Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 68 of 121
Found at i:11611724 original size:11 final size:11
Alignment explanation
Indices: 11611686--11611725 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
11611676 TTTTTTTGCT
*
11611686 TTTTATCTTTTT
1 TTTT-TCTTTTC
11611698 TTTTTCTTTTC
1 TTTTTCTTTTC
11611709 TTTTTCTTTCTC
1 TTTTTCTTT-TC
11611721 TTTTT
1 TTTTT
11611726 TTTAAGCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:11623167 original size:15 final size:15
Alignment explanation
Indices: 11623149--11623188 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11623139 TTTTTTGAAA
*
11623149 TTTGGATTTTTAGGT
1 TTTGGATTTTAAGGT
*
11623164 TTTGGATATTAAGGT
1 TTTGGATTTTAAGGT
*
11623179 TTAGGATTTT
1 TTTGGATTTT
11623189 GGATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (15 bp):
TTTGGATTTTAAGGT
Found at i:11623930 original size:28 final size:28
Alignment explanation
Indices: 11623898--11623957 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
11623888 CAGATCCTCT
* *
11623898 TATGCTCAAAACGGCATCGTTTTGCTCC
1 TATGCTCAAAACGGCATCATTTTACTCC
* **
11623926 TATGCTTAAAACGGTGTCATTTTACTCC
1 TATGCTCAAAACGGCATCATTTTACTCC
11623954 TATG
1 TATG
11623958 GTTTTTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (28 bp):
TATGCTCAAAACGGCATCATTTTACTCC
Found at i:11624621 original size:24 final size:24
Alignment explanation
Indices: 11624589--11624641 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11624579 GGTTGCAAGG
*
11624589 GGTGATTGTAGGAATAG-CTGTAGA
1 GGTGGTTGTAGGAA-AGACTGTAGA
*
11624613 GGTGGTTGTAGGAACGACTGTAGA
1 GGTGGTTGTAGGAAAGACTGTAGA
11624637 GGTGG
1 GGTGG
11624642 CTGGTCTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.25, C:0.06, G:0.43, T:0.26
Consensus pattern (24 bp):
GGTGGTTGTAGGAAAGACTGTAGA
Found at i:11624829 original size:18 final size:17
Alignment explanation
Indices: 11624801--11624840 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
11624791 ATTTTTTTAA
*
11624801 TTAATATTTTTTAATTT
1 TTAATATTTTTTAATAT
11624818 TTAATAATTTTTTAATAT
1 TTAAT-ATTTTTTAATAT
11624836 TTAAT
1 TTAAT
11624841 TTGGTTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAATATTTTTTAATAT
Found at i:11624884 original size:14 final size:14
Alignment explanation
Indices: 11624867--11624907 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
11624857 TTTAATTGAT
*
11624867 AAATATTAAAATAA
1 AAATAATAAAATAA
11624881 AAATAATAAAATAA
1 AAATAATAAAATAA
*
11624895 AATAAAATAAAAT
1 AA-ATAATAAAAT
11624908 GTAAATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAAAATAA
Found at i:11624893 original size:5 final size:5
Alignment explanation
Indices: 11624873--11624907 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
11624863 TGATAAATAT
*
11624873 TAAAA TAAAA -ATAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
11624908 GTAAATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 24 0.89
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:11625001 original size:28 final size:28
Alignment explanation
Indices: 11624970--11625028 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11624960 TCAAATTGGT
*
11624970 CTTGAAACCCAGTTGAATCAAAATCAAG
1 CTTGAAACCAAGTTGAATCAAAATCAAG
* * * *
11624998 CTTGGAGCCAAGTTGAGTCAAAATCAGG
1 CTTGAAACCAAGTTGAATCAAAATCAAG
11625026 CTT
1 CTT
11625029 AGAGTCCAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (28 bp):
CTTGAAACCAAGTTGAATCAAAATCAAG
Found at i:11625663 original size:15 final size:15
Alignment explanation
Indices: 11625634--11625668 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
11625624 AAAAAGAAAT
11625634 AAATAATAAATAAAA
1 AAATAATAAATAAAA
11625649 AAAT-ATAAATAAAA
1 AAATAATAAATAAAA
11625663 AAATAA
1 AAATAA
11625669 CAAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAATAAAA
Found at i:11625666 original size:22 final size:21
Alignment explanation
Indices: 11625622--11625674 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
11625612 CCTTTTTGGT
* *
11625622 TAAAAAAGAAATAAATAATAAA
1 TAAAAAA-ATATAAATAAAAAA
11625644 TAAAAAAATATAAATAAAAAAA
1 TAAAAAAATATAAAT-AAAAAA
*
11625666 TAACAAAAT
1 TAAAAAAAT
11625675 TTTTTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAAAAAATATAAATAAAAAA
Found at i:11626597 original size:18 final size:19
Alignment explanation
Indices: 11626556--11626599 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11626546 TAAAATATTA
11626556 TAAACTCAAATAACAACTC
1 TAAACTCAAATAACAACTC
*
11626575 CAAACTCAAATAA-AACTC
1 TAAACTCAAATAACAACTC
11626593 TAAACTC
1 TAAACTC
11626600 TAAACATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAACTCAAATAACAACTC
Found at i:11627076 original size:22 final size:20
Alignment explanation
Indices: 11627018--11627071 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
11627008 CCATTTTTTT
*
11627018 ATCTTCT-TCATCTTCAATTC
1 ATCTTCTCTC-TCTACAATTC
11627038 ATCTTCTCTCTCTACAATTC
1 ATCTTCTCTCTCTACAATTC
11627058 ATCTTCTCTCTCTA
1 ATCTTCTCTCTCTA
11627072 AACAACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (20 bp):
ATCTTCTCTCTCTACAATTC
Found at i:11627585 original size:146 final size:146
Alignment explanation
Indices: 11627328--11627593 Score: 372
Period size: 146 Copynumber: 1.8 Consensus size: 146
11627318 GGCAGCCAGT
** * * * *
11627328 AGAAACCCAAGGACAACCATTAACAAACATAGAAACTTAAAAACAAACTCAGCACCTACTAGAAA
1 AGAAACCCAAGGACAACCAAAAACAAACACAGAAACTTAAAAACAAACCCAACACCCACTAGAAA
* *
11627393 AACTCATAGAATCCAAATCTACCCTAAATTATTCATACACAGTAAACCCACAAAATAATCACAAA
66 AACTCACAGAATCCAAATCTACCCTAAATTATTCACACACAGTAAACCCACAAAATAATCACAAA
11627458 TCTACTAGTAGCCACC
131 TCTACTAGTAGCCACC
* * * *
11627474 AGAAACCCAGGGACAACCAAAAACAAACCCAGAAA-TCTAGAAACACACCCAACACCCACTAGAA
1 AGAAACCCAAGGACAACCAAAAACAAACACAGAAACT-TAAAAACAAACCCAACACCCACTAGAA
* * * *
11627538 TAACTCACAGAATCCAAATTTACCCTAAATTATTCACACACTGTAAACCTACAAAA
65 AAACTCACAGAATCCAAATCTACCCTAAATTATTCACACACAGTAAACCCACAAAA
11627594 CAACCATAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
145 1 0.01
146 102 0.99
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.16
Consensus pattern (146 bp):
AGAAACCCAAGGACAACCAAAAACAAACACAGAAACTTAAAAACAAACCCAACACCCACTAGAAA
AACTCACAGAATCCAAATCTACCCTAAATTATTCACACACAGTAAACCCACAAAATAATCACAAA
TCTACTAGTAGCCACC
Found at i:11631868 original size:4 final size:4
Alignment explanation
Indices: 11631859--11631893 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
11631849 AAATAAAAAA
*
11631859 TTAT TTAT TTAT TTATT TTAT TTAT TTAT TGAT TT
1 TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TT
11631894 CTTCACTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:11631880 original size:13 final size:13
Alignment explanation
Indices: 11631862--11631888 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11631852 TAAAAAATTA
11631862 TTTATTTATTTAT
1 TTTATTTATTTAT
11631875 TTTATTTATTTAT
1 TTTATTTATTTAT
11631888 T
1 T
11631889 GATTTCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:11631881 original size:17 final size:17
Alignment explanation
Indices: 11631859--11631893 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11631849 AAATAAAAAA
*
11631859 TTATTTATTTATTTATT
1 TTATTTATTTATTGATT
11631876 TTATTTATTTATTGATT
1 TTATTTATTTATTGATT
11631893 T
1 T
11631894 CTTCACTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTATTTATTTATTGATT
Found at i:11635554 original size:17 final size:17
Alignment explanation
Indices: 11635534--11635578 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
11635524 TCGATATCTT
11635534 AACTAAAAGAAA-TAAA
1 AACTAAAAGAAACTAAA
*
11635550 GAACT-AAAGAAACTTAA
1 -AACTAAAAGAAACTAAA
11635567 AACTAAAAGAAA
1 AACTAAAAGAAA
11635579 GAAGATAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (17 bp):
AACTAAAAGAAACTAAA
Found at i:11646540 original size:31 final size:30
Alignment explanation
Indices: 11646463--11646562 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 30
11646453 GATATGAAAT
* *
11646463 TTAAATGTAT-AAAAGATAAATTGCAACAAAA
1 TTAAATGCATGAAAAG-TAAATTGC-ATAAAA
* *
11646494 TTAAAATGCACGAAAAGTAAATTGCATAAAT
1 TT-AAATGCATGAAAAGTAAATTGCATAAAA
* *
11646525 TTAAAGTGCATGAAAAATAAATTACATTAAAA
1 TTAAA-TGCATGAAAAGTAAATTGCA-TAAAA
11646557 TTAAAT
1 TTAAAT
11646563 AAAAGCATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
30 3 0.05
31 26 0.46
32 23 0.40
33 5 0.09
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (30 bp):
TTAAATGCATGAAAAGTAAATTGCATAAAA
Found at i:11650695 original size:29 final size:29
Alignment explanation
Indices: 11650652--11650709 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11650642 TCTACGAGAG
11650652 TACCCTTCCACAAATCTCTTATAATAATT
1 TACCCTTCCACAAATCTCTTATAATAATT
*
11650681 TACCCTTCCATAAATCTCTTATAATAATT
1 TACCCTTCCACAAATCTCTTATAATAATT
11650710 GGTCAATCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (29 bp):
TACCCTTCCACAAATCTCTTATAATAATT
Found at i:11658970 original size:16 final size:18
Alignment explanation
Indices: 11658949--11658988 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
11658939 CAAGAATCTT
11658949 TTTCTCTTTC-TTTTC-C
1 TTTCTCTTTCTTTTTCTC
11658965 TTTCTC-TTCTTTTTCTC
1 TTTCTCTTTCTTTTTCTC
11658982 TTTCTCT
1 TTTCTCT
11658989 GTGTTTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 3 0.14
16 11 0.52
17 7 0.33
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTCTTTCTTTTTCTC
Found at i:11658987 original size:6 final size:6
Alignment explanation
Indices: 11658949--11658988 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
11658939 CAAGAATCTT
*
11658949 TTTCTC TTTCT- TTTC-C TTTCTC -TTCTT TTTCTC TTTCTC T
1 TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC T
11658989 GTGTTTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 12 0.41
6 17 0.59
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCTC
Found at i:11673589 original size:16 final size:16
Alignment explanation
Indices: 11673555--11673589 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11673545 ATACAAGCTC
**
11673555 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
11673571 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11673587 ATA
1 ATA
11673590 TGTTATGATA
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:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:11682174 original size:30 final size:30
Alignment explanation
Indices: 11682140--11682196 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11682130 ATTTGATTGA
*
11682140 ATTTTACCACA-TTTCACCAAGTTTGACTTT
1 ATTTTACCA-AGTTTCACCAAGCTTGACTTT
*
11682170 ATTTTACCAAGTTTGACCAAGCTTGAC
1 ATTTTACCAAGTTTCACCAAGCTTGAC
11682197 CTTGAGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (30 bp):
ATTTTACCAAGTTTCACCAAGCTTGACTTT
Found at i:11682919 original size:42 final size:42
Alignment explanation
Indices: 11682637--11683608 Score: 421
Period size: 42 Copynumber: 23.5 Consensus size: 42
11682627 TAGTTAGAAA
* *
11682637 ACTTTGGATTCACAATAGAGTAAATGGTTCATAGTTTGGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
** * * * * * * **
11682679 ACACTGGATTCACAGTAAAGTAAACAATTTACA-ATT--AAA
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * * * * **
11682718 ATTTTAGATTCATAGTAGAGTAAACAATACACCAAATTGGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCA-TAGTTTGGAGG
* * * *
11682761 A-TTATGGATTCATAATAAAGTAAACGATTTATAG-TTGTAGG
1 ACTT-TGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * ** *
11682802 ACTTTGGTTTCATAATAGAGTAAACAATTCACCGTTT-GAAG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * *
11682843 ACTTTGGATTTAC-ATAAAGTAAATGATTCCTAGTTTGGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* *
11682884 ACTTTGGATTCACAATAGAGTAAACGATTTATAGTTGGGA-G
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * *
11682925 ACTCTGGATGCACAGTAGAGTAAATGATTCATAGTTTTGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
** *
11682967 ACTTTGGATTCACAATAGAGTGGACAATTCATAGTTAT-GAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTT-TGGAGG
* * * * * *
11683009 ACTTTAGATTCACAACAAAGTAAGCGATTCACA-ATTGTGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTG-GAGG
* * ** *
11683051 ACTGTAGATTCACAGCAGAGTAAATGATTCATAGTTTGGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * *
11683093 ACTTTGGATTCACAACAAAGTAAATGATTCATA-ATTGGAAG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
** * * * **
11683134 ACTCTAAGA-TCACAACAAAGTAAATGATTCATAGTTT-GAAA
1 ACT-TTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * * * * *
