Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 57 of 74
Found at i:11375222 original size:57 final size:56
Alignment explanation
Indices: 11375044--11375211 Score: 216
Period size: 56 Copynumber: 2.9 Consensus size: 56
11375034 TGCTTTCATA
**
11375044 TAAAAAAATTGATACTTTCAACTTTTTCTTTAAAATATTTTTCTTGATAATTTTATTTT
1 TAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT-TT--TAATTTTATTTT
11375103 TAAGAAAAAATTG-TACTTTCAA-TTTTTCCTCAAAAATATTTTATTTT-ATTTTATTTT
1 T-A-AAAAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTT-TTTTAATTTTATTTT
*
11375160 TAAAAAAATTGATACTTTTAACTTTTTCTCAAAAATATATTTTTTTAATTTT
1 TAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTTAATTTT
11375212 TATGTTAAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
55 9 0.09
56 24 0.24
57 24 0.24
58 1 0.01
59 6 0.06
60 24 0.24
61 10 0.10
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (56 bp):
TAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTAATTTTATTTT
Found at i:11375446 original size:46 final size:46
Alignment explanation
Indices: 11375379--11375472 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
11375369 GGAACCTGGC
11375379 AGCGGGTTGGCTCTCAGGCGCAGGTTTCGGATCCAAATATGGGTTG
1 AGCGGGTTGGCTCTCAGGCGCAGGTTTCGGATCCAAATATGGGTTG
11375425 AGCGGGTTGGCTCTCAGGCGCAGGTTTCGGATCCAAATATGGGTTG
1 AGCGGGTTGGCTCTCAGGCGCAGGTTTCGGATCCAAATATGGGTTG
11375471 AG
1 AG
11375473 GCGCGGGTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.18, C:0.19, G:0.37, T:0.26
Consensus pattern (46 bp):
AGCGGGTTGGCTCTCAGGCGCAGGTTTCGGATCCAAATATGGGTTG
Found at i:11376580 original size:125 final size:124
Alignment explanation
Indices: 11376370--11376595 Score: 353
Period size: 125 Copynumber: 1.8 Consensus size: 124
11376360 GCACTAAAAT
** ** *
11376370 ATTGCAAATTGCAATGTGGAACAGCTAAAAAGCTATAAAGAAAGGACTTTTTGCAATGTGATGAG
1 ATTGCAAATTGCAATGCAGAACAGCTAAAAAGCTATAAAGAAAGGACTTTGGGCAATGTGATGAA
*
11376435 TGATTCAATTTCTTTGCCATCGGCTTAAATAAAAAATCCTTAGCTCTAAAATATTGCAA
66 TGATTCAATTTCTTTGCCATCAGCTTAAATAAAAAATCCTTAGCTCTAAAATATTGCAA
* *
11376494 ATTGCAAATTGCAATGCAGAACAGCTAAAAAGTTATAAAAGAAAGGACTTTGGGCGATGTGATGA
1 ATTGCAAATTGCAATGCAGAACAGCTAAAAAGCTAT-AAAGAAAGGACTTTGGGCAATGTGATGA
* *
11376559 ATGATTCAATTTTTTTTCCATCAGCTTAAATAAAAAA
65 ATGATTCAATTTCTTTGCCATCAGCTTAAATAAAAAA
11376596 CATTTTTTGC
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
124 33 0.36
125 58 0.64
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (124 bp):
ATTGCAAATTGCAATGCAGAACAGCTAAAAAGCTATAAAGAAAGGACTTTGGGCAATGTGATGAA
TGATTCAATTTCTTTGCCATCAGCTTAAATAAAAAATCCTTAGCTCTAAAATATTGCAA
Found at i:11381467 original size:20 final size:20
Alignment explanation
Indices: 11381433--11381493 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
11381423 ACTATCACAC
11381433 AAAAGTATCAAGCAATAATAT
1 AAAA-TATCAAGCAATAATAT
* *
11381454 AAAATATCATGCAATGATAT
1 AAAATATCAAGCAATAATAT
*
11381474 AAAATATCAACCAATAATAT
1 AAAATATCAAGCAATAATAT
11381494 CATGCAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAATATCAAGCAATAATAT
Found at i:11381516 original size:19 final size:19
Alignment explanation
Indices: 11381492--11381556 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
11381482 AACCAATAAT
11381492 ATCATGCAAATAATAATTA
1 ATCATGCAAATAATAATTA
* *
11381511 ATCATGGAAATAA-AATCAA
1 ATCATGCAAATAATAAT-TA
* *
11381530 AACATGCAAAAAATAATTA
1 ATCATGCAAATAATAATTA
11381549 ATCATGCA
1 ATCATGCA
11381557 GTTGAATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 3 0.08
19 31 0.84
20 3 0.08
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (19 bp):
ATCATGCAAATAATAATTA
Found at i:11381588 original size:24 final size:24
Alignment explanation
Indices: 11381547--11381687 Score: 124
Period size: 24 Copynumber: 5.8 Consensus size: 24
11381537 AAAAAATAAT
** *
11381547 TAATCATGCAGTTGAATATATTAA
1 TAATCATGCAAATAAATATATTAA
* *
11381571 TAACCATGTAAATAAATATATTAA
1 TAATCATGCAAATAAATATATTAA
* *
11381595 TAATCATGCAACTAATTATATTAA
1 TAATCATGCAAATAAATATATTAA
* * *
11381619 TAATCATGC-AATTAAT-TAATGA
1 TAATCATGCAAATAAATATATTAA
*
11381641 TCATGCAATTAGACAAATAAATATATTAA
1 TAAT-C-A-T-G-CAAATAAATATATTAA
11381670 TAATCATGCAAATAAATA
1 TAATCATGCAAATAAATA
11381688 GTAATCATGC
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
22 7 0.08
23 5 0.05
24 59 0.65
25 2 0.02
26 2 0.02
27 2 0.02
28 7 0.08
29 7 0.08
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (24 bp):
TAATCATGCAAATAAATATATTAA
Found at i:11381638 original size:19 final size:20
Alignment explanation
Indices: 11381587--11381651 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 20
11381577 TGTAAATAAA
11381587 TATATTAATAATCATGCAACTAAT
