
1 TTTTT-ATTTA
6775368 TTATTTATTTA
1 TT-TTTATTTA
6775379 -TTTTATTTA
1 TTTTTATTTA
*
6775388 TTATTATTTA
1 TTTTTATTTA
6775398 --TTTATTTA
1 TTTTTATTTA
*
6775406 TTATTA-TTA
1 TTTTTATTTA
*
6775415 TTTATTAGATTA
1 TTT-TTA-TTTA
** *
6775427 GGTTTAGTTAA
1 TTTTTA-TTTA
*
6775438 TATTT-TTTA
1 TTTTTATTTA
*
6775447 TCTTTATTTTA
1 TTTTTA-TTTA
*
6775458 TTTTTATTTT
1 TTTTTATTTA
*
6775468 TGTTTTACTT-
1 T-TTTTATTTA
*
6775478 TTCTTATTTA
1 TTTTTATTTA
6775488 -TTTTATTTTA
1 TTTTTA-TTTA
*
6775498 TTTTT-TTCA
1 TTTTTATTTA
6775507 TTTTTATTT-
1 TTTTTATTTA
6775516 TGTTTTATT
1 T-TTTTATT
6775525 ATTCAATTTT
Statistics
Matches: 121, Mismatches: 20, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.06
9 39 0.32
10 39 0.32
11 32 0.26
12 4 0.03
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:6775458 original size:11 final size:11
Alignment explanation
Indices: 6775442--6775521 Score: 63
Period size: 11 Copynumber: 6.8 Consensus size: 11
6775432 AGTTAATATT
*
6775442 TTTTATCTTTA
1 TTTTATTTTTA
6775453 TTTTATTTTTA
1 TTTTATTTTTA
6775464 TTTT-TGTTTTA
1 TTTTAT-TTTTA
*
6775475 CTTTTCTTATTTA
1 -TTTTATT-TTTA
*
6775488 TTTTATTTTATTT
1 TTTTA-TTT-TTA
6775501 TTTTCATTTTTA
1 TTTT-ATTTTTA
*
6775513 TTTTGTTTT
1 TTTTATTTT
6775522 ATTATTCAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 23 0.40
12 16 0.28
13 16 0.28
14 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:6775490 original size:4 final size:5
Alignment explanation
Indices: 6775442--6775524 Score: 64
Period size: 5 Copynumber: 16.4 Consensus size: 5
6775432 AGTTAATATT
* * *
6775442 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTT- TCTTA -TTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
* *
6775488 TTTTA TTTTA TTTT- TTTCA TTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TT
6775525 ATTCAATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
4 8 0.13
5 35 0.56
6 19 0.31
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:6775510 original size:7 final size:6
Alignment explanation
Indices: 6775352--6775516 Score: 61
Period size: 6 Copynumber: 25.8 Consensus size: 6
6775342 GCCGCTCCAG
6775352 ATTTTT -TTTTT AATTTTT ATTTATT -TATTTT ATTTATT ATTATTT ATTTATTT
1 ATTTTT ATTTTT -ATTTTT ATTT-TT AT-TTTT ATTT-TT ATT-TTT A-TT-TTT
* * ** ** *
6775405 ATTATT ATTATTT ATTAGATT AGGTTT AGTTAAT ATTTTTT ATCTTT A-TTTT
1 ATTTTT ATT-TTT ATT--TTT ATTTTT A-TTTTT A-TTTTT ATTTTT ATTTTT
* * * *
6775457 ATTTTT ATTTTT -GTTTT ACTTTT CTTATTT A-TTTT ATTTTAT TTTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT ATTTTT ATTTT-T ATTTTT
6775505 CATTTTT ATTTT
1 -ATTTTT ATTTT
6775517 GTTTTATTAT
Statistics
Matches: 119, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
5 17 0.14
6 47 0.39
7 44 0.37
8 11 0.09
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:6775698 original size:120 final size:119
Alignment explanation
Indices: 6775560--6776010 Score: 603
Period size: 120 Copynumber: 3.7 Consensus size: 119
6775550 AAAAAATATA
*
6775560 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAGGT-TTTTTG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAA--TATTTTTG
6775623 AGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAAAAGGTTT
64 AGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT-AAAAAAAAAGGTTT
*
6775680 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTCAAAAATATTTTTGA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAA-TTTCAAAAATATTTTTGA
* *
6775745 GGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAAA-TTAGAAAAAAAAGGGTTT
65 GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTA-AAAAAAAA-GGTTT
* * *
6775801 TTTTT-AGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTCTAAAAATATTTTTGA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-AAAAATATTTTTGA
* * *
6775865 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-TAAAAAAAGG-TT
65 GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAAAAAAAAGGTTT
* *
6775918 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA--ATAAATTTAAAAAAAAAATCAAT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCA-AAATTT----CAAAAAT--AT
*
6775981 TTTTGGGAAAAAGTTGAAAGTATCAATTTT
59 TTTTGAGAAAAAGTTGAAAGTATCAATTTT
6776011 CCCTGCATAA
Statistics
Matches: 299, Mismatches: 17, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