11683175 AGTCTAGATTCACAATAGAGTAAACAATTCACA-ATTAGA-A
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
** * * * *
11683215 ACTCTAT-G-TTCATGATAGAGTAAACGATTCACA-ATTAGAAG
1 ACT-T-TGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
** ** * * * *
11683256 ACTCTACG-TTTGCAATAGAGTAAATGATTCACA-ATTGGAAG
1 ACT-TTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * * * * * * *
11683297 ACTCTAGG-TGCATAACAGAGTAAGCAATTCACAATTGGGAAG
1 ACT-TTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * *
11683339 ACTTTGGATTCATAACAAAGTAAACGATTCACAGTTTGGAAG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * ** * * *
11683381 ACTTTAGA-TCTACAACAAAGTAAATAATTCAGAG-TTAGAAG
1 ACTTTGGATTC-ACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * * * * * *
11683422 ACTCT-AAGTTTACAACAAAGTAAATGATTTACAGTTT-GAAG
1 ACTTTGGA-TTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* * * * * *
11683463 ACTTTGGATTCACAGTAAAGTAAATGATTCACAATTTGTAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* ** * *
11683505 ACTCTAGG-TTCACGTTAGAGTAAATGATTCATAGTTTGGAAG
1 ACT-TTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* *
11683547 ACTTTGGATTCACAATAAAGTAAATGATTCATAGTTTGGAGG
1 ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
* *
11683589 ACTCTGAATTCACAATAGAG
1 ACTTTGGATTCACAATAGAG
11683609 ATTAGTTGGC
Statistics
Matches: 726, Mismatches: 172, Indels: 64
0.75 0.18 0.07
Matches are distributed among these distances:
39 24 0.03
40 57 0.08
41 285 0.39
42 330 0.45
43 30 0.04
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (42 bp):
ACTTTGGATTCACAATAGAGTAAACGATTCATAGTTTGGAGG
Found at i:11683147 original size:41 final size:41
Alignment explanation
Indices: 11683018--11683577 Score: 265
Period size: 41 Copynumber: 13.5 Consensus size: 41
11683008 GACTTTAGAT
** * *
11683018 TCACAACAAAGTAAGCGATTCACAATTGTGAGGACTGT-AGA
1 TCACAACAAAGTAAATGATTCACAATTG-GAAGACTCTAAGA
* * * * * **
11683059 TTCACAGCAGAGTAAATGATTCATAGTTTGGAGGACT-TTGGA
1 -TCACAACAAAGTAAATGATTCACA-ATTGGAAGACTCTAAGA
*
11683101 TTCACAACAAAGTAAATGATTCATAATTGGAAGACTCTAAGA
1 -TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
* * * * *
11683143 TCACAACAAAGTAAATGATTCATAGTTTGAAAAGTCT-AGA
1 TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
* * ** * * *
11683183 TTCACAATAGAGTAAACAATTCACAATTAGAA-ACTCTATGT
1 -TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
** * * * * * *
11683224 TCATGATAGAGTAAACGATTCACAATTAGAAGACTCTACGT
1 TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
** * * *
11683265 TTGCAATAGAGTAAATGATTCACAATTGGAAGACTCT-AGG
1 TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
* * *** **
11683305 TGCATAACAGAGTAAGCAATTCACAATTGGGAAGACT-TTGGA
1 T-CACAACAAAGTAAATGATTCACAATT-GGAAGACTCTAAGA
* * * *
11683347 TTCATAACAAAGTAAACGATTCACAGTTTGGAAGACT-TTAGA
1 -TCACAACAAAGTAAATGATTCACA-ATTGGAAGACTCTAAGA
* * * * *
11683389 TCTACAACAAAGTAAATAATTCAGAGTTAGAAGACTCTAAGT
1 TC-ACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
* * * * **
11683431 TTACAACAAAGTAAATGATTTACAGTTTGAAGACT-TTGGA
1 TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
** * * * *
11683471 TTCACAGTAAAGTAAATGATTCACAATTTGTAGGACTCTAGGT
1 -TCACAACAAAGTAAATGATTCACAA-TTGGAAGACTCTAAGA
*** * * * **
11683514 TCACGTTAGAGTAAATGATTCATAGTTTGGAAGACT-TTGGA
1 TCACAACAAAGTAAATGATTCACA-ATTGGAAGACTCTAAGA
*
11683555 TTCACAATAAAGTAAATGATTCA
1 -TCACAACAAAGTAAATGATTCA
11683578 TAGTTTGGAG
Statistics
Matches: 409, Mismatches: 91, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
40 39 0.10
41 190 0.46
42 171 0.42
43 9 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACAACAAAGTAAATGATTCACAATTGGAAGACTCTAAGA
Found at i:11683278 original size:122 final size:122
Alignment explanation
Indices: 11683111--11683411 Score: 284
Period size: 122 Copynumber: 2.4 Consensus size: 122
11683101 TTCACAACAA
* * * * * *
11683111 AGTAAATGATTCATAATTGGAAGACTCTAAGATCACAACAAAGTAAATGATTCATAGTTTGAAAA
1 AGTAAACGATTCACAATTAGAAGACTCTAAGATCACAACAAAGTAAATGATTCACAATTGGAAAA
* * *
11683176 GTCTAGATTCACAATAGAGTAAACAATTCACAATTAGAAACTCTATGTTCATGATAG
66 CTCTAGATGCACAACAGAGTAAACAATTCACAATTAGAAACTCTATGTTCATGATAG
* * ** * * *
11683233 AGTAAACGATTCACAATTAGAAGACTCTACGTTTGCAATAGAGTAAATGATTCACAATTGGAAGA
1 AGTAAACGATTCACAATTAGAAGACTCTAAGATCACAACAAAGTAAATGATTCACAATTGGAAAA
* * * * * * *
11683298 CTCTAGGTGCATAACAGAGTAAGCAATTCACAATTGGGAAGACT-T-TGGATTCATAACAA
66 CTCTAGATGCACAACAGAGTAAACAATTCACAATT-AGAA-ACTCTAT-G-TTCATGATAG
* * * *
11683357 AGTAAACGATTCACAGTTTGGAAGACT-TTAGATCTACAACAAAGTAAATAATTCA
1 AGTAAACGATTCACA-ATTAGAAGACTCTAAGATC-ACAACAAAGTAAATGATTCA
11683412 GAGTTAGAAG
Statistics
Matches: 140, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
122 82 0.59
123 5 0.04
124 28 0.20
125 25 0.18
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (122 bp):
AGTAAACGATTCACAATTAGAAGACTCTAAGATCACAACAAAGTAAATGATTCACAATTGGAAAA
CTCTAGATGCACAACAGAGTAAACAATTCACAATTAGAAACTCTATGTTCATGATAG
Found at i:11683601 original size:84 final size:83
Alignment explanation
Indices: 11682801--11683603 Score: 402
Period size: 83 Copynumber: 9.7 Consensus size: 83
11682791 ATAGTTGTAG
* * ** ** * * * *
11682801 GACTTTGGTTTCATAATAGAGTAAACAATTCACCGTTT-GAAGACTTTGGATTTAC-ATAAAGTA
1 GACTTTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCT-AATTCACAACAAAGTA
*
11682864 AATGATTC-CTAGTTTGGAG
65 AATGATTCAC-AGTTTGGAA
* * * * * ** *
11682883 GACTTTGGATTCACAATAGAGTAAACGATTTATAG-TTGGGAGACTCTGGATGCACAGTAGAGTA
1 GACTTTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCT-AATTCACAACAAAGTA
* * *
11682947 AATGATTCATAGTTTTGAG
65 AATGATTCACAGTTTGGAA
** ** * *
11682966 GACTTTGGATTCACAATAGAGTGGACAATTCATAGTTAT-GAGGACTTTAGATTCACAACAAAGT
1 GACTTTGGATTCACAATAGAGTAAATGATTCATAGTT-TGGAAGACTCTA-ATTCACAACAAAGT
** * *
11683030 AAGCGATTCACA-ATTGTGAG
64 AAATGATTCACAGTTTG-GAA
* * ** * * *
11683050 GACTGTAGATTCACAGCAGAGTAAATGATTCATAGTTTGGAGGACTTTGGATTCACAACAAAGTA
1 GACTTTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCT-AATTCACAACAAAGTA
* *
11683115 AATGATTCATA-ATTGGAA
65 AATGATTCACAGTTTGGAA
** * * * * * *
11683133 GACTCTAAGA-TCACAACAAAGTAAATGATTCATAGTTT-GAAAAGTCTAGATTCACAATAGAGT
1 GACT-TTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCTA-ATTCACAACAAAGT
** * *
11683196 AAACAATTCACA-ATTAGAA
64 AAATGATTCACAGTTTGGAA
** * * * * * ** * *
11683215 -ACTCTAT-G-TTCATGATAGAGTAAACGATTCACA-ATTAGAAGACTCTACGTTTGCAATAGAG
1 GACT-T-TGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCTA-ATTCACAACAAAG
*
11683276 TAAATGATTCACA-ATTGGAA
63 TAAATGATTCACAGTTTGGAA
* * * * *** * * * * * *
11683296 GACTCTAGG-TGCATAACAGAGTAAGCAATTCACAATTGGGAAGACTTTGGATTCATAACAAAGT
1 GACT-TTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCT-AATTCACAACAAAGT
*
11683360 AAACGATTCACAGTTTGGAA
64 AAATGATTCACAGTTTGGAA
* * * * * * *
11683380 GACTTTAGA-TCTACAACAAAGTAAATAATTCAGAG-TTAGAAGACTCTAAGTTTACAACAAAGT
1 GACTTTGGATTC-ACAATAGAGTAAATGATTCATAGTTTGGAAGACTCTAA-TTCACAACAAAGT
*
11683443 AAATGATTTACAGTTT-GAA
64 AAATGATTCACAGTTTGGAA
* * * * * * * *** *
11683462 GACTTTGGATTCACAGTAAAGTAAATGATTCACAATTTGTAGGACTCTAGGTTCACGTTAGAGTA
1 GACTTTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCTA-ATTCACAACAAAGTA
*
11683527 AATGATTCATAGTTTGGAA
65 AATGATTCACAGTTTGGAA
* *
11683546 GACTTTGGATTCACAATAAAGTAAATGATTCATAGTTTGGAGGACTCTGAATTCACAA
1 GACTTTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCT-AATTCACAA
11683604 TAGAGATTAG
Statistics
Matches: 558, Mismatches: 136, Indels: 52
0.75 0.18 0.07
Matches are distributed among these distances:
80 2 0.00
81 61 0.11
82 130 0.23
83 187 0.34
84 176 0.32
85 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (83 bp):
GACTTTGGATTCACAATAGAGTAAATGATTCATAGTTTGGAAGACTCTAATTCACAACAAAGTAA
ATGATTCACAGTTTGGAA
Found at i:11683907 original size:17 final size:16
Alignment explanation
Indices: 11683885--11683925 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
11683875 AAGAGGGGTT
11683885 AAAGATTCATAAATTTC
1 AAAGATTCA-AAATTTC
*
11683902 AAAGATTTGAAAATTTC
1 AAAGA-TTCAAAATTTC
11683919 AAAGATT
1 AAAGATT
11683926 TACAAGAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 17 0.77
18 3 0.14
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (16 bp):
AAAGATTCAAAATTTC
Found at i:11683916 original size:54 final size:54
Alignment explanation
Indices: 11683858--11683962 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 54
11683848 AAGGTCTTGT
11683858 AAATTTCAAAG-TTTCACAAGAGGGGTTAAAGA-TTCATAAATTTCAAAGATTTGA
1 AAATTTCAAAGATTT-ACAAGAGGGGTTAAAGATTTCA-AAATTTCAAAGATTTGA
*
11683912 AAATTTCAAAGATTTACAAGAGGGGTTAAAGATTTGAAAATTTCAAAGATT
1 AAATTTCAAAGATTTACAAGAGGGGTTAAAGATTTCAAAATTTCAAAGATT
11683963 CACAAGAGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
54 42 0.88
55 6 0.12
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (54 bp):
AAATTTCAAAGATTTACAAGAGGGGTTAAAGATTTCAAAATTTCAAAGATTTGA
Found at i:11683926 original size:17 final size:17
Alignment explanation
Indices: 11683895--11683962 Score: 68
Period size: 17 Copynumber: 3.8 Consensus size: 17
11683885 AAAGATTCAT
11683895 AAATTTCAAAGATTTGA
1 AAATTTCAAAGATTTGA
11683912 AAATTTCAAAGATTT-A
1 AAATTTCAAAGATTTGA
*
11683928 CAAGAGGGGTT-AAAGATTTGA
1 -AA-A---TTTCAAAGATTTGA
11683949 AAATTTCAAAGATT
1 AAATTTCAAAGATT
11683963 CACAAGAGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
16 3 0.07
17 24 0.57
18 1 0.02
19 1 0.02
20 10 0.24
21 3 0.07
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (17 bp):
AAATTTCAAAGATTTGA
Found at i:11683945 original size:37 final size:37
Alignment explanation
Indices: 11683902--11683978 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
11683892 CATAAATTTC
*
11683902 AAAGATTTGAAAATTTCAAAGATTTACAAGAGGGGTT
1 AAAGATTTGAAAATTTCAAAGATTCACAAGAGGGGTT
11683939 AAAGATTTGAAAATTTCAAAGATTCACAAGAGGGGTT
1 AAAGATTTGAAAATTTCAAAGATTCACAAGAGGGGTT
11683976 AAA
1 AAA
11683979 ATTCACAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (37 bp):
AAAGATTTGAAAATTTCAAAGATTCACAAGAGGGGTT
Found at i:11684002 original size:36 final size:37
Alignment explanation
Indices: 11683902--11684006 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 37
11683892 CATAAATTTC
* * *
11683902 AAAGATTTGAAAATTTCAAAGATTTACAAGAGGGGTT
1 AAAGATTTCAAAATTTCAAAGAATCACAAGAGGGGTT
* *
11683939 AAAGATTTGAAAATTTCAAAGATTCACAAGAGGGGTT
1 AAAGATTTCAAAATTTCAAAGAATCACAAGAGGGGTT
*
11683976 AAA-A-TTCACAAA-TTCTAGAGAATCACAAGAG
1 AAAGATTTCA-AAATTTC-AAAGAATCACAAGAG
11684007 TCAAAGATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
35 6 0.10
36 17 0.27
37 39 0.63
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.26
Consensus pattern (37 bp):
AAAGATTTCAAAATTTCAAAGAATCACAAGAGGGGTT
Found at i:11684545 original size:7 final size:7
Alignment explanation
Indices: 11684533--11684580 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
11684523 TATTTTCAAG
11684533 CATGCAA
1 CATGCAA
11684540 CATGCAA
1 CATGCAA
*
11684547 CATACAA
1 CATGCAA
11684554 CATGCAA
1 CATGCAA
*
11684561 CATACAA
1 CATGCAA
*
11684568 CACGCAA
1 CATGCAA
11684575 CATGCA
1 CATGCA
11684581 TTTTGGACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.12
Consensus pattern (7 bp):
CATGCAA
Found at i:11686348 original size:31 final size:30
Alignment explanation
Indices: 11686302--11686360 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
11686292 TTTCTTTCTC
11686302 TTTGTCTTTCTTTC-TTTCTTTTCATTTCAT
1 TTTGTCTTTCTTTCTTTTCTTTT-ATTTCAT
*
11686332 TTTGTCATTTTTTTCTTTTCTTTTATTTC
1 TTTGTC-TTTCTTTCTTTTCTTTTATTTC
11686361 TTTGCATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 12 0.46
32 8 0.31
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (30 bp):
TTTGTCTTTCTTTCTTTTCTTTTATTTCAT
Found at i:11688659 original size:7 final size:7
Alignment explanation
Indices: 11688634--11688834 Score: 101
Period size: 7 Copynumber: 30.3 Consensus size: 7
11688624 GGTTCAAGTT
11688634 TTTAGGG
1 TTTAGGG
*
11688641 TTTGGCGG
1 TTTAG-GG
11688649 TTTAGGG
1 TTTAGGG
11688656 TTTA-GG
1 TTTAGGG
11688662 -TTAGGG
1 TTTAGGG
*
11688668 TTAGGATGGG
1 TT--TA-GGG
11688678 TTTAGGG
1 TTTAGGG
**
11688685 TTTTTGG
1 TTTAGGG
*
11688692 TTTAGGA
1 TTTAGGG
*
11688699 TTTAGGT
1 TTTAGGG
11688706 TTTAGGG
1 TTTAGGG
11688713 TTTA--G
1 TTTAGGG
11688718 TTTAGGG
1 TTTAGGG
11688725 TTTA--G
1 TTTAGGG
*
11688730 TTTAGGA
1 TTTAGGG
*
11688737 TTT--GA
1 TTTAGGG
11688742 TTTAGGG
1 TTTAGGG