1 TATATTAATAATCATG---C-AAT
11381611 TATATTAATAATCATGCAAT
1 TATATTAATAATCATGCAAT
*
11381631 TA-ATTAATGATCATGCAAT
1 TATATTAATAATCATGCAAT
11381650 TA
1 TA
11381652 GACAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 18 0.45
20 5 0.12
21 1 0.03
24 16 0.40
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (20 bp):
TATATTAATAATCATGCAAT
Found at i:11381695 original size:51 final size:50
Alignment explanation
Indices: 11381561--11381699 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 50
11381551 CATGCAGTTG
* * * * *
11381561 AATATATTAATAACCATGTAAATAAATATATTAAT--AATCATGCAACTA
1 AATATATTAATAATCATGCAAATAAATATAATCATGCAATCATGCAAATA
* * * * *
11381609 ATTATATTAATAATCATGCAATTAATTAATGATCATGCAATTA-GACAAATA
1 AATATATTAATAATCATGCAAATAAAT-ATAATCATGCAATCATG-CAAATA
11381660 AATATATTAATAATCATGCAAATAAATAGTAATCATGCAA
1 AATATATTAATAATCATGCAAATAAATA-TAATCATGCAA
11381700 CTATTGATAA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
48 22 0.31
49 5 0.07
50 2 0.03
51 43 0.60
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (50 bp):
AATATATTAATAATCATGCAAATAAATATAATCATGCAATCATGCAAATA
Found at i:11381865 original size:8 final size:8
Alignment explanation
Indices: 11381832--11381915 Score: 60
Period size: 8 Copynumber: 10.0 Consensus size: 8
11381822 AATCAATAAT
11381832 AAATAATAA
1 AAATAA-AA
* *
11381841 TAATAATA
1 AAATAAAA
*
11381849 AAACAAAA
1 AAATAAAA
11381857 AAAGTAAAA
1 AAA-TAAAA
*
11381866 AAATAAAC
1 AAATAAAA
* *
11381874 AGAGAAAA
1 AAATAAAA
*
11381882 AAATAAGA
1 AAATAAAA
11381890 AAATAAAA
1 AAATAAAA
*
11381898 TAAAAATAAA
1 -AAATA-AAA
11381908 AAATAAAA
1 AAATAAAA
11381916 TGGAAAATCG
Statistics
Matches: 56, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
8 33 0.59
9 20 0.36
10 3 0.05
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:11381902 original size:18 final size:18
Alignment explanation
Indices: 11381826--11381916 Score: 69
Period size: 19 Copynumber: 4.8 Consensus size: 18
11381816 TAATTCAATC
* *
11381826 AATAATAAATAATAATAAT
1 AATAAAAAATAA-AATAAA
*
11381845 AATAAAACAAAAAAAGTAAA
1 AATAAAA-AATAAAA-TAAA
* *
11381865 AA-AATAAACAGAGAA-AAA
1 AATAA-AAA-ATAAAATAAA
11381883 AATAAGAAAATAAAATAAA
1 AATAA-AAAATAAAATAAA
11381902 AATAAAAAATAAAAT
1 AATAAAAAATAAAAT
11381917 GGAAAATCGA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
18 19 0.33
19 24 0.41
20 15 0.26
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.16
Consensus pattern (18 bp):
AATAAAAAATAAAATAAA
Found at i:11381910 original size:13 final size:13
Alignment explanation
Indices: 11381826--11381915 Score: 51
Period size: 13 Copynumber: 6.5 Consensus size: 13
11381816 TAATTCAATC
*
11381826 AATAATAAAT-AAT
1 AATAA-AAATAAAA
*
11381839 AATAATAATAAAA
1 AATAAAAATAAAA
11381852 CAA-AAAAAGTAAAAA
1 -AATAAAAA-T-AAAA
*
11381867 AATAAACAGAGAAAAA
1 AATAAA-A-A-TAAAA
*
11381883 AATAAGAAA-ATAA
1 AATAA-AAATAAAA
11381896 AATAAAAATAAAA
1 AATAAAAATAAAA
11381909 AATAAAA
1 AATAAAA
11381916 TGGAAAATCG
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 6 0.10
13 29 0.47
14 5 0.08
15 8 0.13
16 11 0.18
17 3 0.05
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:11381923 original size:19 final size:19
Alignment explanation
Indices: 11381880--11381916 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
11381870 AAACAGAGAA
11381880 AAAAATAAGAAAATAAAAT
1 AAAAATAAGAAAATAAAAT
11381899 AAAAATAA-AAAATAAAAT
1 AAAAATAAGAAAATAAAAT
11381917 GGAAAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAATAAGAAAATAAAAT
Found at i:11384336 original size:22 final size:21
Alignment explanation
Indices: 11384311--11384351 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11384301 GGTAGAGGTA
*
11384311 AAGAAAGGCCATTCTAATGGAT
1 AAGAAAGG-CAATCTAATGGAT
*
11384333 AAGAGAGGCAATCTAATGG
1 AAGAAAGGCAATCTAATGG
11384352 TGAGCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AAGAAAGGCAATCTAATGGAT
Found at i:11388850 original size:254 final size:254
Alignment explanation
Indices: 11388346--11388857 Score: 744
Period size: 255 Copynumber: 2.0 Consensus size: 254
11388336 CCTTGCGCTT
* * * *
11388346 TCTTCTCCATGCCCAAGTCTTTAACCTTTCTCTTGAACTGATCTTCATCTAAACAATTTCCATTC
1 TCTTCTCCATACCCAAGTCTTCAACCTTTCTCCTGAACTGATCTTCATCTAAACAATTTACATTC
* * * *
11388411 TTAACTTTCTGCTCAAACTCATTTGCTCACTCATTCCAAAAACCTTTTCCCCTGCTTCCCACCTT
66 TTAACTTTCTGCTCAAACTCAGTTGCTCACTCATTCCAAAAACCCTTTCCCCTACTTCCCACATT
* * * * *
11388476 GCTGCTTTTGCATTTTTCTAAGCTGGTTTTAGTCCCCTTGTTTTGTTTTTCCCCTTTGTTTTTCT
131 GCTGCTTTTGCATTTTTCTAACCTAGTTGTAGTCCCCTTGTTCTGTTTTTCCCCTTTGTTTATCT
* * * *
11388541 CTGGTTTCCTCATTCATAGCTACTGGACATGAAGACGAGTCTGTCCAAGCCATTTCTTG
196 CTGGTTCCCTCATTCATAGCTACTGGACAGGAAGACAAGTCTGTCCAAACCATTTCTTG