116 1 0.00
117 12 0.04
118 34 0.11
119 12 0.04
120 142 0.47
121 59 0.20
122 39 0.13
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (119 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAATATTTTTGAG
AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAAAAAAAAGGTTT
Found at i:6775864 original size:178 final size:178
Alignment explanation
Indices: 6775550--6776011 Score: 555
Period size: 178 Copynumber: 2.6 Consensus size: 178
6775540 AATAAAAATA
* **
6775550 AAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT--TCAAAA
1 AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTAAAAAAAA
* *
6775613 AGG-TTTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TCTTAAAAATAAAATTTCAAAAAAAAAG
65 AGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTCTTAAAAATAAAATTTC--AAAAAAA-
*
6775676 GTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTT
127 G-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTT
* * *
6775730 -CAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAAATTAGAAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTA-AAAAAAA
* * *
6775794 AGGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATCAAAGTTTC-TAAAAA-
65 A-GGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTCTTAAAAAT-AAAATTTCAAAAAAAG
*
6775856 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
128 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
* * *
6775907 AAAAAAAGGTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTAAAAAA
1 AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAATTAAAAAA
* ** *
6775972 AAA-ATCAATTTTTGGGAAAAAGTTGAAAGTATCAATTTTC
63 AAAGGT-TTTTTTTAGG-AAAAGTTGAAAGTATCAATTTTC
6776012 CCTGCATAAG
Statistics
Matches: 246, Mismatches: 23, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
177 8 0.03
178 94 0.38
179 11 0.04
180 65 0.26
181 21 0.09
182 2 0.01
183 37 0.15
184 8 0.03
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.36
Consensus pattern (178 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTAAAAAAAAA
GGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTCTTAAAAATAAAATTTCAAAAAAAGTAT
TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
Found at i:6780132 original size:23 final size:22
Alignment explanation
Indices: 6780106--6780167 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 22
6780096 TAAAGAGAAG
6780106 CTTTTGAAATTTTGGATGTAAAT
1 CTTTTGAAATTTTGGATGT-AAT
** ** *
6780129 CTTTAAAAATTTTTAAGTGTGAT
1 CTTTTGAAATTTTGGA-TGTAAT
6780152 C-TTTGAAATTTTGGAT
1 CTTTTGAAATTTTGGAT
6780168 ATGAAATTCC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
21 1 0.03
22 10 0.34
23 15 0.52
24 3 0.10
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (22 bp):
CTTTTGAAATTTTGGATGTAAT
Found at i:6780512 original size:17 final size:17
Alignment explanation
Indices: 6780490--6780547 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
6780480 ATGAATCTTT
*
6780490 AAATTCTTGCAAACTTG
1 AAATTCTTACAAACTTG
*
6780507 AAATTCTTACAAACTTA
1 AAATTCTTACAAACTTG
* * *
6780524 AAATTTTTACGAGCTTG
1 AAATTCTTACAAACTTG
6780541 AAATTCT
1 AAATTCT
6780548 GAAAATCTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (17 bp):
AAATTCTTACAAACTTG
Found at i:6780727 original size:16 final size:16
Alignment explanation
Indices: 6780706--6780736 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6780696 ACGAATCTGA
*
6780706 AAATCTTGTGAATATG
1 AAATCTTATGAATATG
6780722 AAATCTTATGAATAT
1 AAATCTTATGAATAT
6780737 TTCATTCTTG
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:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
AAATCTTATGAATATG
Found at i:6781364 original size:6 final size:6
Alignment explanation
Indices: 6781343--6781444 Score: 64
Period size: 6 Copynumber: 16.7 Consensus size: 6
6781333 AGCCCAAAAG
* * * * * *
6781343 TTTTAA TTGTAA -TTTAA TTTTAA TATTAA TCTTGA TTTTGA TTTTAC
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
* * * *
6781390 TATTAA TTTTAA -TTTAGA TTTATATTA TTTTAA ATTTAG TTTTGA TTTTAA
1 TTTTAA TTTTAA TTTTA-A TTT-TA--A TTTTAA TTTTAA TTTTAA TTTTAA
6781441 TTTT
1 TTTT
6781445 GTTAAAAAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
5 8 0.11
6 55 0.75
7 2 0.03
8 4 0.05
9 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (6 bp):
TTTTAA
Done.