11688749 TTTAGGG
1 TTTAGGG
11688756 TTTA-GG
1 TTTAGGG
* *
11688762 TATA-GC
1 TTTAGGG
11688768 TTTA-GG
1 TTTAGGG
11688774 TTTA-GG
1 TTTAGGG
* * *
11688780 ATTAAGA
1 TTTAGGG
*
11688787 TTTA-GA
1 TTTAGGG
11688793 TTTA-GG
1 TTTAGGG
*
11688799 TTTTGGG
1 TTTAGGG
11688806 ATTTAGGG
1 -TTTAGGG
11688814 TTT--GG
1 TTTAGGG
11688819 TTTAGGG
1 TTTAGGG
*
11688826 TTTGGGG
1 TTTAGGG
11688833 TT
1 TT
11688835 CAAAGTTTAT
Statistics
Matches: 153, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
5 23 0.15
6 33 0.22
7 78 0.51
8 13 0.08
9 1 0.01
10 5 0.03
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:11688667 original size:12 final size:12
Alignment explanation
Indices: 11688650--11688754 Score: 55
Period size: 12 Copynumber: 9.0 Consensus size: 12
11688640 GTTTGGCGGT
11688650 TTAGGGTTTAGG
1 TTAGGGTTTAGG
11688662 TTAGGG-TTAGG
1 TTAGGGTTTAGG
*
11688673 AT-GGGTTTAGGG
1 TTAGGGTTTA-GG
11688685 TT----TTT-GG
1 TTAGGGTTTAGG
*
11688692 TTTAGGATTTAGG
1 -TTAGGGTTTAGG
*
11688705 TTTTAGGGTTTAGT
1 --TTAGGGTTTAGG
*
11688719 TTAGGGTTTAGT
1 TTAGGGTTTAGG
* *
11688731 TTAGGATTT-GAT
1 TTAGGGTTTAG-G
11688743 TTAGGGTTTAGG
1 TTAGGGTTTAGG
11688755 GTTTAGGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 3 0.04
10 3 0.04
11 10 0.13
12 41 0.55
13 3 0.04
14 11 0.15
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (12 bp):
TTAGGGTTTAGG
Found at i:11688824 original size:12 final size:12
Alignment explanation
Indices: 11688676--11688830 Score: 89
Period size: 12 Copynumber: 12.2 Consensus size: 12
11688666 GGTTAGGATG
11688676 GGTTTAGGGTTTTT
1 GGTTTAGGG--TTT
*
11688690 GGTTTAGGATTT
1 GGTTTAGGGTTT
11688702 AGGTTTTAGGGTTT
1 -GG-TTTAGGGTTT
*
11688716 AGTTTAGGGTTT
1 GGTTTAGGGTTT
* *
11688728 AGTTTAGGATTT
1 GGTTTAGGGTTT
*
11688740 GATTTAGGGTTT
1 GGTTTAGGGTTT
*
11688752 AGGGTTTA-GGTATA
1 --GGTTTAGGGT-TT
*
11688766 GCTTTA-GGTTT
1 GGTTTAGGGTTT
* * *
11688777 AGGATTAAGATTT
1 -GGTTTAGGGTTT
* *
11688790 AGATTTAGGTTTT
1 -GGTTTAGGGTTT
11688803 GGGATTTAGGGTTT
1 -GG-TTTAGGGTTT
11688817 GGTTTAGGGTTT
1 GGTTTAGGGTTT
11688829 GG
1 GG
11688831 GGTTCAAAGT
Statistics
Matches: 112, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
11 1 0.01
12 57 0.51
13 22 0.20
14 32 0.29
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.48
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:11697245 original size:37 final size:37
Alignment explanation
Indices: 11697203--11697318 Score: 115
Period size: 37 Copynumber: 3.1 Consensus size: 37
11697193 GCAAACTACC
* * *
11697203 ATTAAGATGTGTATGAGATGGAATACATGTACTATTT
1 ATTAAGATGTGCATGAAATGGAATGCATGTACTATTT
* * **
11697240 ATTAAGGTGTGCATGAAATGGAATGCATCTACTACCT
1 ATTAAGATGTGCATGAAATGGAATGCATGTACTATTT
* * * * *
11697277 ATTAAAATGTGGATGATATGGAGTGCATGTATTATCTT
1 ATTAAGATGTGCATGAAATGGAATGCATGTACTAT-TT
11697315 ATTA
1 ATTA
11697319 TTTGCAACTC
Statistics
Matches: 62, Mismatches: 16, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
37 57 0.92
38 5 0.08
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.36
Consensus pattern (37 bp):
ATTAAGATGTGCATGAAATGGAATGCATGTACTATTT
Found at i:11699327 original size:17 final size:17
Alignment explanation
Indices: 11699302--11699337 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11699292 GAGGTTATGG
11699302 TTTAAGGTTTCATAGAA
1 TTTAAGGTTTCATAGAA
*
11699319 TTTAGGGTTTCATAGAA
1 TTTAAGGTTTCATAGAA
11699336 TT
1 TT
11699338 ATGCATCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
TTTAAGGTTTCATAGAA
Found at i:11702968 original size:21 final size:20
Alignment explanation
Indices: 11702943--11702991 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
11702933 GCTTTTAAGC
11702943 TCTTTAATT-TTAAGTTCAAGT
1 TCTTTAATTATT-AG-TCAAGT
*
11702964 TCTTTAAATTATTTGTCAAGT
1 TCTTT-AATTATTAGTCAAGT
11702985 TCTTTAA
1 TCTTTAA
11702992 AATTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 5 0.20
23 2 0.08
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (20 bp):
TCTTTAATTATTAGTCAAGT
Found at i:11705586 original size:2 final size:2
Alignment explanation
Indices: 11705579--11705608 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11705569 GATTTTGTTT
11705579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11705609 GATGATGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11706118 original size:3 final size:3
Alignment explanation
Indices: 11706105--11706143 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
11706095 GGTAGTATTC
11706105 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A
11706144 CCCATAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:11706370 original size:12 final size:12
Alignment explanation
Indices: 11706353--11706377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11706343 TATTAATATT
11706353 TATTGTATTTAA
1 TATTGTATTTAA
11706365 TATTGTATTTAA
1 TATTGTATTTAA
11706377 T
1 T
11706378 TTTTTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTGTATTTAA
Found at i:11706680 original size:45 final size:44
Alignment explanation
Indices: 11706606--11706692 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 44
11706596 AAGTTACAGC
* *
11706606 CAATTGACGCCACTTTATTGACTAGTATTTTGTATCTTTTCAATA
1 CAATTGACGCCACTTTATTGACTA-TATTTGGTAACTTTTCAATA
* *
11706651 CAATTGGCGCCTACTTTTTGTGACT-TATTTGGTAACTTTTCA
1 CAATTGACGCC-ACTTTAT-TGACTATATTTGGTAACTTTTCA
11706693 GTGAATAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 25 0.69
46 6 0.17
47 5 0.14
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (44 bp):
CAATTGACGCCACTTTATTGACTATATTTGGTAACTTTTCAATA
Found at i:11709840 original size:72 final size:75
Alignment explanation
Indices: 11709755--11709915 Score: 188
Period size: 75 Copynumber: 2.2 Consensus size: 75
11709745 GAAAACATGT
* ** *
11709755 TATTGTGACAACTTT-TTTT-GTCAC-TATTTTAATTTTTTTTAGTGTCGAAAAAAT-TGTCAC-
1 TATTGTGACAACTTTATTTTAGTCACATATTCTAA-TACTTTTAGTATC-AAAAAATGTGTCACA
*
11709815 AATAAAATGAGC
64 AAAAAAATGAGC
**
11709827 TATTGTGACAACTTTATTTTAGTCACATATTCTAATACTTTTAGTATCAAAATTTGTGTCACAAA
1 TATTGTGACAACTTTATTTTAGTCACATATTCTAATACTTTTAGTATCAAAAAATGTGTCACAAA
*
11709892 AAAAATGTGC
66 AAAAATGAGC
*
11709902 TATTGTGGCAACTT
1 TATTGTGACAACTT
11709916 AATAAATGTC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
72 15 0.20
73 9 0.12
74 21 0.28
75 30 0.40
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (75 bp):
TATTGTGACAACTTTATTTTAGTCACATATTCTAATACTTTTAGTATCAAAAAATGTGTCACAAA
AAAAATGAGC
Found at i:11710033 original size:20 final size:21
Alignment explanation
Indices: 11709994--11710034 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
11709984 GTCATTATAA
11709994 ATTTTTAGTGACTAAATTTTAT
1 ATTTTTAGTGAC-AAATTTTAT
*
11710016 ATTTTTAGTGACAATTTTT
1 ATTTTTAGTGACAAATTTT
11710035 TTCCACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (21 bp):
ATTTTTAGTGACAAATTTTAT
Found at i:11722881 original size:422 final size:414
Alignment explanation
Indices: 11721807--11723036 Score: 1739
Period size: 411 Copynumber: 3.0 Consensus size: 414
11721797 AAATAGCTTT
* * *
11721807 AAAAAAAAAAGAAAAACAAATGCGAAAACATGAAAATAGCAAGTATACATGCAAATCAATAAAGA
1 AAAAAAAAAAGGAAAACAAAGGTGAAAACATGAAAATAGCAAGTATACATGCAAATCAATAAAGA
*
11721872 AGTTGATGTTTGAGTC-AAAAAAAAAGTGAAAAGAAAGTATGAAAAAGAT-AAACCTACAAAGAA
66 AGTTGATGTTTGA-TCAAAAAAAAAAGTGAAAAGAAAATATGAAAAAGATGAAACCTACAAAGAA
* * * *
11721935 AGAAGAATATAAATTTGGGGGTGTACAATTCTTGAAAGCTCTCTCATCAATATAAAATATCCTAA
130 AGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATATAAAAGATCCTAA
* *
11722000 GTAATGCATGTATAAGGGTTATGAACCTAAATATTTTCTTTATCCTATCTTAACCCTAGCCTGAC
195 GTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACCCTAGCCTGAC
* * * * *
11722065 ATTACAACCTTAATAAAGATCTATTGATCTTTGGTTAAATGTGGATAGATTAGGGGAA-AGAGTA
260 ATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAATGTGGCTAGATTA-GTGAAGAGTGTA
* *
11722129 TGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTCATGTCTGTA
324 TGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTCATGTTTGCA
*
11722194 GAACTTTAATTGAATAGCTTTTGAAA
389 TAACTTTAATTGAATAGCTTTTGAAA
* * * **
11722220 AAAAAAAGAA-GAAAA-AAAGGTAAAAACATGAAAATAGCAAGTATACATGCATATCAATAACTA
1 AAAAAAAAAAGGAAAACAAAGGTGAAAACATGAAAATAGCAAGTATACATGCAAATCAATAAAGA
* * *
11722283 TGTTGATGTTTGA--ATAAAAAAAAAGTGAAAA-AAAAGTATGAAAAGGATGAAACCTATAAAGA
66 AGTTGATGTTTGATCA-AAAAAAAAAGTGAAAAGAAAA-TATGAAAAAGATGAAACCTACAAAGA
* * * *
11722345 AAGAAGAATATAAGTTTGAGAGTGTACAATTATTGAAATCTCTCTTATCAATATAAAAGATCTTA
129 AAGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATATAAAAGATCCTA
* * * *
11722410 ATTAATGCATGTGTAGGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACCCTAGCTTAA
194 AGTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACCCTAGCCTGA
*
11722475 CATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAACTGTGGCTAGATTAGTGAAGAGTGTA
259 CATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAATGTGGCTAGATTAGTGAAGAGTGTA
* * * *
11722540 TGAGAAAATTAAACTTCTAAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTCATGTTTGCA
324 TGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTCATGTTTGCA
11722605 TAACTTTAATTGAATAG-TTTTCAGAAGAAAA
389 TAACTTTAATTGAATAGCTTTT-----G-AAA
* *
11722636 AAACAAAAAAAGGAAAACAAAGGTGGAAACATGAAAATAGCAAGTATACATGCAAATCAAAAAAG
1 AAA-AAAAAAAGGAAAACAAAGGTGAAAACATGAAAATAGCAAGTATACATGCAAATCAATAAAG
* *
11722701 AAGTTGATGTTTGCATCAAAAAAAAAAAGTGAAAAGAAAATATTAAAAATATGAAACCTACAAAG
65 AAGTTGATGTTTG-ATC-AAAAAAAAAAGTGAAAAGAAAATATGAAAAAGATGAAACCTACAAAG
* * *
11722766 AAAGAAGAATCTAAGTTTGGGGGTGTACAATTGTTGAACGCTCTCTTATCAATATAAAAGATCCT
128 AAAGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATATAAAAGATCCT
* * *
11722831 AAGTAATGCATGTGTAAGGTTTATAAACCTAAATATTTTCTTTATCCTACCTTAACCCTAACCTG
193 AAGTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACCCTAGCCTG
**
11722896 ACATTACAAGCTTAATAAAGAGTTATTGATC-TTGG-TAAAGTGTGGCTAGATTAGT--AGAGTG
258 ACATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAA-TGTGGCTAGATTAGTGAAGAGT-
* * *
11722957 AGTATGATAAAAGCAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATGTTTATTTCATGTT
321 -GTATGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTCATGTT
11723022 TGCATAACTTTAATT
385 TGCATAACTTTAATT
11723037 AAATGACTTG
Statistics
Matches: 721, Mismatches: 74, Indels: 36
0.87 0.09 0.04
Matches are distributed among these distances:
409 3 0.00
410 35 0.05
411 311 0.43
412 4 0.01
413 9 0.01
415 1 0.00
416 6 0.01
417 6 0.01
418 5 0.01
419 58 0.08
420 4 0.01
421 92 0.13
422 182 0.25
423 5 0.01
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (414 bp):
AAAAAAAAAAGGAAAACAAAGGTGAAAACATGAAAATAGCAAGTATACATGCAAATCAATAAAGA
AGTTGATGTTTGATCAAAAAAAAAAGTGAAAAGAAAATATGAAAAAGATGAAACCTACAAAGAAA
GAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATATAAAAGATCCTAAG
TAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACCCTAGCCTGACA
TTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAATGTGGCTAGATTAGTGAAGAGTGTATG
AAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTCATGTTTGCATA
ACTTTAATTGAATAGCTTTTGAAA
Found at i:11724845 original size:21 final size:21
Alignment explanation
Indices: 11724798--11724847 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
11724788 TTGGGCCTCG
* *
11724798 TAGCCTATACCCTGGGTCCCT
1 TAGCCTACACCCTAGGTCCCT
*
11724819 TGGCCTACACCCTAGG-CCCTT
1 TAGCCTACACCCTAGGTCCC-T
11724840 TAGCCTAC
1 TAGCCTAC
11724848 CTCACCCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.16, C:0.40, G:0.18, T:0.26
Consensus pattern (21 bp):
TAGCCTACACCCTAGGTCCCT
Found at i:11735609 original size:16 final size:16
Alignment explanation
Indices: 11735575--11735609 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11735565 ATACAAGCTC
**
11735575 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
11735591 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11735607 ATA
1 ATA
11735610 TGTTATGATA
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:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:11742409 original size:16 final size:17
Alignment explanation
Indices: 11742388--11742419 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11742378 TGTCATCTTA
11742388 TTTAAAA-TCATTTTTT
1 TTTAAAACTCATTTTTT
11742404 TTTAAAACTCATTTTT
1 TTTAAAACTCATTTTT
11742420 GAAAACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAAACTCATTTTTT
Found at i:11744160 original size:30 final size:30
Alignment explanation