* *
11388600 TCTTCTCTATACCCAAAG-CTTCAACCTTTCTCCTGAACTGATCTTTC-TCTAAAACAATTTACT
1 TCTTCTCCATACCC-AAGTCTTCAACCTTTCTCCTGAACTGATC-TTCATCT-AAACAATTTACA
* *
11388663 TTCTTAACTTTCTGCTCAAACTCAGTTGCTCATTCATTCGAAAAACCCTTTCCCCTACTTCCCAC
63 TTCTTAACTTTCTGCTCAAACTCAGTTGCTCACTCATTCCAAAAACCCTTTCCCCTACTTCCCAC
* *
11388728 ATTGCTGCTTTTGCCTTTTTCTAACCTAGTTGTAGTCCCCTTGTTCTG-TTTTCCTCTTTGTTTA
128 ATTGCTGCTTTTGCATTTTTCTAACCTAGTTGTAGTCCCCTTGTTCTGTTTTTCCCCTTTGTTTA
*
11388792 TCTCTGGTTCCCTCATTCATAGCTGCTGGATC-GGAAGACAAGTCTGTCCAAACCATTTCTTG
193 TCTCTGGTTCCCTCATTCATAGCTACTGGA-CAGGAAGACAAGTCTGTCCAAACCATTTCTTG
11388854 TCTT
1 TCTT
11388858 TACCGATAAC
Statistics
Matches: 230, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
254 111 0.48
255 119 0.52
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.41
Consensus pattern (254 bp):
TCTTCTCCATACCCAAGTCTTCAACCTTTCTCCTGAACTGATCTTCATCTAAACAATTTACATTC
TTAACTTTCTGCTCAAACTCAGTTGCTCACTCATTCCAAAAACCCTTTCCCCTACTTCCCACATT
GCTGCTTTTGCATTTTTCTAACCTAGTTGTAGTCCCCTTGTTCTGTTTTTCCCCTTTGTTTATCT
CTGGTTCCCTCATTCATAGCTACTGGACAGGAAGACAAGTCTGTCCAAACCATTTCTTG
Found at i:11396306 original size:15 final size:15
Alignment explanation
Indices: 11396286--11396315 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11396276 TCACAAAATG
11396286 GATATAAAAGGATTA
1 GATATAAAAGGATTA
11396301 GATATAAAAGGATTA
1 GATATAAAAGGATTA
11396316 TTGCTTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (15 bp):
GATATAAAAGGATTA
Found at i:11396424 original size:7 final size:7
Alignment explanation
Indices: 11396412--11396440 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11396402 TTTTTTCTCA
11396412 TTATATT
1 TTATATT
11396419 TTATATT
1 TTATATT
11396426 TTATATT
1 TTATATT
11396433 TTAT-TT
1 TTATATT
11396439 TT
1 TT
11396441 GGTTTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATATT
Found at i:11397781 original size:17 final size:18
Alignment explanation
Indices: 11397756--11397789 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11397746 ATTTTTGTTA
11397756 TTTTGAAAA-TTTCAATG
1 TTTTGAAAATTTTCAATG
*
11397773 TTTTTAAAATTTTCAAT
1 TTTTGAAAATTTTCAAT
11397790 AAATTATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTGAAAATTTTCAATG
Found at i:11400086 original size:19 final size:19
Alignment explanation
Indices: 11400064--11400116 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
11400054 AATTAATTAA
*
11400064 AAATAATATTGTATTTATT
1 AAATAAAATTGTATTTATT
11400083 AAATAAAATTGTATTTATT
1 AAATAAAATTGTATTTATT
*
11400102 AAATAAAATTATATT
1 AAATAAAATTGTATT
11400117 ATTTGCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
AAATAAAATTGTATTTATT
Found at i:11409117 original size:16 final size:17
Alignment explanation
Indices: 11409091--11409125 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
11409081 TACCTAATAT
11409091 TTTATTTGTGTGATTTA
1 TTTATTTGTGTGATTTA
11409108 TTTA-TTGTGTGATTTA
1 TTTATTTGTGTGATTTA
11409124 TT
1 TT
11409126 AGTTATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (17 bp):
TTTATTTGTGTGATTTA
Found at i:11409157 original size:20 final size:20
Alignment explanation
Indices: 11409132--11409309 Score: 147
Period size: 20 Copynumber: 9.2 Consensus size: 20
11409122 TATTAGTTAT
*
11409132 ATGATTATTAATATAATTAC
1 ATGATTATTAATATAATTGC
11409152 ATGA-T-TT-AT-TAATTGC
1 ATGATTATTAATATAATTGC
*
11409168 ATGATTAATT-ATATATTTGC
1 ATGATT-ATTAATATAATTGC
*
11409188 ATGATTATTTAT-TAATTGC
1 ATGATTATTAATATAATTGC
* * *
11409207 ATGATTAATAATATATTTAC
1 ATGATTATTAATATAATTGC
*
11409227 ATGATTATTTAT-TAATTGC
1 ATGATTATTAATATAATTGC
* * * *
11409246 AAGATTAATACTATATTTGC
1 ATGATTATTAATATAATTGC
* *
11409266 ATGATTATTGAT-TATTTGC
1 ATGATTATTAATATAATTGC
* * *
11409285 TTGATTTTTAATATATTTGC
1 ATGATTATTAATATAATTGC
11409305 ATGAT
1 ATGAT
11409310 ACATTTGCAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
16 10 0.08
17 3 0.02
18 2 0.02
19 53 0.42
20 58 0.46
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (20 bp):
ATGATTATTAATATAATTGC
Found at i:11409157 original size:36 final size:36
Alignment explanation
Indices: 11409117--11409309 Score: 163
Period size: 39 Copynumber: 5.1 Consensus size: 36
11409107 ATTTATTGTG
* ** *
11409117 TGATTTATTAGTTATATGATTATTAATATAATTACA
1 TGATTTATTAATTGCATGATTATTAATATATTTACA
*
11409153 TGATTTATTAATTGCATGATTAATT-ATATATTTGCA
1 TGATTTATTAATTGCATGATT-ATTAATATATTTACA
*
11409189 TGATTATTTATTAATTGCATGATTAATAATATATTTACA
1 TG---ATTTATTAATTGCATGATTATTAATATATTTACA
* * * *
11409228 TGATTATTTATTAATTGCAAGATTAATACTATATTTGCA
1 TG---ATTTATTAATTGCATGATTATTAATATATTTACA
* * * *
11409267 TGATTATTGATTATTTGCTTGATTTTTAATATATTTGCA
1 TGA-T-TT-ATTAATTGCATGATTATTAATATATTTACA
11409306 TGAT
1 TGAT
11409310 ACATTTGCAT
Statistics
Matches: 133, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
36 30 0.23
37 4 0.03
38 5 0.04
39 94 0.71
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.50
Consensus pattern (36 bp):
TGATTTATTAATTGCATGATTATTAATATATTTACA
Found at i:11409170 original size:16 final size:16
Alignment explanation
Indices: 11409145--11409212 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 16
11409135 ATTATTAATA
*
11409145 TAATTACATGATTTAT
1 TAATTGCATGATTTAT
11409161 TAATTGCATGATTAATTAT
1 TAATTGCATGA-T--TTAT
*
11409180 ATATTTGCATGATTATTTAT
1 -TAATTGCATG---ATTTAT
11409200 TAATTGCATGATT
1 TAATTGCATGATT
11409213 AATAATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 13 0.31
17 1 0.02
19 13 0.31
20 13 0.31
22 1 0.02
23 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (16 bp):
TAATTGCATGATTTAT
Found at i:11409209 original size:39 final size:39
Alignment explanation
Indices: 11409155--11409309 Score: 215
Period size: 39 Copynumber: 4.0 Consensus size: 39
11409145 TAATTACATG
11409155 ATTTATTAATTGCATGATTAATTATATATTTGCATGATT
1 ATTTATTAATTGCATGATTAATTATATATTTGCATGATT
* *
11409194 ATTTATTAATTGCATGATTAATAATATATTTACATGATT
1 ATTTATTAATTGCATGATTAATTATATATTTGCATGATT
*
11409233 ATTTATTAATTGCAAGATTAA-TACTATATTTGCATGATT
1 ATTTATTAATTGCATGATTAATTA-TATATTTGCATGATT
* * * *
11409272 ATTGATTATTTGCTTGATT-TTTAATATATTTGCATGAT
1 ATTTATTAATTGCATGATTAATT-ATATATTTGCATGAT
11409310 ACATTTGCAT
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 101 0.98
40 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (39 bp):
ATTTATTAATTGCATGATTAATTATATATTTGCATGATT
Found at i:11409267 original size:78 final size:77
Alignment explanation
Indices: 11409132--11409310 Score: 247
Period size: 78 Copynumber: 2.3 Consensus size: 77
11409122 TATTAGTTAT
* *
11409132 ATGATTATTAATATAATTACATG--ATTTATTAATTGCATGATTAATTATATATTTGCATGATTA
1 ATGATTATTAATATATTTACATGATATTTATTAATTGCAAGATTAATTATATATTTGCATGATTA
*
11409195 TTTATTAATTGC
66 TTGATTAATTGC
*
11409207 ATGATTAATAATATATTTACATGATTATTTATTAATTGCAAGATTAA-TACTATATTTGCATGAT
1 ATGATTATTAATATATTTACATGA-TATTTATTAATTGCAAGATTAATTA-TATATTTGCATGAT
*
11409271 TATTGATTATTTGC
64 TATTGATTAATTGC
* * *
11409285 TTGATTTTTAATATATTTGCATGATA
1 ATGATTATTAATATATTTACATGATA
11409311 CATTTGCATG
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
75 21 0.23
77 4 0.04
78 66 0.73
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (77 bp):
ATGATTATTAATATATTTACATGATATTTATTAATTGCAAGATTAATTATATATTTGCATGATTA
TTGATTAATTGC
Found at i:11409815 original size:139 final size:139
Alignment explanation
Indices: 11409592--11409871 Score: 470
Period size: 139 Copynumber: 2.0 Consensus size: 139
11409582 TAGTTGATGC
* * *
11409592 AGACTAGAACCTATTCTTTTTAAAGATAATTCGTTTAGGTTTAGGATAACCTTAAAAAGGACAGA
1 AGACTAGAACCTATTCTTTTTAAAGATAATTCGTTTAGGCTTAGGATAACCTTAAAAAAGACAAA
* * *
11409657 TTTATATAAGTGGCCAATCACACTTAAGTAAAAAAAGATTGGTAGCGACTCCATGATTTTTATCT
66 TTCATATAAATGGCCAATCACACTTAAGTAAAAAAAGATTGATAGCGACTCCATGATTTTTATCT
11409722 CTAATAAGT
131 CTAATAAGT
* * *
11409731 AGACTAGAACCTATTCTTTTTAAAGATCATTCGTTTAGGCTTAGGATAGCCTTAAAAAAGATAAA
1 AGACTAGAACCTATTCTTTTTAAAGATAATTCGTTTAGGCTTAGGATAACCTTAAAAAAGACAAA
*
11409796 TTCATATAAATGGTCAATCACACTTAAGTAAAAAAAGATTGATAGCGACTCCATGATTTTTATCT
66 TTCATATAAATGGCCAATCACACTTAAGTAAAAAAAGATTGATAGCGACTCCATGATTTTTATCT
11409861 CTAATAAGT
131 CTAATAAGT
11409870 AG
1 AG
11409872 GTTTTCGAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
139 131 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (139 bp):
AGACTAGAACCTATTCTTTTTAAAGATAATTCGTTTAGGCTTAGGATAACCTTAAAAAAGACAAA
TTCATATAAATGGCCAATCACACTTAAGTAAAAAAAGATTGATAGCGACTCCATGATTTTTATCT
CTAATAAGT
Found at i:11410633 original size:180 final size:181
Alignment explanation
Indices: 11410330--11410686 Score: 644
Period size: 180 Copynumber: 2.0 Consensus size: 181
11410320 AAAAAAGAAT
* * *
11410330 TTTTTTGGATCTACATATGCCTTTATTAGTGGTAGTAATAGCATTTCTTCTTGAACTTTTCCTTG
1 TTTTTTGGATCTACATATGCCTTTATTAGTGGTAATAATAGCATTTCTTCTTAAACTTTTCCCTG
*
11410395 AAGAAGGTGCATAATTTTTGTTTTGGGCATCTTATCGAAATAACTACATAAAAGTTAGAAAATAA
66 AAGAAGGTGCATAATTTTTATTTTGGGCATCTTATCGAAATAACTACATAAAAGTTAGAAAATAA
11410460 TCTACAGATATATGTGTTATATCACAATAAATGTAAAACTATTACCTAAAC
131 TCTACAGATATATGTGTTATATCACAATAAATGTAAAACTATTACCTAAAC
* *
11410511 TTTTTTGGATCTACATATGCCTTTATTAGTGGTAATAGTAGCCTTTCTTCTTAAACTTTTCCCTG
1 TTTTTTGGATCTACATATGCCTTTATTAGTGGTAATAATAGCATTTCTTCTTAAACTTTTCCCTG
11410576 AA-AAGGTGCATAATTTTTATTTTGGGCATCTTATCGAAATAACTACATAAAAGTTAGAAAATAA
66 AAGAAGGTGCATAATTTTTATTTTGGGCATCTTATCGAAATAACTACATAAAAGTTAGAAAATAA