Indices: 11744126--11744182 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11744116 ATTTGATTGA
*
11744126 ATTTTACCACA-TTTCACCAAGTTTGACTTT
1 ATTTTACCA-AGTTTCACCAAGCTTGACTTT
*
11744156 ATTTTACCAAGTTTGACCAAGCTTGAC
1 ATTTTACCAAGTTTCACCAAGCTTGAC
11744183 CTTGAGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (30 bp):
ATTTTACCAAGTTTCACCAAGCTTGACTTT
Found at i:11744906 original size:42 final size:42
Alignment explanation
Indices: 11744610--11745158 Score: 350
Period size: 42 Copynumber: 13.3 Consensus size: 42
11744600 AAAAAAAATA
** *
11744610 ATTCATAG-TTGGAAAACTTTGGATTCACAATAGAGTAAATG
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
* ** * * *
11744651 GTTCATAGTTTGGAGGACACTGGATTCACAGTAAAGTAAACA
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
*** * * * * * * *
11744693 ATT--TACAATCGA-AATTTTAGATTCATAGTAGAGTAAACA
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
* * ** * * *
11744732 ATACACAAATTGGAGGA-TTATGGATTCATAATAAAGTAAAAG
1 ATTCATAGTTTGGAGGACTT-TGGATTCACAATAGAGTAAACG
* * * * *
11744774 ATTTATAG-TTGTAGGACTTTGGGTTCATAATAGAGTAAACA
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
** * * * *
11744815 ATTCACCGTTT-GAAGACTTTGGATTTAC-ATAAAGTAAATG
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
*
11744855 ATTCCTAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
* * * * * *
11744897 ATTTATAGTTGGGA-GACTCTGGATGCACAGTAGAGTAAATG
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
* ** *
11744938 ATTCATAGTTTTGAGGACTTTGGATTCACAATAGAGTGGACA
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
* * * *
11744980 ATTCATAGTTAT-GAGGACTTTAGATTCACAACAAAGTAAGCG
1 ATTCATAGTT-TGGAGGACTTTGGATTCACAATAGAGTAAACG
* * * * ** *
11745022 ATTCACA-ATTGTGAGGACTGTAGATTCACAGCAGAGTAAATG
1 ATTCATAGTTTG-GAGGACTTTGGATTCACAATAGAGTAAACG
* * *
11745064 ATTCATAGTTTGGAGGACTTTGGATTCACAACAAAGTAAATG
1 ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
* * ** * * *
11745106 ATTCATA-ATTGGAAGACTCTAAGA-TCACAACAAAGTAAATG
1 ATTCATAGTTTGGAGGACT-TTGGATTCACAATAGAGTAAACG
11745147 ATTCATAGTTTG
1 ATTCATAGTTTG
11745159 AAAAGATAGA
Statistics
Matches: 391, Mismatches: 101, Indels: 31
0.75 0.19 0.06
Matches are distributed among these distances:
39 22 0.06
40 23 0.06
41 139 0.36
42 203 0.52
43 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (42 bp):
ATTCATAGTTTGGAGGACTTTGGATTCACAATAGAGTAAACG
Found at i:11750244 original size:411 final size:411
Alignment explanation
Indices: 11749515--11750753 Score: 1717
Period size: 411 Copynumber: 3.0 Consensus size: 411
11749505 AAAAGCTAAA
*
11749515 AATAGC-TTT-AAAAAAAAAAGAA-AAACAAATGCG-A-AAACATGAAAATAGCAAGTATACATG
1 AATAGCTTTTGAAAAAAAAAAGAAGAAA-AAAAG-GTAGAAACATGAAAATAGCAAGTATACATG
* *
11749575 CAAATCAATAAAGAAGTTGATGTTTGAGTAAAAAAAAAGTGAAAAGAAAGTATGAAAAAGAT-AA
64 CAAATCAATAAAGAAGTTGATGTTTGAATAAAAAAAAAGTGAAAAAAAAGTATGAAAAAGATGAA
* * * * *
11749639 ACCTACAAAGAAAAAAGAATATAAATTTGGGGGTGTACAATTCTTGAAAGCTTTCTCATCAATAT
129 ACCTACAAAGAAAGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATAT
* * *
11749704 AAAATATCCTAAGTAATGCATGTATAAGGGTTATGAACCTAAATATTTTCTTTATCCTATCTTAA
194 AAAAGATCCTAAGTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAA
* * *
11749769 CCCTAGCCTGACATTACAACCTTAATAAAGATCTATTGATCTTTGGTTAAATGTGGATAGATTAG
259 CCCTAGCCTGACATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAATGTGGCTAGATTAG
*
11749834 GGAAAAGAGTATGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATT
324 GGAAGAGAGTATGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATT
* * *
11749899 TCATGTCTGTAGAACTTTAATTG
389 TCATGTTTGCATAACTTTAATTG
11749922 AATAGCTTTTGAAAAAAAAAAGAAGAAAAAAAGGTAGAAACATGAAAATAGCAAGTATACATGCA
1 AATAGCTTTTGAAAAAAAAAAGAAGAAAAAAAGGTAGAAACATGAAAATAGCAAGTATACATGCA
* ** * *
11749987 TATCAATAACTATGTTGATGTTTGAATAAAAAAAAAGTGAAAAAAAAGTATGAAAAGGATGAAAC
66 AATCAATAAAGAAGTTGATGTTTGAATAAAAAAAAAGTGAAAAAAAAGTATGAAAAAGATGAAAC
* * * * *
11750052 CTATAAAGAAAGAAGAATATAAGTTTGAGAGTGTACAATTATTGAAATCTCTCTTATCAATACAA
131 CTACAAAGAAAGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATATAA
* * *
11750117 AAGATCTTAATTAATGCATGTGTAGGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACC
196 AAGATCCTAAGTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACC
* * * *
11750182 CTAGCTTAACATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAACTGTGGCTAGATTAGTG
261 CTAGCCTGACATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAATGTGGCTAGATTAGGG
* * * * *
11750247 AAGAGTGTATGAGAAAATTAAACTTCTAAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTC
326 AAGAGAGTATGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTC
11750312 ATGTTTGCATAACTTTAATTG
391 ATGTTTGCATAACTTTAATTG
* *
11750333 AATAG-TTTTCAGAAGAAAAAAACAAAAAAAAGGAAAACAAAGGTGGAAACATGAAAATAGCAAG
1 AATAGCTTTT-----G--AAAAA-AAAAAGAA-GAAAA-AAAGGTAGAAACATGAAAATAGCAAG
*
11750397 TATACATGCAAATCAATAAAGAAGTTGATGTTTGCGTAAAAAAAAAAAAGTGAAAAGAAAA-TAT
56 TATACATGCAAATCAATAAAGAAGTTGATGTTT--G-AATAAAAAAAAAGTGAAAA-AAAAGTAT
* * * * *
11750461 TAAAAATATGAAACCTACAAAGAAAGAAGAATCTAAGTTTGGGGGTGTACAATTGTTGAACGCTC
117 GAAAAAGATGAAACCTACAAAGAAAGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTC
* *
11750526 TCTTATCAATATAAAAGATCCTAAGTAATGCATGTGTAAGGTTTATAAACCTAAATATTTTCTTT
182 TCTTATCAATATAAAAGATCCTAAGTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTT
* **
11750591 ATCCTACCTTAACCCTAACCTGACATTACAAGCTTAATAAAGAGTTATTGATC-TTGG-TAAAGT
247 ATCCTACCTTAACCCTAGCCTGACATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAA-T
* * * *
11750654 GTGGCTAGATTA-GTAGAGTGAGTATGATAAAAGCAAACTTATGAAATTTGTGCATGCTTTTAAG
311 GTGGCTAGATTAGGGA-AGAGAGTATGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAG
*
11750718 ATTCTATGTTTATTTCATGTTTGCATAACTTTAATT
375 ATTCTATATTTATTTCATGTTTGCATAACTTTAATT
11750754 AAATGACTTG
Statistics
Matches: 731, Mismatches: 79, Indels: 29
0.87 0.09 0.03
Matches are distributed among these distances:
407 6 0.01
408 4 0.01
409 18 0.02
410 88 0.12
411 258 0.35
415 1 0.00
417 5 0.01
418 7 0.01
419 5 0.01
420 54 0.07
421 4 0.01
422 94 0.13
423 183 0.25
424 4 0.01
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (411 bp):
AATAGCTTTTGAAAAAAAAAAGAAGAAAAAAAGGTAGAAACATGAAAATAGCAAGTATACATGCA
AATCAATAAAGAAGTTGATGTTTGAATAAAAAAAAAGTGAAAAAAAAGTATGAAAAAGATGAAAC
CTACAAAGAAAGAAGAATATAAGTTTGGGGGTGTACAATTATTGAAAGCTCTCTTATCAATATAA
AAGATCCTAAGTAATGCATGTGTAAGGGTTATGAACCTAAATATTTTCTTTATCCTACCTTAACC
CTAGCCTGACATTACAAGCTTAATAAAGACCTATTGATCTTTGGTTAAATGTGGCTAGATTAGGG
AAGAGAGTATGAAAAAAGTAAACTTATGAAATTTGTGCATGCTTTTAAGATTCTATATTTATTTC
ATGTTTGCATAACTTTAATTG
Found at i:11752556 original size:21 final size:21
Alignment explanation
Indices: 11752509--11752558 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
11752499 TTGGGCCTCG
* *
11752509 TAGCCTATACCCTGGGTCCCT
1 TAGCCTACACCCTAGGTCCCT
*
11752530 TGGCCTACACCCTAGG-CCCTT
1 TAGCCTACACCCTAGGTCCC-T
11752551 TAGCCTAC
1 TAGCCTAC
11752559 CTCACCCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.16, C:0.40, G:0.18, T:0.26
Consensus pattern (21 bp):
TAGCCTACACCCTAGGTCCCT
Found at i:11762427 original size:29 final size:29
Alignment explanation
Indices: 11762392--11762448 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
11762382 TTTGTATGTT
*
11762392 TAATTGGTTAATTAGTTGCTGCATAGTTA
1 TAATTGGTTAAATAGTTGCTGCATAGTTA
11762421 TAATTGGTTAAATAGTTGCTGCATAGTT
1 TAATTGGTTAAATAGTTGCTGCATAGTT
11762449 CTATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (29 bp):
TAATTGGTTAAATAGTTGCTGCATAGTTA
Found at i:11763252 original size:20 final size:19
Alignment explanation
Indices: 11763219--11763271 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
11763209 AATGAATAAA
11763219 ATATTAATAATAATTTAAT
1 ATATTAATAATAATTTAAT
* *
11763238 ATATTCAATATTAATTTCAT
1 ATATT-AATAATAATTTAAT
11763258 ATTATTGAATAATA
1 A-TATT-AATAATA
11763272 TTAAATATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.18
20 13 0.46
21 10 0.36
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTAATAATAATTTAAT
Found at i:11763307 original size:22 final size:21
Alignment explanation
Indices: 11763269--11763343 Score: 82
Period size: 22 Copynumber: 3.6 Consensus size: 21
11763259 TTATTGAATA
11763269 ATATTAAATA-TCAATTTAAT
1 ATATTAAATATTCAATTTAAT
* *
11763289 CATATTAATTATTCAATTTAGT
1 -ATATTAAATATTCAATTTAAT
*
11763311 AATATTAAATATT-AATTAAAT
1 -ATATTAAATATTCAATTTAAT
*
11763332 ATATTTAATATT
1 ATATTAAATATT
11763344 GTTACAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
20 11 0.24
21 15 0.33
22 20 0.43
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (21 bp):
ATATTAAATATTCAATTTAAT
Found at i:11763376 original size:36 final size:34
Alignment explanation
Indices: 11763304--11763395 Score: 84
Period size: 36 Copynumber: 2.8 Consensus size: 34
11763294 TAATTATTCA
* *
11763304 ATTTAGTAATATTA-AATA--TTA-ATTAAATAT
1 ATTTAATAATATTACAATATTTTATACTAAATAT
* *
11763334 ATTTAATATTGTTACAATATTTTATACTAAATATT
1 ATTTAATAATATTACAATATTTTATACTAAATA-T
**
11763369 AATTTAATAATATTTTAATATTTTATA
1 -ATTTAATAATATTACAATATTTTATA
11763396 ATATTTTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
30 11 0.23
31 4 0.08
33 3 0.06
34 7 0.15
35 1 0.02
36 22 0.46
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (34 bp):
ATTTAATAATATTACAATATTTTATACTAAATAT
Found at i:11763391 original size:18 final size:18
Alignment explanation
Indices: 11763370--11763413 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
11763360 CTAAATATTA
11763370 ATTTAATAATATTTTAAT
1 ATTTAATAATATTTTAAT
*
11763388 ATTTTATAATATTTTAAT
1 ATTTAATAATATTTTAAT
*
11763406 ATTCAATA
1 ATTTAATA
11763414 TTAATTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAATAATATTTTAAT
Found at i:11763429 original size:30 final size:30
Alignment explanation
Indices: 11763388--11763525 Score: 144
Period size: 29 Copynumber: 4.8 Consensus size: 30
11763378 ATATTTTAAT
*
11763388 ATTTT-ATAATATTTTAATATTCAATATTA
1 ATTTTAATAATATTTTAATATTAAATATTA
* * *
11763417 ATTTTCATAATATTTTAATCTTACATATTA
1 ATTTTAATAATATTTTAATATTAAATATTA
*
11763447 A-TTTAACAATA-TTTAATA-TAAATTATT-
1 ATTTTAATAATATTTTAATATTAAA-TATTA
* *
11763474 ATTTTAATAACATTTTAATAATAAATATTA
1 ATTTTAATAATATTTTAATATTAAATATTA
* *
11763504 A-TTTAATAATATCTTCATATTA
1 ATTTTAATAATATTTTAATATTA
11763526 TGTAATGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
27 4 0.04
28 18 0.20
29 41 0.46
30 27 0.30
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTTAATAATATTTTAATATTAAATATTA
Found at i:11763492 original size:57 final size:58
Alignment explanation
Indices: 11763395--11763525 Score: 149
Period size: 57 Copynumber: 2.2 Consensus size: 58
11763385 AATATTTTAT
* * * ** *
11763395 AATATTTTAATATTCAATATTAATTTTCATAATATTTTAATCTTACATATTAATTTAAC
1 AATA-TTTAATATTAAATATTAATTTTAATAACATTTTAATAATAAATATTAATTTAAC
*
11763454 AATATTTAATA-TAAATTATT-ATTTTAATAACATTTTAATAATAAATATTAATTTAAT
1 AATATTTAATATTAAA-TATTAATTTTAATAACATTTTAATAATAAATATTAATTTAAC
*
11763511 AATATCTTCATATTA
1 AATAT-TTAATATTA
11763526 TGTAATGAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 39 0.64
58 16 0.26
59 6 0.10
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (58 bp):
AATATTTAATATTAAATATTAATTTTAATAACATTTTAATAATAAATATTAATTTAAC
Found at i:11763684 original size:41 final size:39
Alignment explanation
Indices: 11763608--11763713 Score: 97
Period size: 41 Copynumber: 2.6 Consensus size: 39
11763598 ATAATATTTG
* * * * * *
11763608 AATAATTATTATTATTCAATATTAATTTAATATTTTTAACT
1 AATATTTAATATTATTAAATATT-ATTGAA-AATTTTAAAT
11763649 AATATTTAATATTATTAAATATTATTGAACAATTTTAAAT
1 AATATTTAATATTATTAAATATTATTGAA-AATTTTAAAT
*
11763689 ATTAATTTAATCA-TATTAAATATTA
1 AAT-ATTTAAT-ATTATTAAATATTA
11763714 ACTTTTGTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 15 0.27
41 39 0.71
42 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (39 bp):
AATATTTAATATTATTAAATATTATTGAAAATTTTAAAT
Found at i:11763690 original size:30 final size:30
Alignment explanation
Indices: 11763620--11763692 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
11763610 TAATTATTAT
* * *
11763620 TATTCAATATTAATTTAATATTTTTAACTAA
1 TATTTAATATT-ATTAAATATTTTGAACTAA
11763651 TATTTAATATTATTAAATATTATTGAAC-AA
1 TATTTAATATTATTAAATATT-TTGAACTAA
11763681 T-TTTAAATATTA
1 TATTT-AATATTA
11763693 ATTTAATCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 3 0.08
30 19 0.51
31 15 0.41
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTTAATATTATTAAATATTTTGAACTAA
Found at i:11763747 original size:36 final size:35
Alignment explanation
Indices: 11763648--11763764 Score: 87
Period size: 37 Copynumber: 3.2 Consensus size: 35
11763638 TATTTTTAAC
*
11763648 TAATATTTAATATT-ATTAAATATTATTGAACAATTTT
1 TAATA-TTAATATTAATTAAATAATATT-AAC-ATTTT
* * *
11763685 AAATATTAAT-TTAATCATATTAAATATTAAC-TTTT
1 TAATATTAATATTAATTA-AAT-AATATTAACATTTT
*
11763720 GTAATATTCAATATTAATTAAATAATATTAAATATTTT
1 -TAATATT-AATATTAATTAAATAATATT-AACATTTT
*
11763758 TTATATT
1 TAATATT
11763765 TTATACTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
35 6 0.10
36 20 0.32
37 22 0.35
38 15 0.24
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (35 bp):
TAATATTAATATTAATTAAATAATATTAACATTTT
Found at i:11763849 original size:29 final size:30
Alignment explanation
Indices: 11763787--11763851 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
11763777 TTAACTTTAA
* *
11763787 AATATTTTAATATTTAATATTCTGTTAATC
1 AATATTTTAATATTAAATATTCTGTTAAAC
*
11763817 -ATATTTTCATTATTAAATATT-T-TTAAAC
1 AATATTTT-AATATTAAATATTCTGTTAAAC
11763845 AATATTT
1 AATATTT
11763852 AATTTTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.17
29 14 0.47
30 11 0.37
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (30 bp):
AATATTTTAATATTAAATATTCTGTTAAAC
Found at i:11763893 original size:11 final size:11
Alignment explanation
Indices: 11763879--11764075 Score: 78
Period size: 10 Copynumber: 18.2 Consensus size: 11
11763869 AATAAATTAT
11763879 TAATATTTTAA
1 TAATATTTTAA
11763890 TAATA-TTTAA
1 TAATATTTTAA
*
11763900 TTA-ATTTT-A
1 TAATATTTTAA
11763909 TAATATTTTAA
1 TAATATTTTAA
**
11763920 TTTTATTTTAA
1 TAATATTTTAA
* * *
11763931 CAAAATATTAAA
1 TAATAT-TTTAA
11763943 TAATTAATTTTCCAA
1 TAA-T-ATTTT--AA
*
11763958 -AA-A-TTTCA
1 TAATATTTTAA
* *
11763966 TATTA-TTTGA
1 TAATATTTTAA
11763976 TAATATTTTAA
1 TAATATTTTAA
*
11763987 T-ATA---AAA
1 TAATATTTTAA
*
11763994 TATTATTTTAA
1 TAATATTTTAA
*
11764005 TAATATTTGAA
1 TAATATTTTAA
*
11764016 T-CTATTTTAA
1 TAATATTTTAA
11764026 TAATA-TTTAA
1 TAATATTTTAA
*
11764036 TAATATTTATAC
1 TAATATTT-TAA
*
11764048 TAAATATTAATTTAG
1 T-AATA-T--TTTAA
11764063 TAATATTTTAA
1 TAATATTTTAA
11764074 TA
1 TA
11764076 TTAGTTTATA
Statistics
Matches: 136, Mismatches: 28, Indels: 44
0.65 0.13 0.21
Matches are distributed among these distances:
7 3 0.02
8 3 0.02
9 5 0.04
10 48 0.35
11 45 0.33
12 9 0.07
13 7 0.05
14 9 0.07
15 5 0.04
16 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:11763989 original size:21 final size:21
Alignment explanation
Indices: 11763869--11764183 Score: 87
Period size: 21 Copynumber: 14.3 Consensus size: 21
11763859 AACATGAAAG
11763869 AATAA-ATTATTAATA-T-TTT
1 AATAATATT-TTAATATTATTT
*
11763888 AATAATA-TTTAAT-TAATTT
1 AATAATATTTTAATATTATTT
* *
11763907 TATAATATTTTAATTTTATTTT
1 AATAATATTTTAATATTA-TTT
* * *
11763929 AACAAAATATTAAATAATTAATTT
1 AATAATAT-TTTAAT-ATT-ATTT
*** * * *
11763953 TCCAAAAATTTCATATTATTT
1 AATAATATTTTAATATTATTT
* *
11763974 GATAATATTTTAATA-TA--A
1 AATAATATTTTAATATTATTT
* *
11763992 AATATTATTTTAATAATATTT
1 AATAATATTTTAATATTATTT
* *
11764013 GAAT-CTATTTTAATAATATTT
1 -AATAATATTTTAATATTATTT
11764034 AATAATATTTATACTAAATATTAATTT
1 AATAATA-TT-T--T-AATATT-ATTT
*
11764061 AGTAATATTTTAATATTAGTTT
1 AATAATATTTTAATATTA-TTT
11764083 ATATGTAATATATTTTAATAATTTGGAATATT
1 A-A--T-A-ATATTTTAAT-A-TT---AT-TT
** *
11764115 ACATTCTATTTTAATAGTATTT
1 A-ATAATATTTTAATATTATTT
*
11764137 --TACTA-TTTAATATTAATTT
1 AATAATATTTTAATATT-ATTT
*
11764156 AATAATATTTTAATAGTATTT
1 AATAATATTTTAATATTATTT
11764177 AACTAAT
1 AA-TAAT
11764184 GTTATCATAT
Statistics
Matches: 223, Mismatches: 36, Indels: 71
0.68 0.11 0.22
Matches are distributed among these distances:
18 26 0.12
19 25 0.11
20 12 0.05
21 44 0.20
22 40 0.18
23 13 0.06
24 10 0.04
25 4 0.02
26 9 0.04
27 21 0.09
28 10 0.04
29 2 0.01
30 1 0.00
31 1 0.00
32 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
AATAATATTTTAATATTATTT
Found at i:11764301 original size:27 final size:29
Alignment explanation
Indices: 11764264--11764333 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 29
11764254 TAATATTAAG
*
11764264 TTAATAATATTTTAATATTA-AATTT-TT
1 TTAATAATATTTTAATATGATAATTTATT
* **
11764291 TTAATACTATTAGAATATGATAATTTATT
1 TTAATAATATTTTAATATGATAATTTATT
11764320 TTAATAATATTTTA
1 TTAATAATATTTTA
11764334 TAATACATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 16 0.47
28 5 0.15
29 13 0.38
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
TTAATAATATTTTAATATGATAATTTATT
Found at i:11764978 original size:24 final size:24
Alignment explanation
Indices: 11764928--11764978 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
11764918 TGGTTTTTTT
* * * * *
11764928 TTTTTTTTTTTTTGGATATTTTCC
1 TTTTTTTTTTTTTGCAAAATGTAC
11764952 TTTTTTTTTTTTTGCAAAATGTAC
1 TTTTTTTTTTTTTGCAAAATGTAC
11764976 TTT
1 TTT
11764979 AAATCCCTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.08, T:0.71
Consensus pattern (24 bp):
TTTTTTTTTTTTTGCAAAATGTAC
Found at i:11765945 original size:29 final size:29
Alignment explanation
Indices: 11765913--11765977 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
11765903 ATTATCTTGG
**
11765913 TTTATTATTACTATTATTTTTTATAA-TAA
1 TTTATTATT-CTAAAATTTTTTATAAGTAA
* *
11765942 TTTATAATTTTAAAATTTTTTATAAGTAA
1 TTTATTATTCTAAAATTTTTTATAAGTAA
11765971 -TTATTAT
1 TTTATTAT
11765978 GAATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTATTATTCTAAAATTTTTTATAAGTAA
Found at i:11775133 original size:15 final size:15
Alignment explanation
Indices: 11775113--11775144 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11775103 CAGGGATGTT
11775113 GACCCTTTGGAAATG
1 GACCCTTTGGAAATG
11775128 GACCCTTTGGAAATG
1 GACCCTTTGGAAATG
11775143 GA
1 GA
11775145 AGCATCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (15 bp):
GACCCTTTGGAAATG
Found at i:11784841 original size:58 final size:57
Alignment explanation
Indices: 11784636--11785524 Score: 747
Period size: 60 Copynumber: 15.3 Consensus size: 57
11784626 AATGATTTTA
*
11784636 TGAAAATAAAATTTTC-AAAAAATACTTTAAGGAAAAATTGAAAGTATCAA-TTTTCTT
1 TGAAAATAAAA-TTTCAAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-T
* ** * *
11784693 TGAAGATCGAATTTCAAAAAAATATATTTTAAGGAAAAGTTAAAAGTATCAA-TTTTCTT
1 TGAAAATAAAATTTC-AAAAAA-ATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-T
*
11784752 TGAAAATAAAAATTTC-AAAAAATACTTTAAGG-AAAGATTGAAAATATCAATTTTTCT
1 TGAAAAT-AAAATTTCAAAAAAATACTTTAAGGAAAAG-TTGAAAGTATCAATTTTTCT
* * *
11784809 TGAAGATCAAATTTCAAAAAATATACTTTAAGGAAAAGTTGAAAGTATCAATTCTTCT
1 TGAAAATAAAATTTCAAAAAA-ATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* * *
11784867 TGAAGATCAAATTT-AAAAAATTATACTTTAAGGAAAAGTTGAAATTATCAATTTTTCT
1 TGAAAATAAAATTTCAAAAAA--ATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* * * *
11784925 TGAAAA-ATAATTTTAAAAAAAAAGTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCT
1 TGAAAATAAAATTTCAAAAAAATA-CTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* ** * *
11784981 TAAAAAATAAAAAATCTAAAAAAAAACATTTTAAGGAAAAGTTGAAAGTTTCAATTTTTCT
1 T-GAAAATAAAATTTC-AAAAAAATAC--TTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* * * * *
11785042 TAAAAATGAAAATTTCAAAAAAATATTTTTTGAGGAAAAGTTAAAAGCATCAATTTTTCT
1 TGAAAAT-AAAATTTCAAAAAAATA--CTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* * * *
11785102 TAAAAATAAAAATTAAAAAAAATA-TTTGAAGGAAAAGTTGAAGGTATCAATTTTT-T
1 TGAAAATAAAATTTCAAAAAAATACTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCT
** ** * * *
11785158 AAAAAAATAAAAAATCTAAAAAAA-AGCATTTTAAGGAAAAGCTAAAAGTTTCAATTTTTCT
1 -TGAAAATAAAATTTC-AAAAAAATA-C--TTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* **
11785219 TAAAAATGAAAATTTCAAAAAAACATTTTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCT
1 TGAAAAT-AAAATTTC-AAAAAA-ATACTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCT
* * * *
11785279 TAAAAATAAAAATTTC---AAAATGCTTTAAGAAAAAGTTGAAAGTGTCAATTTTTCT
1 TGAAAAT-AAAATTTCAAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* *
11785334 T-AACAATAAAAATTTC---AAAATGCTTTAAGGAAAAGTTGAAAGTATCAATTTTTAT
1 TGAA-AAT-AAAATTTCAAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* ** ** * * * *
11785389 TAAAAATAAAATTAGAAAAAAGCATTTTTAGGAAAAGTTGAAAGTATTAATTTTCCT
1 TGAAAATAAAATTTCAAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* ** * **
11785446 T-AAAGATGAAATTTTCAAAAAAAATTTTTTGAGGAAAAGTTGCCAGTATCAATTTTTCT
1 TGAAA-AT-AAAATTTC-AAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
* *
11785505 TAAAAATAAAAACTTCAAAA
1 TGAAAAT-AAAATTTCAAAA
11785525 TATGTTTTTT
Statistics
Matches: 696, Mismatches: 93, Indels: 85
0.80 0.11 0.10
Matches are distributed among these distances:
54 10 0.01
55 82 0.12
56 36 0.05
57 150 0.22
58 124 0.18
59 110 0.16
60 152 0.22
61 31 0.04
62 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (57 bp):
TGAAAATAAAATTTCAAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
Found at i:11785120 original size:177 final size:175
Alignment explanation
Indices: 11784652--11785516 Score: 838
Period size: 177 Copynumber: 5.0 Consensus size: 175
11784642 TAAAATTTTC
* * * *
11784652 AAAAAATAC-TTTAAGGAAAAATTGAAAGTATCAA-TTTTCTTTGAAGATCG--AATTTCAAAAA
1 AAAAAAAACATTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAAT-GAAAATTTCAAAAA
* * * * * *
11784713 AATATATTTTAAGGAAAAGTTAAAAGTATCAA-TTTTCTTTGAAAATAAAAATTTCAAAAAATAC
64 AATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAAA-TTAAAAAAAAAT
* * * * **
11784777 TTTAAGG-AAAGATTGAAAATATCAATTTTTCTTGAAGATCAAATTTC-A
127 TTTAAGGAAAAG-TTGAAAGTATCAATTTTTCTTAAAAATAAAAAATCTA
* * * * *
11784825 AAAAATATAC-TTTAAGGAAAAGTTGAAAGTATCAATTCTTCTTGAAGAT-CAAATTT-AAAAAA
1 AAAAA-AAACATTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAAAATTTCAAAAAA
* ** * **
11784887 TTATACTTTAAGGAAAAGTTGAAATTATCAATTTTTCTTGAAAAAT-AATTTTAAAAAAAAAGTT
65 ATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAAATTAAAAAAAAA-TT
11784951 TTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAAATAAAAAATCTA
128 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAAAATCTA
*
11784999 AAAAAAAACATTTTAAGGAAAAGTTGAAAGTTTCAATTTTTCTTAAAAATGAAAATTTCAAAAAA
1 AAAAAAAACA-TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAAAATTTCAAAAAA
* * *
11785064 ATATTTTTTGAGGAAAAGTTAAAAGCATCAATTTTTCTTAAAAATAAAAATTAAAAAAAATATTT
65 ATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAAAAAA-ATTT
* * *
11785129 GAAGGAAAAGTTGAAGGTATCAATTTTT-TAAAAAAATAAAAAATCTA
129 TAAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAATAAAAAATCTA
* * * *
11785176 AAAAAAAGCATTTTAAGGAAAAGCTAAAAGTTTCAATTTTTCTTAAAAATGAAAATTTCAAAAAA
1 AAAAAAAACA-TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAAAATTTCAAAAAA
* ** ***
11785241 ACATTTTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATT-TCAAAATGCTT
65 ATATTTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAAAAAAATTT
* * *
11785304 TAAGAAAAAGTTGAAAGTGTCAATTTTTCTTAACAAT-AAAAAT-T-
129 TAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATCTA
** ** * ** *
11785348 TCAAAATGC-TTTAAGGAAAAGTTGAAAGTATCAATTTTTATTAAAAAT-AAAATTAGAAAAAAG
1 AAAAAAAACATTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAAAATTTCAAAAAAA
* * * * ** *
11785411 CA-TTTTT-AGGAAAAGTTGAAAGTATTAATTTTCCTTAAAGATGAAATTTTCAAAAAAAATTTT
66 TATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAAATT-AAAAAAAA-ATT
* **
11785474 TTGAGGAAAAGTTGCCAGTATCAATTTTTCTTAAAAATAAAAA
128 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAA
11785517 CTTCAAAATA
Statistics
Matches: 586, Mismatches: 80, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
166 1 0.00
167 30 0.05
168 10 0.02
169 14 0.02
170 39 0.07
171 33 0.06
172 26 0.04
173 74 0.13
174 67 0.11
175 70 0.12
176 17 0.03
177 199 0.34
178 6 0.01
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (175 bp):
AAAAAAAACATTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAAAATTTCAAAAAAA
TATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAAAAAAATTTTA
AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATCTA
Found at i:11796214 original size:55 final size:54
Alignment explanation
Indices: 11796134--11796272 Score: 174
Period size: 55 Copynumber: 2.6 Consensus size: 54
11796124 AGTTTGAGTT
* **
11796134 CAAAAAAAAAAATGCTCAAATTGAAAACCCACAAAAGGTGATTTGAGTT-AAAA
1 CAAAAAAAAAAAAGCTCAAATTGAAAACCCACAAAAGACGATTTGAGTTCAAAA
*