*
11410640 TCTATAGATATATGTGTTATATCACAATAAATGTAAAACTATTACCT
131 TCTACAGATATATGTGTTATATCACAATAAATGTAAAACTATTACCT
11410687 GAATATGTGT
Statistics
Matches: 169, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
180 107 0.63
181 62 0.37
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (181 bp):
TTTTTTGGATCTACATATGCCTTTATTAGTGGTAATAATAGCATTTCTTCTTAAACTTTTCCCTG
AAGAAGGTGCATAATTTTTATTTTGGGCATCTTATCGAAATAACTACATAAAAGTTAGAAAATAA
TCTACAGATATATGTGTTATATCACAATAAATGTAAAACTATTACCTAAAC
Found at i:11416549 original size:21 final size:21
Alignment explanation
Indices: 11416523--11416568 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
11416513 AGATTAAATC
*
11416523 TATCACTTTCCCCAATGGATG
1 TATCACTTTCCACAATGGATG
11416544 TATCACTTTCCACAATGGATG
1 TATCACTTTCCACAATGGATG
11416565 TATC
1 TATC
11416569 CTTATCCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (21 bp):
TATCACTTTCCACAATGGATG
Found at i:11422866 original size:12 final size:12
Alignment explanation
Indices: 11422839--11422904 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
11422829 CATCTTAATT
* *
11422839 ATCTTCATCATA
1 ATCTTCTTCATC
*
11422851 ATCTTCTTAATC
1 ATCTTCTTCATC
*
11422863 ATCTTCTTCGTC
1 ATCTTCTTCATC
* *
11422875 ATTTTCTTCATT
1 ATCTTCTTCATC
11422887 ATCTTCTTC-TC
1 ATCTTCTTCATC
11422898 TATCTTC
1 -ATCTTC
11422905 ATCTTCTTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 1 0.02
12 42 0.98
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.53
Consensus pattern (12 bp):
ATCTTCTTCATC
Found at i:11422893 original size:24 final size:24
Alignment explanation
Indices: 11422831--11422895 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
11422821 TCGAATGTCA
*
11422831 TCTTAATTATCTTCATCATAATCT
1 TCTTAATTATCTTCTTCATAATCT
* * * *
11422855 TCTTAATCATCTTCTTCGTCATTT
1 TCTTAATTATCTTCTTCATAATCT
*
11422879 TCTTCATTATCTTCTTC
1 TCTTAATTATCTTCTTC
11422896 TCTATCTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.02, T:0.54
Consensus pattern (24 bp):
TCTTAATTATCTTCTTCATAATCT
Found at i:11422912 original size:21 final size:21
Alignment explanation
Indices: 11422861--11422913 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
11422851 ATCTTCTTAA
*
11422861 TCATCTTCTTCGTCATTTTCT
1 TCATCTTCTTCGTCATTATCT
*
11422882 TCAT-TATCTTCTTC-TCTATCT
1 TCATCT-TCTTCGTCAT-TATCT
11422903 TCATCTTCTTC
1 TCATCTTCTTC
11422914 ATCTTCTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.11, C:0.30, G:0.02, T:0.57
Consensus pattern (21 bp):
TCATCTTCTTCGTCATTATCT
Found at i:11426553 original size:49 final size:49
Alignment explanation
Indices: 11426474--11426569 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
11426464 TATTTATTTG
*
11426474 CTAGACCTAAACGAAATTCTTTGGCAGAGCGTTATTGACTTTGCAACGT
1 CTAGACCTAAACGAAATTCTTCGGCAGAGCGTTATTGACTTTGCAACGT
* * *
11426523 CTAGACCTAATCGAAATTCTTCGGCTGAGCGTTGTTGACTTTGCAAC
1 CTAGACCTAAACGAAATTCTTCGGCAGAGCGTTATTGACTTTGCAAC
11426570 TTACAATCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (49 bp):
CTAGACCTAAACGAAATTCTTCGGCAGAGCGTTATTGACTTTGCAACGT
Found at i:11430222 original size:2 final size:2
Alignment explanation
Indices: 11430215--11430247 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11430205 ATAATTTTTC
*
11430215 AT AT AT AT AA AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11430248 GTTTGACCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11436237 original size:18 final size:18
Alignment explanation
Indices: 11436206--11436247 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
11436196 AAAAAAATAA
11436206 AAAAAAATAAAGAAAGAAG
1 AAAAAAATAAAGAAA-AAG
* *
11436225 AAAAAAAT-GAGAAAATG
1 AAAAAAATAAAGAAAAAG
11436242 AAAAAA
1 AAAAAA
11436248 GAGATTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
18 5 0.24
19 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAAAATAAAGAAAAAG
Found at i:11436239 original size:29 final size:30
Alignment explanation
Indices: 11436169--11436239 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
11436159 NNNNTGGATG
* *
11436169 AAAATGAGAAAAAAAAAGAGATGATGAAAA
1 AAAATGAGAAAAAAAAAGAGAAGAAGAAAA
* *
11436199 AAAATAAAAAAAAATAAAGA-AAGAAG-AAA
1 AAAATGAGAAAAAA-AAAGAGAAGAAGAAAA
11436228 AAAATGAGAAAA
1 AAAATGAGAAAA
11436240 TGAAAAAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 13 0.38
30 16 0.47
31 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (30 bp):
AAAATGAGAAAAAAAAAGAGAAGAAGAAAA
Found at i:11437920 original size:42 final size:42
Alignment explanation
Indices: 11437873--11438068 Score: 180
Period size: 44 Copynumber: 4.5 Consensus size: 42
11437863 GATTGTCGAT
11437873 GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