11796187 -AAAAAAAAAAAGAGGGCTCAAATTGAAAACCCACAAAATACGATTTGAGTTCAAAA
1 CAAAAAAAAAAA-A--GCTCAAATTGAAAACCCACAAAAGACGATTTGAGTTCAAAA
** *
11796243 CAAAAAGGAAAAAGCTTAAATTGAAAACCC
1 CAAAAAAAAAAAAGCTCAAATTGAAAACCC
11796273 GTAAAGGGCA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
52 11 0.15
54 16 0.22
55 33 0.45
56 5 0.07
57 9 0.12
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (54 bp):
CAAAAAAAAAAAAGCTCAAATTGAAAACCCACAAAAGACGATTTGAGTTCAAAA
Found at i:11797275 original size:85 final size:85
Alignment explanation
Indices: 11797050--11797372 Score: 275
Period size: 85 Copynumber: 3.8 Consensus size: 85
11797040 TACCAATGTA
* * * * *
11797050 TTTCAACTTAGTCT-AGATTATTTATTTCAGACTTCGACTCAATCTAGATCATTTTGTTTTTAGA
1 TTTC-ACTCAGTCTAAG-TTATTTATTTCAGACTTCGATTCTATCTAGGTCATTTTGTTTTGA-A
11797114 TTTTGACTTATGTCAAATCTTTC
63 TTTTGACTTATGTCAAATCTTTC
* * * * * * * *
11797137 -TTCAGCTCAGTCCAAATTATTTATTTTAGA-TTCCAGTTCCATCCAGGTTATTTTGTTTCGAAT
1 TTTCA-CTCAGTCTAAGTTATTTATTTCAGACTTCGA-TTCTATCTAGGTCATTTTGTTTTGAAT
*
11797200 TTTGACTTATGTTAAATCTTTC
64 TTTGACTTATGTCAAATCTTTC
* * * * *
11797222 TTTTACTCAGTCTAAGTTATTCATTTTAGACTTTGATTCTATCTAGGTCATTTTGTTTTGGATTT
1 TTTCACTCAGTCTAAGTTATTTATTTCAGACTTCGATTCTATCTAGGTCATTTTGTTTTGAATTT
* *
11797287 TG-GTCTATGCCAAAT-TATT-
66 TGACT-TATGTCAAATCT-TTC
* * *
11797306 TTTCGACTCAGTCTAAGTTGTTTTATTTCAGACTTTGATT-TCAT-TCAGGTCATTTTGTTTTGG
1 TTTC-ACTCAGTCTAAGTT-ATTTATTTCAGACTTCGATTCT-ATCT-AGGTCATTTTGTTTTGA
11797369 ATTT
62 ATTT
11797373 CAGCTTATGC
Statistics
Matches: 194, Mismatches: 31, Indels: 23
0.78 0.12 0.09
Matches are distributed among these distances:
84 5 0.03
85 102 0.53
86 86 0.44
87 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (85 bp):
TTTCACTCAGTCTAAGTTATTTATTTCAGACTTCGATTCTATCTAGGTCATTTTGTTTTGAATTT
TGACTTATGTCAAATCTTTC
Found at i:11797364 original size:86 final size:85
Alignment explanation
Indices: 11797226--11797408 Score: 228
Period size: 86 Copynumber: 2.1 Consensus size: 85
11797216 TCTTTCTTTT
* * *
11797226 ACTCAGTCTAAGTTATTCATTTTAGACTTTGATTCTATCTAGGTCATTTTGTTTTGGATTT-TGG
1 ACTCAGTCTAAGTTATTCATTTCAGACTTTGATTCTATCTAGGTCATTTTGTTTTGGATTTCAGC
11797290 TCTATGCCAAATTATTTTTCG
66 T-TATGCCAAATTATTTTTCG
* *
11797311 ACTCAGTCTAAGTTGTTTTATTTCAGACTTTGATT-TCAT-TCAGGTCATTTTGTTTTGGATTTC
1 ACTCAGTCTAAGTT-ATTCATTTCAGACTTTGATTCT-ATCT-AGGTCATTTTGTTTTGGATTTC
* * *
11797374 AGCTTATGCCAGATTCTTTTTTG
63 AGCTTATGCCAAATTATTTTTCG
*
11797397 ATTCAGTCTAAG
1 ACTCAGTCTAAG
11797409 ACTTCTATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
85 16 0.19
86 67 0.79
87 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.49
Consensus pattern (85 bp):
ACTCAGTCTAAGTTATTCATTTCAGACTTTGATTCTATCTAGGTCATTTTGTTTTGGATTTCAGC
TTATGCCAAATTATTTTTCG
Found at i:11797575 original size:85 final size:85
Alignment explanation
Indices: 11797407--11797608 Score: 203
Period size: 85 Copynumber: 2.4 Consensus size: 85
11797397 ATTCAGTCTA
* * * * *
11797407 AGACTTCTATTCCATCCAGGTCATTTTATTTTAGATTTTGACCTATGCCAGATCCTTGTTCGATT
1 AGACTTCTGTTCCATCCAAGTCATTTTGTTTCAGATTTTGACCTATGCCAGATCCTTCTTCGATT
** *
11797472 CAGTTTAAGTTATGCATTTC
66 CAGTCCAAATTATGCATTTC
* * * *
11797492 AGACTTTTGTTCCATCCAAGTCATTTTGTTTCGGATTTTGGCCTTTGCCA-AGTCCTTCTTCGAC
1 AGACTTCTGTTCCATCCAAGTCATTTTGTTTCAGATTTTGACCTATGCCAGA-TCCTTCTTCGA-
* *
11797556 TT-AGTCCAAATTATTCATTTT
64 TTCAGTCCAAATTATGCATTTC
* * * *
11797577 AGACATCGGTTCAATCTAAGTCA-TTTGTTTCA
1 AGACTTCTGTTCCATCCAAGTCATTTTGTTTCA
11797609 ACTTATGTCA
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
84 9 0.09
85 84 0.88
86 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (85 bp):
AGACTTCTGTTCCATCCAAGTCATTTTGTTTCAGATTTTGACCTATGCCAGATCCTTCTTCGATT
CAGTCCAAATTATGCATTTC
Found at i:11797805 original size:78 final size:78
Alignment explanation
Indices: 11797671--11797816 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 78
11797661 GATTTAGTCC
* * * *
11797671 AGGTCATTTTATTTTGGATTTCAGCCCATGTCAGATCTTTTTTCAGTTCAGTCCAAGTTA-TTCA
1 AGGTCATTTTATTTTGAATTTCAGCCCATGCCAGATCCTTTTTCAGTTCAGCCCAAGTTACTT-A
11797735 TTTTGGTTCTATAT
65 TTTTGGTTCTATAT
* *
11797749 AGGTCATTTTGTTTTGAATTT-TGACCCATGCCAGATCCTTTTTCAGTTCAGCCCAAGTTACTTA
1 AGGTCATTTTATTTTGAATTTCAG-CCCATGCCAGATCCTTTTTCAGTTCAGCCCAAGTTACTTA
11797813 TTTT
65 TTTT
11797817 AGACTTTGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 1 0.02
78 57 0.95
79 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (78 bp):
AGGTCATTTTATTTTGAATTTCAGCCCATGCCAGATCCTTTTTCAGTTCAGCCCAAGTTACTTAT
TTTGGTTCTATAT
Found at i:11797837 original size:85 final size:85
Alignment explanation
Indices: 11797736--11797899 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
11797726 AGTTATTCAT
* * **
11797736 TTTGGTTCTATATAGGTCATTTTGTTT-TGAATTTTGACCCATGCCAGATCCTTTTTC-AGTTCA
1 TTTGGTTCAATATAGGTCATTTTGTTTCAG-ATTTTGACCCATAACAGATCCTTTTTCGA-TTCA
11797799 GCCCAAGTTACTTATTTTAGAC
64 GCCCAAGTTACTTATTTTAGAC
* * *
11797821 TTTGGTTCAATTTAGGTCATTTTGTTTCAGATTTTGACCCCTAATAGATCCTTTTTCGATTCAGC
1 TTTGGTTCAATATAGGTCATTTTGTTTCAGATTTTGACCCATAACAGATCCTTTTTCGATTCAGC
* *
11797886 CTAAGTTATTTATT
66 CCAAGTTACTTATT
11797900 ACATACTTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 66 0.97
86 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (85 bp):
TTTGGTTCAATATAGGTCATTTTGTTTCAGATTTTGACCCATAACAGATCCTTTTTCGATTCAGC
CCAAGTTACTTATTTTAGAC
Found at i:11798957 original size:23 final size:21
Alignment explanation
Indices: 11798920--11798964 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
11798910 TATTTATCTA
11798920 TTTATTTATTAAATTGAAATCAT
1 TTTATTTATTAAATT-AAA-CAT
11798943 TTTATTTAATT-AATTAAACAT
1 TTTATTT-ATTAAATTAAACAT
11798964 T
1 T
11798965 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 3 0.14
23 11 0.52
24 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTATTTATTAAATTAAACAT
Found at i:11799127 original size:112 final size:115
Alignment explanation
Indices: 11798982--11799518 Score: 485
Period size: 112 Copynumber: 4.7 Consensus size: 115
11798972 TTTTCAATGA
* *
11798982 TTTTTTAAAAAT-AAAATTTCAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
1 TTTTTTTAAAATAAAAATTTCAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
*
11799046 AGAT-AAAATTTCAAAAAAATATATTCTAAGGAAAAGTTG-AA-A-CAATT
66 AAATAAAAATTTCAAAAAAATATATT-TAAGGAAAAGTTGAAAGATCAATT
* * * *
11799093 TTTTTTTTAAATAAAAATTTCAAAAAATACTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGA
1 TTTTTTTAAAATAAAAATTTCAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
* * * * *
11799158 AGAT-CAAATTTGAAAAAAATAAACTTTAAGGAAATGTTGAAAGTATCAATT
66 AAATAAAAATTTCAAAAAAATATA-TTTAAGGAAAAGTTGAAAG-ATCAATT
* * ** * * *
11799209 TTTTTTGAAAATAAAAATTTTTTAAAAAATGTTTTAAGAAAAAGTCGAAGGTATCAATTTTTCTA
1 TTTTTTTAAAATAAAAA--TTTCAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
* * *
11799274 AAAAATAAAAAATCTCAAAAAAA-ATATTTTAAGGAAAAGTTGAAAGTATCCATT
64 GAAAAT-AAAAATTTCAAAAAAATATA-TTTAAGGAAAAGTTGAAAG-ATCAATT
* * * *
11799328 TTTCTTAAAAATAAAAATTTC--AAAATGCTTTAAGAAAAATTTGAAAGTATCAATTTTTCTT-A
1 TTTTTTTAAAATAAAAATTTCAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
** *
11799390 ACAATAAAAATTTC---AAAAT-GCTGTAAGGAAAAGTTGAAAGTATCAA-T
66 A-AATAAAAATTTCAAAAAAATATATTTAAGGAAAAGTTGAAAG-ATCAATT
** * * * * * *
11799437 TTTCCTTAAAGATGAAATTTTCAAAAAAAATATTTTTTGAGAAAAAGTTGAGAGTATCGA-TTTT
1 TTTTTTTAAA-ATAAAAATTTC--AAAAAATA--CTTTAAGAAAAAGTTGAAAGTATCAATTTTT
11799501 CTTCGAAAATAAAAATTT
61 CTT-GAAAATAAAAATTT
11799519 TGAAAGATGT
Statistics
Matches: 354, Mismatches: 51, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
109 9 0.03
110 32 0.09
111 14 0.04
112 82 0.23
113 4 0.01
114 15 0.04
115 46 0.13
116 52 0.15
117 5 0.01
118 41 0.12
119 42 0.12
120 12 0.03
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (115 bp):
TTTTTTTAAAATAAAAATTTCAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
AAATAAAAATTTCAAAAAAATATATTTAAGGAAAAGTTGAAAGATCAATT
Found at i:11799285 original size:60 final size:58
Alignment explanation
Indices: 11798982--11799559 Score: 339
Period size: 55 Copynumber: 10.1 Consensus size: 58
11798972 TTTTCAATGA
* ** *
11798982 TTTT-TTAAAAAT-AAAA-TTTCAAAAAATACTTTAAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATTTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* * ** * *
11799037 TTTTCTTGAAGAT-AAAATTTCAAAAAAATATATTCTAAGGAAAAGTTG-AA--A-CAAT
1 TTTTCTTAAAAATAAAAATTTTTAAAAAATGT-TT-TAAGAAAAAGTTGAAAGTATCAAT
* ** * ** * *
11799092 TTTTTTTTTAAATAAAAA-TTTCAAAAAATACTTTAAGGAAAAGTTAAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATTTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * * ** ** * *
11799149 TTTCCTTGAAGAT-CAAATTTGAAAAAAATAAACTTTAAGGAAATGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATTTTTAAAAAAT--GTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * *
11799208 TTTTTTTGAAAATAAAAATTTTTTAAAAAATGTTTTAAGAAAAAGTCGAAGGTATCAAT
1 TTTTCTTAAAAATAAAAA-TTTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* *** * * *
11799267 TTTTCTAAAAAATAAAAAATCTCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCCAT
1 TTTTCTTAAAAAT-AAAAAT-TTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* * *
11799327 TTTTCTTAAAAATAAAAA--TTT-CAAAATGCTTTAAGAAAAATTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATTTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * * *
11799382 TTTTCTTAACAATAAAAA--TTT-CAAAATGCTGTAAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATTTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * * * * * *
11799437 TTTCCTTAAAGAT-GAAATTTTCAAAAAAAATATTTTTTGAGAAAAAGTTGAGAGTATCGA-
1 TTTTCTTAAAAATAAAAATTTT---TAAAAA-ATGTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * * * * *
11799497 TTTTCTTCGAAAATAAAAA-TTTTGAAAGATGTTTTTTGAGGAAAAGTTGAAATTACCAAT
1 TTTTCTT-AAAAATAAAAATTTTTAAAAAATG--TTTTAAGAAAAAGTTGAAAGTATCAAT
11799557 TTT
1 TTT
11799560 CTTTAAATAA
Statistics
Matches: 409, Mismatches: 86, Indels: 51
0.75 0.16 0.09
Matches are distributed among these distances:
53 12 0.03
54 7 0.02
55 116 0.28
56 21 0.05
57 33 0.08
58 7 0.02
59 108 0.26
60 63 0.15
61 39 0.10
62 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (58 bp):
TTTTCTTAAAAATAAAAATTTTTAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAAT
Found at i:11799559 original size:290 final size:286
Alignment explanation
Indices: 11799002--11799559 Score: 642
Period size: 290 Copynumber: 1.9 Consensus size: 286
11798992 ATAAAATTTC
* *
11799002 AAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAGATAAAATTTCAAAAAAATA
1 AAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC--AAAAATA
* * * * *
11799067 TATTCTAAGGAAAAGTTGAAACAATTTTTTTTTTAAATAAAAATTTCAAAAAATACTTTAAGGAA
64 GATTCTAAGAAAAAGTTGAAACAATTTTTTCTTAAAATAAAAATTTC-AAAAATACTGTAAGGAA
* * * *
11799132 AAGTTAAAAGTATCAATTTTCCTTGAAGATCAAATTTGAAAAAAATAAACTTTAAGGAAATGTTG
128 AAGTTAAAAGTATCAATTTTCCTTAAAGATCAAATTTAAAAAAAATAAACTTTAAGAAAAAGTTG
* * *
11799197 AAAGTATCAATTTTTTTTGAAAATAAAAATTTTTTAAAAAATGTTTTAAGAAAAAGTCGAAGGTA
193 AAAGTATCAATTTTCTTCGAAAATAAAAA-TTTTTAAAAAATGTTTTAAGAAAAAGTCGAAAGTA
*
11799262 TCAATTTTTCTAAAAAATAAAAAATCTCAA
257 CCAATTTTTCTAAAAAATAAAAAATCTCAA
* *
11799292 AAAAAATATTTTAAGGAAAAGTTGAAAGTATCCATTTTTCTTAAAAATAAAAATTTC-AAAAT-G
1 AAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTCAAAAATAG
* * *
11799355 CTT-TAAGAAAAATTTGAAAGTATCAA-TTTTTCTTAACAATAAAAATTTC-AAAATGCTGTAAG
65 ATTCTAAGAAAAAGTTG-AA--A-CAATTTTTTCTTAA-AATAAAAATTTCAAAAATACTGTAAG
* * *** *
11799417 GAAAAGTTGAAAGTATCAATTTTCCTTAAAGATGAAATTTTCAAAAAAAATATTTTTTGAGAAAA
125 GAAAAGTTAAAAGTATCAATTTTCCTTAAAGATCAAA-TTT-AAAAAAAATAAACTTTAAGAAAA
* * * * * * *
11799482 AGTTGAGAGTATCGATTTTCTTCGAAAATAAAAA-TTTTGAAAGATGTTTTTTGAGGAAAAGTTG
188 AGTTGAAAGTATCAATTTTCTTCGAAAATAAAAATTTTTAAAAAATG--TTTTAAGAAAAAGTCG
*
11799546 AAATTACCAATTTT
251 AAAGTACCAATTTT
11799560 CTTTAAATAA
Statistics
Matches: 224, Mismatches: 34, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
286 11 0.05
287 4 0.02
288 60 0.27
289 12 0.05
290 129 0.58
291 8 0.04
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (286 bp):
AAAAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAATAGA
TTCTAAGAAAAAGTTGAAACAATTTTTTCTTAAAATAAAAATTTCAAAAATACTGTAAGGAAAAG
TTAAAAGTATCAATTTTCCTTAAAGATCAAATTTAAAAAAAATAAACTTTAAGAAAAAGTTGAAA
GTATCAATTTTCTTCGAAAATAAAAATTTTTAAAAAATGTTTTAAGAAAAAGTCGAAAGTACCAA
TTTTTCTAAAAAATAAAAAATCTCAA
Found at i:11811129 original size:15 final size:15