11437915 GAGCAATTTAC-TTTCCAAAGTCGTGCGTGGTCTTCTGTTTAGAG
1 GAGCAATTTACTTTTTCAAAGTCGTG-GT-G-CCTCTGTTTAGAG
* ** * * *
11437959 GAGTAATTTACTTTCCCAAAGTCGTGGTGCTTATATTTAGAG
1 GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * * *
11438001 GAGCAATTTATTTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAC
1 GAGCAATTTA--CTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
11438045 GAGCCATTTA-TGTTTCTCAAAGTC
1 GAGCAATTTACT-TTT-TCAAAGTC
11438069 ATTGAGCCTC
Statistics
Matches: 126, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
41 14 0.11
42 36 0.29
43 9 0.07
44 54 0.43
45 13 0.10
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (42 bp):
GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:11437961 original size:44 final size:41
Alignment explanation
Indices: 11437873--11438010 Score: 186
Period size: 42 Copynumber: 3.2 Consensus size: 41
11437863 GATTGTCGAT
* *
11437873 GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTAC-TTTCCAAAGTCGTGGTGCTTCTGTTTAGAG
11437915 GAGCAATTTACTTTCCAAAGTCGTGCGTGGTCTTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTG-GT-G-CTTCTGTTTAGAG
* * *
11437959 GAGTAATTTACTTTCCCAAAGTCGTGGTGCTTATATTTAGAG
1 GAGCAATTTACTTT-CCAAAGTCGTGGTGCTTCTGTTTAGAG
11438001 GAGCAATTTA
1 GAGCAATTTA
11438011 TTTTTTTTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
41 13 0.15
42 33 0.38
43 2 0.02
44 27 0.31
45 11 0.13
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTCCAAAGTCGTGGTGCTTCTGTTTAGAG
Found at i:11438074 original size:43 final size:44
Alignment explanation
Indices: 11437995--11438079 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 44
11437985 GTGCTTATAT
* * * **
11437995 TTAGAGGAGCAATTTATTTTTTTTCAAAGTTGTTGAGCCTCTGA
1 TTAGACGAGCAATTTATTGTTTCTCAAAGTCATTGAGCCTCTGA
*
11438039 TTAGACGAGCCATTTA-TGTTTCTCAAAGTCATTGAGCCTCT
1 TTAGACGAGCAATTTATTGTTTCTCAAAGTCATTGAGCCTCT
11438080 ACTAGAGGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 21 0.60
44 14 0.40
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (44 bp):
TTAGACGAGCAATTTATTGTTTCTCAAAGTCATTGAGCCTCTGA
Found at i:11438118 original size:11 final size:11
Alignment explanation
Indices: 11438098--11438131 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11438088 AGCTTTGATC
11438098 AAAAACAAAAA
1 AAAAACAAAAA
*
11438109 AAAAATAAAAAA
1 AAAAA-CAAAAA
11438121 AAAAACAAAAA
1 AAAAACAAAAA
11438132 GTGAAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:11438119 original size:12 final size:12
Alignment explanation
Indices: 11438098--11438131 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11438088 AGCTTTGATC
11438098 AAAAAC-AAAAA
1 AAAAACAAAAAA
*
11438109 AAAAATAAAAAA
1 AAAAACAAAAAA
11438121 AAAAACAAAAA
1 AAAAACAAAAA
11438132 GTGAAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:11438337 original size:25 final size:25
Alignment explanation
Indices: 11438287--11438354 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
11438277 CCAATTTTGT
*
11438287 TTTATATTTT-TGT-TAT-TTTTAT
1 TTTATATTTTATGTATATATTTTAC
*
11438309 TTTATATTTTATGTATATATTTTCC
1 TTTATATTTTATGTATATATTTTAC
** *
11438334 TTTATATCCTATGTATTTATT
1 TTTATATTTTATGTATATATT
11438355 ATTTATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 10 0.26
23 3 0.08
24 3 0.08
25 22 0.58
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTATATTTTATGTATATATTTTAC
Found at i:11438398 original size:5 final size:5
Alignment explanation
Indices: 11438388--11438450 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
11438378 TAATATATAT
* *
11438388 TTTTA TTTTA TTTTA TTTTA TTTTT TTTCTC TTTCTCA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTT-T-A TTTTA TTTTA
*
11438436 TATGTA TTTTTA TTT
1 T-TTTA -TTTTA TTT
11438451 ATCTAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 32 0.65
6 13 0.27
7 4 0.08
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:11438530 original size:19 final size:21
Alignment explanation
Indices: 11438474--11438554 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
11438464 CTGTTATTTG
*
11438474 TATTTTTTTATTTATCTTATAA
1 TATTATTTTATTTATCTTAT-A
11438496 TATTATTGTTGATTTATCTTAT-
1 TATTATT-TT-ATTTATCTTATA
*
11438518 TATTATTTT-TTTA-CTTATC
1 TATTATTTTATTTATCTTATA
*
11438537 TATTAATTTTTTTTATCT
1 TATT-ATTTTATTTATCT
11438555 GATTTTTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
18 5 0.10
19 8 0.15
20 5 0.10
21 6 0.12
22 15 0.29
23 2 0.04
24 11 0.21
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTATTTTATTTATCTTATA
Found at i:11438566 original size:19 final size:19
Alignment explanation
Indices: 11438508--11438566 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
11438498 TTATTGTTGA
*
11438508 TTTATCTTATTATTATTTT
1 TTTATCTTATTTTTATTTT
*
11438527 TTTA-CTTATCTATTAATTTTT
1 TTTATCTTAT-T-TTTA-TTTT
*
11438548 TTTATCTGATTTTTATTTT
1 TTTATCTTATTTTTATTTT
11438567 GGAAGGCTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 5 0.16
21 9 0.28
22 4 0.12
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATCTTATTTTTATTTT
Found at i:11439053 original size:19 final size:20
Alignment explanation
Indices: 11439029--11439067 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11439019 TTCGTTTAAC
*
11439029 TTCTGACGAAAAAT-CTAGA
1 TTCTGACAAAAAATCCTAGA
11439048 TTCTGACAAAAAATCCTAGA
1 TTCTGACAAAAAATCCTAGA
11439068 ATCCGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCTGACAAAAAATCCTAGA
Found at i:11439459 original size:4 final size:4
Alignment explanation
Indices: 11439414--11439443 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
11439404 AGGTTTTTTT
*
11439414 TTTA TTTA TTTG TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
11439444 AGATTAGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:11439625 original size:60 final size:58
Alignment explanation
Indices: 11439561--11439836 Score: 308
Period size: 59 Copynumber: 4.7 Consensus size: 58
11439551 AATAAAAATC
*
11439561 AAAAATATTTTTTGGGAAAGGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAA
1 AAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATCAAA-TTTTCAA
* * *
11439621 AAAAATA-TTTTTGGGAAAAAGTTGAAAGTATTAATTTTTCTTAAAA-CTAAATTTCCAA
1 AAAAATATTTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAATC-AAATTTTCAA
* *
11439679 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTACTTAAAGAT-AAATTTTC-A
1 AAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA-ATCAAATTTTCAA
* * ** * *
11439736 AAAAATCAATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAA
1 AAAAAT-ATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAATCAAATTTTCAA
* **
11439796 AAGAATATTTTTTTTGAAAAAAGTTGAAAGTATCAATTTTC
1 AA-AA-ATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTC
11439837 TCTGCACAAA
Statistics
Matches: 187, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
57 7 0.04
58 56 0.30
59 57 0.30
60 57 0.30
61 8 0.04
62 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATCAAATTTTCAA
Found at i:11439682 original size:59 final size:58
Alignment explanation
Indices: 11439561--11439836 Score: 303
Period size: 60 Copynumber: 4.7 Consensus size: 58
11439551 AATAAAAATC
*
11439561 AAAAATATTTTTTGGG-AAAGGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAA
1 AAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAGTTTTCAA
* * *
11439621 AAAAATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTTCTTAAAACTAAA-TTTCCAA
1 AAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAAGTTTTCAA
* *
11439679 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTACTTAAAGATAAA-TTTTC-A
1 AAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAA-ATAAAGTTTTCAA
* * *
11439736 AAAAATCAATTTTT-GAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTCAA
1 AAAAAT--ATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAAGTTTTCAA
* * *
11439796 AAGAATATTTTTTTTGAAAAAAGTTGAAAGTATCAATTTTC
1 AA-AA-ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTC
11439837 TCTGCACAAA
Statistics
Matches: 190, Mismatches: 14, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
57 7 0.04
58 57 0.30
59 54 0.28
60 65 0.34
61 5 0.03
62 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAGTTTTCAA
Found at i:11439770 original size:27 final size:27
Alignment explanation
Indices: 11439685--11439775 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
11439675 CCAAAAAAAT
**
11439685 ATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTGAAGAAAAGTTGAAAGTATCA
* * * **
11439712 ATTTTACTTAAAGATAAATTTTCAAAAAATCA
1 A-TTT--TTGAAGA-AAA-GTTGAAAGTATCA
11439744 ATTTTTGAAGAAAAGTTGAAAGTATCA
1 ATTTTTGAAGAAAAGTTGAAAGTATCA
11439771 ATTTT
1 ATTTT
11439776 CCTCGAAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
27 15 0.32
28 6 0.13
29 6 0.13
30 4 0.09
31 6 0.13
32 10 0.21
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.37
Consensus pattern (27 bp):
ATTTTTGAAGAAAAGTTGAAAGTATCA
Found at i:11444961 original size:12 final size:12
Alignment explanation
Indices: 11444934--11444999 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
11444924 CATCTTAATT
* *
11444934 ATCTTCATCATA
1 ATCTTCTTCATC
*
11444946 ATCTTCTTAATC
1 ATCTTCTTCATC
*
11444958 ATCTTCTTCGTC
1 ATCTTCTTCATC
* *
11444970 ATTTTCTTCATT
1 ATCTTCTTCATC
11444982 ATCTTCTTC-TC
1 ATCTTCTTCATC
11444993 TATCTTC
1 -ATCTTC
11445000 ATCTTCTTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 1 0.02