Alignment explanation
Indices: 11811095--11811142 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11811085 AATCCATTTC
* *
11811095 TTAATCTCTTAAATTT
1 TTAATCTTTTTAA-TT
11811111 TTAATCTTATTT-ATT
1 TTAATCTT-TTTAATT
11811126 TTAATCTTTTTAATT
1 TTAATCTTTTTAATT
11811141 TT
1 TT
11811143 TTCAATCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 3 0.11
15 15 0.54
16 8 0.29
17 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATCTTTTTAATT
Found at i:11812415 original size:13 final size:13
Alignment explanation
Indices: 11812397--11812427 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11812387 TGTGTCAAAG
11812397 ATATTATTTTAAT
1 ATATTATTTTAAT
11812410 ATATTATTTTAAT
1 ATATTATTTTAAT
11812423 -TATTA
1 ATATTA
11812428 CTTAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATATTATTTTAAT
Found at i:11813836 original size:18 final size:18
Alignment explanation
Indices: 11813813--11813848 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11813803 AAAAACAATG
*
11813813 TAAAAAAGCCACAAAAAA
1 TAAAAAAGACACAAAAAA
*
11813831 TAAAAAAGACATAAAAAA
1 TAAAAAAGACACAAAAAA
11813849 AAGGAAATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.11, G:0.06, T:0.08
Consensus pattern (18 bp):
TAAAAAAGACACAAAAAA
Found at i:11815505 original size:20 final size:21
Alignment explanation
Indices: 11815480--11815518 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11815470 AAATTAAAGA
*
11815480 GCAAGAATTGA-AAAGAAATT
1 GCAAGAATTAACAAAGAAATT
11815500 GCAAGAATTAACAAAGAAA
1 GCAAGAATTAACAAAGAAA
11815519 AGTGAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (21 bp):
GCAAGAATTAACAAAGAAATT
Found at i:11817446 original size:44 final size:44
Alignment explanation
Indices: 11817383--11817470 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
11817373 CAAACTTTGT
*
11817383 TTTTGCTCACTTTTTTTCTTTTTCTTCC-TTTCTTTGCTTTTCAC
1 TTTTGCTCACTTTCTTTCTTTTTCTTCCTTTTC-TTGCTTTTCAC
11817427 TTTTGCTCACTTTCTTTCTTTTTCTTCCTTTTCTTGCTTTTCAC
1 TTTTGCTCACTTTCTTTCTTTTTCTTCCTTTTCTTGCTTTTCAC
11817471 CACTTAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 38 0.90
45 4 0.10
ACGTcount: A:0.05, C:0.26, G:0.05, T:0.65
Consensus pattern (44 bp):
TTTTGCTCACTTTCTTTCTTTTTCTTCCTTTTCTTGCTTTTCAC
Found at i:11817517 original size:21 final size:20
Alignment explanation
Indices: 11817481--11817525 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11817471 CACTTAATTA
*
11817481 TTTTTCTTTCATTTTTCATTC
1 TTTTTCTTTCAGTTTT-ATTC
* *
11817502 TTTTTCTTTTAGTTTTTTTC
1 TTTTTCTTTCAGTTTTATTC
11817522 TTTT
1 TTTT
11817526 GCAAGCTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTCAGTTTTATTC
Found at i:11820634 original size:3 final size:3
Alignment explanation
Indices: 11820628--11820665 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
11820618 TAGTATGCTT
11820628 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT
11820666 TTCTTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11821540 original size:14 final size:14
Alignment explanation
Indices: 11821523--11821552 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11821513 TTTCTTTTCC
11821523 TTTTTTA-TTTTAT
1 TTTTTTATTTTTAT
11821536 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
11821550 TTT
1 TTT
11821553 CATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:11821552 original size:13 final size:13
Alignment explanation
Indices: 11821523--11821611 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 13
11821513 TTTCTTTTCC
11821523 TTTTTTATTTTAT
1 TTTTTTATTTTAT
11821536 TTTTTTATTTTTAT
1 TTTTTTA-TTTTAT
**
11821550 TTTCATATTTTAAGTT
1 TTTTTTATTTT-A--T
11821566 TTGTTTTATTTTCAT
1 TT-TTTTATTTT-AT
**
11821581 AATTTTTGGTTTTCAT
1 --TTTTTTATTTT-AT
*
11821597 TTATTTATTTTAT
1 TTTTTTATTTTAT
11821610 TT
1 TT
11821612 AGTAATTCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
13 15 0.25
14 20 0.34
15 1 0.02
16 13 0.22
17 10 0.17
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:11821560 original size:19 final size:19
Alignment explanation
Indices: 11821524--11821575 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
11821514 TTCTTTTCCT
*
11821524 TTTTTATTTTATTTTTTTA
1 TTTTTATTTTATTATTTTA
11821543 TTTTTATTTTCA-TATTTTAA
1 TTTTTATTTT-ATTATTTT-A
* *
11821563 GTTTTGTTTTATT
1 TTTTTATTTTATT
11821576 TTCATAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTATTATTTTA
Found at i:11821592 original size:26 final size:25
Alignment explanation
Indices: 11821544--11821602 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
11821534 ATTTTTTTAT
*
11821544 TTTTATTTTCATATTTTAAGTTTTG
1 TTTTATTTTCATATTTTAAGTTTTC
**
11821569 TTTTATTTTCATAATTTTTGGTTTTC
1 TTTTATTTTCAT-ATTTTAAGTTTTC
*
11821595 ATTTATTT
1 TTTTATTT
11821603 ATTTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.69
Consensus pattern (25 bp):
TTTTATTTTCATATTTTAAGTTTTC
Found at i:11821777 original size:44 final size:43
Alignment explanation
Indices: 11821668--11821786 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 43
11821658 TTTTTTTGAA
11821668 AAAATGAAAATAACAAAAAACAAAAAAAAATATTTTCAAATAAGTTTTC
1 AAAAT-AAAAT-A-AAAAAACAAAAAAAAATATTTT---ATAAGTTTTC
*
11821717 AAAATAAAATAAAAAAACAAAAAAAAATCTTTT-TAAGTTTTC
1 AAAATAAAATAAAAAAACAAAAAAAAATATTTTATAAGTTTTC
*
11821759 AAAA-AAATATTTATAAAAACAAAAAAAA
1 AAAATAAA-A--TAAAAAAACAAAAAAAA
11821787 TCCTTTCAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
41 3 0.05
42 14 0.22
44 16 0.25
46 21 0.32
47 1 0.02
48 5 0.08
49 5 0.08
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.24
Consensus pattern (43 bp):
AAAATAAAATAAAAAAACAAAAAAAAATATTTTATAAGTTTTC
Found at i:11821798 original size:24 final size:25
Alignment explanation
Indices: 11821771--11821825 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
11821761 AAAAATATTT
11821771 ATAAAAACAAAAAAAATC-CTTTC-A
1 ATAAAAA-AAAAAAAATCTCTTTCAA
* *
11821795 ATAAATAAAAAAAAATCTTTTTCAA
1 ATAAAAAAAAAAAAATCTCTTTCAA
11821820 ATAAAA
1 ATAAAA
11821826 GTTCTTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 10 0.38
24 10 0.38
25 6 0.23
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (25 bp):
ATAAAAAAAAAAAAATCTCTTTCAA
Found at i:11826799 original size:33 final size:33
Alignment explanation
Indices: 11826748--11827036 Score: 196
Period size: 33 Copynumber: 8.8 Consensus size: 33
11826738 GCTAAACTGA
* * * *
11826748 CACCCAAATGAGAATTAAGCCTAATTTACCTAG
1 CACCTAAATGAGATTTAAGCCTAGTTTAGCTAG
* * *
11826781 CACCTAAATAAGATTTAAGCTTAATTTAGCTAG
1 CACCTAAATGAGATTTAAGCCTAGTTTAGCTAG
* * * * * *
11826814 CACCCATA-GATGA-TTAAGCCCAGTTAAGTTGG
1 CACCTAAATGA-GATTTAAGCCTAGTTTAGCTAG
* * *
11826846 CACCTATATGAGAATTAAGCCTAGTTTATCTAG
1 CACCTAAATGAGATTTAAGCCTAGTTTAGCTAG
* * * *
11826879 CACCTAGATGAGTTTTAA-ACTCAATTTAGCTAG
1 CACCTAAATGAGATTTAAGCCT-AGTTTAGCTAG
* * * *
11826912 CACCTAGATTAGA-TTAAACCTAGTTTAACTAG
1 CACCTAAATGAGATTTAAGCCTAGTTTAGCTAG
* * * *
11826944 CACCCAGATGAGATTTAAGTCTAGTTTAACTAG
1 CACCTAAATGAGATTTAAGCCTAGTTTAGCTAG
* * *
11826977 CACCTTAAATGAGTTTTAAGTCC-AGTTTAGTTGG
1 CACC-TAAATGAGATTTAAG-CCTAGTTTAGCTAG
* *
11827011 CA-C-AGATGAGATTTAAGCCCAGTTTA
1 CACCTAAATGAGATTTAAGCCTAGTTTA
11827037 ACTGTCATCT
Statistics
Matches: 203, Mismatches: 44, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
30 2 0.01
31 18 0.09
32 49 0.24
33 111 0.55
34 22 0.11
35 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (33 bp):
CACCTAAATGAGATTTAAGCCTAGTTTAGCTAG
Found at i:11826977 original size:65 final size:65
Alignment explanation
Indices: 11826748--11827039 Score: 193
Period size: 65 Copynumber: 4.5 Consensus size: 65
11826738 GCTAAACTGA
* * * * * *
11826748 CACCCAAATGAGAATTAAGCCTAATTTACCTAGCACCTAAATAAGATTTAAGCTTAATTTAGCTA
1 CACCCAGATGAGATTTAAGCCTAATTTAACTAGCACCTAAATAAGA-TTAAGCCTAGTTTAACTA
11826813 G
65 G
* * * * * * * *
11826814 CACCCATA-GATGA-TTAAGCC-CAGTTAAGTTGGCACCTATATGAGAATTAAGCCTAGTTTATC
1 CACCCAGATGA-GATTTAAGCCTAATTTAA-CTAGCACCTAAATAAG-ATTAAGCCTAGTTTAAC
11826876 TAG
63 TAG
* * * * * * *
11826879 CACCTAGATGAGTTTTAA-ACTCAATTTAGCTAGCACCTAGATTAGATTAAACCTAGTTTAACTA
1 CACCCAGATGAGATTTAAGCCT-AATTTAACTAGCACCTAAATAAGATTAAGCCTAGTTTAACTA
11826943 G
65 G
* * * * **
11826944 CACCCAGATGAGATTTAAGTCTAGTTTAACTAGCACCTTAAATGAGTTTTAAGTCC-AGTTTAGT
1 CACCCAGATGAGATTTAAGCCTAATTTAACTAGCACC-TAAATAAG-ATTAAG-CCTAGTTTAAC
*
11827008 TGG
63 TAG
* *
11827011 CA--CAGATGAGATTTAAGCCCAGTTTAACT
1 CACCCAGATGAGATTTAAGCCTAATTTAACT
11827040 GTCATCTAGG
Statistics
Matches: 177, Mismatches: 38, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
64 4 0.02
65 117 0.66
66 36 0.20
67 18 0.10
68 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (65 bp):
CACCCAGATGAGATTTAAGCCTAATTTAACTAGCACCTAAATAAGATTAAGCCTAGTTTAACTAG
Found at i:11827035 original size:98 final size:98
Alignment explanation
Indices: 11826748--11827039 Score: 290
Period size: 98 Copynumber: 3.0 Consensus size: 98
11826738 GCTAAACTGA
* * * * * * *
11826748 CACCCAAATGAGAATTAAGCCTAATTTACCTAGCACCTAAATAAGATTTAAGCTTAATTTAGCTA
1 CACCCAGATGAGAATTAAGCCTAGTTTAACTAGCACCTAAATGAGTTTTAAACTCAATTTAGCTA
* *
11826813 GCACCCATAGAT--GATTAAGCCCAG-TTAAGTTGG
66 GCA-CC-TAGATGAGATTAAGCCCAGTTTAA-CTAG
* * * *
11826846 CACCTATATGAGAATTAAGCCTAGTTTATCTAGCACCTAGATGAGTTTTAAACTCAATTTAGCTA
1 CACCCAGATGAGAATTAAGCCTAGTTTAACTAGCACCTAAATGAGTTTTAAACTCAATTTAGCTA
* * *
11826911 GCACCTAGATTAGATTAAACCTAGTTTAACTAG
66 GCACCTAGATGAGATTAAGCCCAGTTTAACTAG
* * * * *
11826944 CACCCAGATGAGATTTAAGTCTAGTTTAACTAGCACCTTAAATGAGTTTT-AAGTCCAGTTTAGT
1 CACCCAGATGAGAATTAAGCCTAGTTTAACTAGCACC-TAAATGAGTTTTAAACT-CAATTTAGC
*
11827008 TGGCA-C-AGATGAGATTTAAGCCCAGTTTAACT
64 TAGCACCTAGATGAGA-TTAAGCCCAGTTTAACT
11827040 GTCATCTAGG
Statistics
Matches: 162, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
96 5 0.03
97 9 0.06
98 122 0.75
99 26 0.16
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (98 bp):
CACCCAGATGAGAATTAAGCCTAGTTTAACTAGCACCTAAATGAGTTTTAAACTCAATTTAGCTA
GCACCTAGATGAGATTAAGCCCAGTTTAACTAG
Found at i:11827170 original size:22 final size:23
Alignment explanation
Indices: 11827116--11827174 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
11827106 AACTAACACA
* * *
11827116 TAAGCCCAGATTAGTTGGCACTT
1 TAAGCCTAGATTAGTTGACACTG
11827139 TAAGCCTAGATTAGTTGACAC-G
1 TAAGCCTAGATTAGTTGACACTG
*
11827161 TAGGCCTAGATTAG
1 TAAGCCTAGATTAG
11827175 CTGGCATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (23 bp):
TAAGCCTAGATTAGTTGACACTG
Found at i:11827994 original size:22 final size:22
Alignment explanation
Indices: 11827947--11827995 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11827937 TTGAGATTTG
* * *
11827947 TAAGATCTCTTAGCATAATCTC
1 TAAGTTCTCTAAGCAAAATCTC
11827969 TAAGTTCTCTAAGCAAAAT-TC
1 TAAGTTCTCTAAGCAAAATCTC
11827990 ATAAGT
1 -TAAGT
11827996 CTTTTGAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (22 bp):
TAAGTTCTCTAAGCAAAATCTC
Found at i:11828235 original size:46 final size:45
Alignment explanation
Indices: 11828187--11828466 Score: 251
Period size: 46 Copynumber: 6.1 Consensus size: 45
11828177 GTTATCGAGT
* *
11828187 TTTTGCTTAAATGAGCTTTTAAATTTATTTTCAAAAGTTGTTAAGT
1 TTTTGCTTAAA-GAGTTTTTAAATTTATTTTCAAAAGTTGTTAAGC
* * * *
11828233 TTTTGTTTAAAGGAGTTTTTAAATTTATTTTTAAAA-TTGTCAAACC
1 TTTTGCTTAAA-GAGTTTTTAAATTTATTTTCAAAAGTTGT-TAAGC
* * * * *
11828279 TTTTGCTTAAAGGAATTTTTAAATTTATTGTAAAAAGTTATTGAATC
1 TTTTGCTTAAA-GAGTTTTTAAATTTATTTTCAAAAGTTGTT-AAGC
* * * **
11828326 -TTTGTTTAAAGAAGCTTTTAAATTTATTTTTAAAA-TTGTCGAGC
1 TTTTGCTTAAAG-AGTTTTTAAATTTATTTTCAAAAGTTGTTAAGC
* * *
11828370 TTTTGCTTAAAAAAATTTTTAAATTTATTTTCATAAGTTGTTAAGC
1 TTTTGCTT-AAAGAGTTTTTAAATTTATTTTCAAAAGTTGTTAAGC
* * * *
11828416 ATTTACTTAAGAGAAGATTTTAAATTTATTTTCAAAAGTTGATAAGC
1 TTTTGCTTAA-AG-AGTTTTTAAATTTATTTTCAAAAGTTGTTAAGC
11828463 TTTT
1 TTTT
11828467 AAAAAGGAAG
Statistics
Matches: 186, Mismatches: 39, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
44 2 0.01
45 35 0.19
46 111 0.60
47 38 0.20
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (45 bp):
TTTTGCTTAAAGAGTTTTTAAATTTATTTTCAAAAGTTGTTAAGC
Found at i:11828249 original size:24 final size:24
Alignment explanation
Indices: 11828205--11828267 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
11828195 AAATGAGCTT
*
11828205 TTAAATTTATTTTCAAA--AGTTG
1 TTAAATTTATTTTTAAAGGAGTTG
* *
11828227 TTAAGTTT-TTGTTTAAAGGAGTTT
1 TTAAATTTATT-TTTAAAGGAGTTG
11828251 TTAAATTTATTTTTAAA
1 TTAAATTTATTTTTAAA
11828268 ATTGTCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 12 0.36
24 17 0.52
25 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (24 bp):
TTAAATTTATTTTTAAAGGAGTTG
Found at i:11828305 original size:92 final size:91
Alignment explanation
Indices: 11828187--11828452 Score: 318
Period size: 92 Copynumber: 2.9 Consensus size: 91
11828177 GTTATCGAGT
* ** * * *
11828187 TTTTGCTTAAATGAGCTTTTAAATTTATTTTCAAAAGTTGTTAAGTTTTTGTTTAAAGGAGTTTT
1 TTTTGCTTAAAAGAATTTTTAAATTTATTTTCAAAAGTTGTTAAGTATTTGTTTAAAGAAGATTT
11828252 TAAATTTATTTTTAAAATTGTCAAACC
66 TAAATTTATTTTTAAAATTGTC-AACC
* * * * * *
11828279 TTTTGCTTAAAGGAATTTTTAAATTTATTGTAAAAAGTTATTGAA-TCTTTGTTTAAAGAAGCTT
1 TTTTGCTTAAAAGAATTTTTAAATTTATTTTCAAAAGTTGTT-AAGTATTTGTTTAAAGAAGATT
* *
11828343 TTAAATTTATTTTTAAAATTGTCGAGC
65 TTAAATTTATTTTTAAAATTGTCAACC
* * * **
11828370 TTTTGCTTAAAAAAATTTTTAAATTTATTTTCATAAGTTGTTAAGCATTTACTTAAGAGAAGATT
1 TTTTGCTTAAAAGAATTTTTAAATTTATTTTCAAAAGTTGTTAAGTATTTGTTTAA-AGAAGATT
*
11828435 TTAAATTTATTTTCAAAA
65 TTAAATTTATTTTTAAAA
11828453 GTTGATAAGC
Statistics
Matches: 148, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
90 2 0.01
91 45 0.30
92 99 0.67
93 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (91 bp):
TTTTGCTTAAAAGAATTTTTAAATTTATTTTCAAAAGTTGTTAAGTATTTGTTTAAAGAAGATTT
TAAATTTATTTTTAAAATTGTCAACC
Found at i:11828437 original size:138 final size:138
Alignment explanation
Indices: 11828174--11828455 Score: 311
Period size: 138 Copynumber: 2.0 Consensus size: 138
11828164 TGAAAATTTT
* * * * *
11828174 AAAGTTATCGAGTTTTTGCTTAAATGAGCTTTTAAATTTATTTTCAAAAGTTGTTAAGTTTTTGT
1 AAAGTTATCGAATCTTTGCTTAAATGAGCTTTTAAATTTATTTTCAAAAGTTGTCAAGCTTTTGC
** * * * * *
11828239 TTAAAGGAGTTTTTAAATTTATTTTTAAAATTGTCAAACCTTTTGCTTAAAGGAATTTTTAAATT
66 TTAAAAAAATTTTTAAATTTATTTTCAAAATTGTCAAACCATTTACTTAAAGGAAATTTTAAATT
11828304 TATTGTAA
131 TATTGTAA
* * * *
11828312 AAAGTTATTGAATCTTTGTTTAAA-GAAGCTTTTAAATTTATTTTTAAAA-TTGTCGAGCTTTTG
1 AAAGTTATCGAATCTTTGCTTAAATG-AGCTTTTAAATTTATTTTCAAAAGTTGTCAAGCTTTTG
* * *
11828375 CTTAAAAAAATTTTTAAATTTATTTTCATAAGTTGT-TAAGCATTTACTT-AAGAGAAGATTTTA
65 CTTAAAAAAATTTTTAAATTTATTTTCA-AAATTGTCAAACCATTTACTTAAAG-GAA-ATTTTA
* *
11828438 AATTTATTTTCA
127 AATTTATTGTAA
11828450 AAAGTT
1 AAAGTT
11828456 GATAAGCTTT
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
136 3 0.03
137 47 0.39
138 69 0.58
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (138 bp):
AAAGTTATCGAATCTTTGCTTAAATGAGCTTTTAAATTTATTTTCAAAAGTTGTCAAGCTTTTGC
TTAAAAAAATTTTTAAATTTATTTTCAAAATTGTCAAACCATTTACTTAAAGGAAATTTTAAATT
TATTGTAA
Found at i:11828499 original size:17 final size:18
Alignment explanation
Indices: 11828477--11828539 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
11828467 AAAAAGGAAG
11828477 AAAAAAAAAACAA-AATA
1 AAAAAAAAAACAACAATA
* *
11828494 AAAAAAAACACACAATAAGA
1 AAAAAAAA-A-ACAACAATA
11828514 ACAAAACAAAAACAACAATA
1 A-AAAA-AAAAACAACAATA
11828534 AAAAAA
1 AAAAAA
11828540 TTCAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 8 0.21
18 2 0.05
19 8 0.21
20 12 0.32
21 5 0.13
22 3 0.08
ACGTcount: A:0.81, C:0.13, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAACAACAATA
Found at i:11828607 original size:24 final size:25
Alignment explanation
Indices: 11828571--11828626 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
11828561 AAGATAAAAG
11828571 AGAAAATAAAAAAAAATCAAATTTCA
1 AGAAAAT-AAAAAAAATCAAATTTCA
11828597 AGAAAAT-AAAAAAATCAAATTTCA
1 AGAAAATAAAAAAAATCAAATTTCA
11828621 A-AAAAT
1 AGAAAAT
11828627 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.17
24 18 0.60
26 7 0.23
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (25 bp):
AGAAAATAAAAAAAATCAAATTTCA
Found at i:11836897 original size:37 final size:37
Alignment explanation
Indices: 11836855--11836962 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 37
11836845 AAGATAATAT
*
11836855 ATGCATTCCATTTCATCCACATCTTAATAGGTAGTAC
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
* ** * **
11836892 GTGCATTATATTTCATGCACACCTTAATAAATAGTAC
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
*
11836929 ATGCATTCCATCTCATGCACATCTTAAT-GGTAGT
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGT
11836963 GTGCACCTCA
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
36 4 0.07
37 53 0.93
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (37 bp):
ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
Found at i:11840445 original size:23 final size:22
Alignment explanation
Indices: 11840419--11840461 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11840409 AAAGAGCAAA
*
11840419 AAAGAATAAAAAAATAAAAAAAT
1 AAAGAAGAAAAAAA-AAAAAAAT
*
11840442 AAAGAAGAAAAAGAAAAAAA
1 AAAGAAGAAAAAAAAAAAAA
11840462 GTGAATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAGAAGAAAAAAAAAAAAAAT
Found at i:11840453 original size:16 final size:16
Alignment explanation
Indices: 11840416--11840461 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11840406 AAAAAAGAGC
11840416 AAAAAAGAATAAAAAA
1 AAAAAAGAATAAAAAA
*
11840432 ATAAAAA-AATAAAGAA
1 A-AAAAAGAATAAAAAA
*
11840448 GAAAAAGAA-AAAAA
1 AAAAAAGAATAAAAA
11840462 GTGAATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.36
16 11 0.44
17 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (16 bp):
AAAAAAGAATAAAAAA
Found at i:11847808 original size:233 final size:231
Alignment explanation
Indices: 11847291--11847904 Score: 681
Period size: 233 Copynumber: 2.7 Consensus size: 231
11847281 ATTTAAAAGC
* ** * ** *
11847291 TTGTGACATTTATGTTATCATCATATAACAAGATACATTAACATGATGAAATTGCAATGTTATTA
1 TTGTGACATTTATGTTATCGTCATATAACACCATACATTGACATGATGAAATTATAATGTAATTA
* *
11847356 ATAATTAACTAAAGTGTTCAATTTATGATAAAAATTAATAATATCACCTAAAATCAATAAAAAAA
66 ATAGTTAACTAAAGTGTTCAATTTGTGA-AAAAATTAATAA-ATCACCT-AAATCAATAAAAAAA
** * * * *
11847421 ATTCATCACAGATAAAATTTTAAATTGATGACAAATTATAACAGCACCTAAAATAAAAGATATCA
128 ATAAATCACAAATAAAATTATAAATTGATGACAAATCATAACAGCACCTAAAATAAAAAATATCA
* * *
11847486 CTAAAAATTTTCCCACCAAATAAATTTGGTTGTAAAAAT
193 CAAAAAAATTTCCCACCAAATAAATTTAGTTGTAAAAAT
* * * * *
11847525 TTGTAACATTTATGTTATTGTTATATAACACCATATATTGACATGATGAAATTATAATGTCATTA
1 TTGTGACATTTATGTTATCGTCATATAACACCATACATTGACATGATGAAATTATAATGTAATTA
* **
11847590 ATAGTTAACTAAAGTGTTCAATGTGTGACAAAAATTAATAACATCACCTAAATTTATAAAAAAAA
66 ATAGTTAACTAAAGTGTTCAATTTGTGA-AAAAATTAATAA-ATCACCTAAATCAATAAAAAAAA
* * * *** *
11847655 -AAATCACAAATTATATTATAAATTGGTGACAAAATCATAACATTGCCTAAAATAAAAAATGTCA
129 TAAATCACAAATAAAATTATAAATTGATGAC-AAATCATAACAGCACCTAAAATAAAAAATATCA
* *
11847719 CAAAAAAATTTCCCACTAAATAAATTTAG-TGCTAAAATT
193 CAAAAAAATTTCCCACCAAATAAATTTAGTTG-TAAAAAT
*
11847758 TTGTGACATTTATGTTATCGTCATATAACACCATACATTGACACGATG-AA--AT--TGTAATTA
1 TTGTGACATTTATGTTATCGTCATATAACACCATACATTGACATGATGAAATTATAATGTAATTA
* *
11847818 CTAGTTAACTAAAGTGTTTAATTTGTG--AAAATTAATAAAGTCACCTAAAATCTAA-AAGAAAA
66 ATAGTTAACTAAAGTGTTCAATTTGTGAAAAAATTAATAAA-TCACCT-AAATC-AATAA-AAAA
** * *
11847880 AATTCATCACAGATAAAATTTTAAA
127 AATAAATCACAAATAAAATTATAAA
11847905 GTGGTTACAA
Statistics
Matches: 320, Mismatches: 53, Indels: 20
0.81 0.13 0.05
Matches are distributed among these distances:
224 1 0.00
225 17 0.05
226 6 0.02
227 7 0.02
228 47 0.15
230 2 0.01
232 27 0.08
233 115 0.36
234 98 0.31
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (231 bp):
TTGTGACATTTATGTTATCGTCATATAACACCATACATTGACATGATGAAATTATAATGTAATTA
ATAGTTAACTAAAGTGTTCAATTTGTGAAAAAATTAATAAATCACCTAAATCAATAAAAAAAATA
AATCACAAATAAAATTATAAATTGATGACAAATCATAACAGCACCTAAAATAAAAAATATCACAA
AAAAATTTCCCACCAAATAAATTTAGTTGTAAAAAT
Found at i:11848066 original size:123 final size:123
Alignment explanation
Indices: 11847845--11848078 Score: 342
Period size: 123 Copynumber: 1.9 Consensus size: 123
11847835 TTAATTTGTG
* *
11847845 AAAATTAATAAAGTCACCTAAAATCTAAAAGAAAAAATTCATCACAGATAAAATTTTAAAGTGGT
1 AAAATTAATAAAGTCACATAAAATCTAAAAGAAAAAATTCATCACAAATAAAATTTTAAAGTGGT
* * * * *
11847910 TACAAAATTATAATGTCACGTAAAATAATAAAAACGTCATAAAAAAAATTGTGACATT
66 AACAAAATGATAACGTCACATAAAATAAAAAAAACGTCATAAAAAAAATTGTGACATT
* * * **
11847968 AAAATTAATAATGTCACATGAAATCTATAAGAAAAAATTCATCACAAATAAAATTTTAATTTGGT
1 AAAATTAATAAAGTCACATAAAATCTAAAAGAAAAAATTCATCACAAATAAAATTTTAAAGTGGT
* *
11848033 AACAAAATGATAACGTCACATAAAATAAAAAAAATGTGATAAAAAA
66 AACAAAATGATAACGTCACATAAAATAAAAAAAACGTCATAAAAAA
11848079 GTTTCTCACC
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.26
Consensus pattern (123 bp):
AAAATTAATAAAGTCACATAAAATCTAAAAGAAAAAATTCATCACAAATAAAATTTTAAAGTGGT
AACAAAATGATAACGTCACATAAAATAAAAAAAACGTCATAAAAAAAATTGTGACATT
Found at i:11856322 original size:10 final size:10
Alignment explanation
Indices: 11856307--11856336 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11856297 ATAATACATA
*
11856307 CATGAAGTTG
1 CATGAAATTG
11856317 CATGAAATTG
1 CATGAAATTG
11856327 CATGAAATTG
1 CATGAAATTG
11856337 AAAGCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (10 bp):
CATGAAATTG
Found at i:11857833 original size:16 final size:15
Alignment explanation
Indices: 11857812--11857850 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11857802 ATTAAATATA
11857812 AAAATATATATATAAT
1 AAAATATATA-ATAAT
*
11857828 AAAATAAATAATAAT
1 AAAATATATAATAAT
11857843 AACAATAT
1 AA-AATAT
11857851 TTAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:11857923 original size:17 final size:18
Alignment explanation
Indices: 11857892--11857929 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
11857882 CATATTTATT
11857892 AAAAATAAAAAAAATACA
1 AAAAATAAAAAAAATACA
*
11857910 AAAAAT-AAATAAATACA
1 AAAAATAAAAAAAATACA
11857927 AAA
1 AAA
11857930 CCTAGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAATAAAAAAAATACA
Found at i:11860844 original size:77 final size:79
Alignment explanation
Indices: 11860727--11860900 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 79
11860717 AAAAACGCTG
* * *
11860727 CTAAATTTAATGGCA--TTTTTGT-ACACAAATGCCACAAATTATA-AAA-TTAGCGAC-TTTCT
1 CTAAATTTAGTGGCATTTTTTTTTAACACAAATGCCACAAATTA-AGAAATTTAGCGACGTTT-A
* * *
11860786 TGT-TAGAAAACGCCA
64 TGTCAAAAAAACACCA
* * *
11860801 CTAAATTTAGTGGCCTTTTTTTTTAACACAAATGCCGCTAATTAAGAAATTTAGCGACGTTTATG
1 CTAAATTTAGTGGCATTTTTTTTTAACACAAATGCCACAAATTAAGAAATTTAGCGACGTTTATG
11860866 TCAAAAAAACACCA
66 TCAAAAAAACACCA
*
11860880 TTAAATTTAGTGGCATTTTTT
1 CTAAATTTAGTGGCATTTTTT
11860901 GACACAAACG
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
74 13 0.16
76 7 0.09
77 20 0.24
78 11 0.13
79 31 0.38
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (79 bp):
CTAAATTTAGTGGCATTTTTTTTTAACACAAATGCCACAAATTAAGAAATTTAGCGACGTTTATG
TCAAAAAAACACCA
Found at i:11863364 original size:15 final size:16
Alignment explanation
Indices: 11863344--11863378 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11863334 TCGTTTTGTT
*
11863344 AAAATAACAAAT-ATA
1 AAAATAAAAAATAATA
11863359 AAAATAAAAAATAATA
1 AAAATAAAAAATAATA
11863375 AAAA
1 AAAA
11863379 AATTATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:11863852 original size:17 final size:19
Alignment explanation
Indices: 11863814--11863852 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11863804 TGTGTCGGAG
*
11863814 AATTTGAAGATATTTCTTT
1 AATTTGAAGATATTTCTAT
11863833 AATTTGAAGAT-TTTC-AT
1 AATTTGAAGATATTTCTAT
11863850 AAT
1 AAT
11863853 ACTCCTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (19 bp):
AATTTGAAGATATTTCTAT
Found at i:11867661 original size:39 final size:39
Alignment explanation
Indices: 11867618--11867692 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
11867608 CCATACAACT
* * *
11867618 TTTCACATTTGTTGGACCTTCTGTTAGTCAACCCTAGTC
1 TTTCACATTTGTTAGACCATCTGCTAGTCAACCCTAGTC
*
11867657 TTTCACTTTTGTTAGACCATCTGCTAGTCAACCCTA
1 TTTCACATTTGTTAGACCATCTGCTAGTCAACCCTA
11867693 AGTACATGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (39 bp):
TTTCACATTTGTTAGACCATCTGCTAGTCAACCCTAGTC
Found at i:11869930 original size:38 final size:38
Alignment explanation
Indices: 11869888--11869965 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
11869878 ATTAAACATA
*
11869888 ATATTTCTGTAAAAAATGTGGATCATATGGTGAGGAAT
1 ATATTTCTGTAAAAAATATGGATCATATGGTGAGGAAT
* *
11869926 ATATTTCTGTATAGAATATGGATCATATGGTGAGGAAT
1 ATATTTCTGTAAAAAATATGGATCATATGGTGAGGAAT
11869964 AT
1 AT
11869966 TATAGCCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (38 bp):
ATATTTCTGTAAAAAATATGGATCATATGGTGAGGAAT
Done.