12 42 0.98
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.53
Consensus pattern (12 bp):
ATCTTCTTCATC
Found at i:11444988 original size:24 final size:24
Alignment explanation
Indices: 11444926--11444990 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
11444916 TCGAATGTCA
*
11444926 TCTTAATTATCTTCATCATAATCT
1 TCTTAATTATCTTCTTCATAATCT
* * * *
11444950 TCTTAATCATCTTCTTCGTCATTT
1 TCTTAATTATCTTCTTCATAATCT
*
11444974 TCTTCATTATCTTCTTC
1 TCTTAATTATCTTCTTC
11444991 TCTATCTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.02, T:0.54
Consensus pattern (24 bp):
TCTTAATTATCTTCTTCATAATCT
Found at i:11445007 original size:21 final size:21
Alignment explanation
Indices: 11444956--11445008 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
11444946 ATCTTCTTAA
*
11444956 TCATCTTCTTCGTCATTTTCT
1 TCATCTTCTTCGTCATTATCT
*
11444977 TCAT-TATCTTCTTC-TCTATCT
1 TCATCT-TCTTCGTCAT-TATCT
11444998 TCATCTTCTTC
1 TCATCTTCTTC
11445009 ATCTTCTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.11, C:0.30, G:0.02, T:0.57
Consensus pattern (21 bp):
TCATCTTCTTCGTCATTATCT
Found at i:11447044 original size:17 final size:16
Alignment explanation
Indices: 11447022--11447055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11447012 TATCCATAAC
11447022 AATGTTGCCTTTAAAAG
1 AATGTTG-CTTTAAAAG
*
11447039 AATGTTGTTTTAAAAG
1 AATGTTGCTTTAAAAG
11447055 A
1 A
11447056 GCATCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (16 bp):
AATGTTGCTTTAAAAG
Found at i:11448654 original size:49 final size:49
Alignment explanation
Indices: 11448575--11448670 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 49
11448565 TATTTATTTG
*
11448575 CTAGACCTAAACGAAATCCTTTGGCAGAGCGTTATTGACTTTGCAACGT
1 CTAGACCTAAACGAAATCCTTCGGCAGAGCGTTATTGACTTTGCAACGT
* * * *
11448624 CTAGACCTAATCGAAATTCTTCGGCTGAGCGTTGTTGACTTTGCAAC
1 CTAGACCTAAACGAAATCCTTCGGCAGAGCGTTATTGACTTTGCAAC
11448671 TTACAATCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (49 bp):
CTAGACCTAAACGAAATCCTTCGGCAGAGCGTTATTGACTTTGCAACGT
Found at i:11452327 original size:2 final size:2
Alignment explanation
Indices: 11452320--11452359 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
11452310 ATAATTTTTC
*
11452320 AT AT AT AT AT AT AT -T AT AT AT AT AA AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11452360 GTTTGACCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11452340 original size:17 final size:17
Alignment explanation
Indices: 11452320--11452359 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
11452310 ATAATTTTTC
*
11452320 ATATATATATATATTAT
1 ATATATAAATATATTAT
11452337 ATATATAAATATATTAT
1 ATATATAAATATATTAT
11452354 ATATAT
1 ATATAT
11452360 GTTTGACCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATAAATATATTAT
Found at i:11456997 original size:20 final size:20
Alignment explanation
Indices: 11456972--11457050 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 20
11456962 TTAAAAAAAT
11456972 TATCATGCAATAATATAATA
1 TATCATGCAATAATATAATA
*
11456992 TATCATACAATAATAATACAATA
1 TATCATGCAATAAT-AT--AATA
**
11457015 TATCATGCGATATTAATATAGCA
1 TATCATGC-A-A-TAATATAATA
*
11457038 TATCATGTAATAA
1 TATCATGCAATAA
11457051 ACAAAAGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 16 0.33
21 3 0.06
22 1 0.02
23 20 0.42
24 1 0.02
25 3 0.06
26 4 0.08
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (20 bp):
TATCATGCAATAATATAATA
Found at i:11457006 original size:23 final size:23
Alignment explanation
Indices: 11456980--11457043 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
11456970 ATTATCATGC
11456980 AATAATATAATATATCATACAAT
1 AATAATATAATATATCATACAAT
* * *
11457003 AATAATACAATATATCATGCGAT
1 AATAATATAATATATCATACAAT
* **
11457026 ATTAATATAGCATATCAT
1 AATAATATAATATATCAT
11457044 GTAATAAACA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (23 bp):
AATAATATAATATATCATACAAT
Found at i:11457049 original size:43 final size:42
Alignment explanation
Indices: 11456972--11457054 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 42
11456962 TTAAAAAAAT
*
11456972 TATCATGCAATAATATAATATATCATACAATAATAATACAATA
1 TATCATGCAATAATATAATATAGCATACAATAATAA-ACAATA
* *
11457015 TATCATGCGAT-AT-TAATATAGCATATCATGTAATAAACAA
1 TATCATGCAATAATATAATATAGCATA-CA-ATAATAAACAA
11457055 AAGCTATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 11 0.31
42 8 0.23
43 16 0.46
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (42 bp):
TATCATGCAATAATATAATATAGCATACAATAATAAACAATA
Found at i:11457200 original size:23 final size:21
Alignment explanation
Indices: 11457174--11457243 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 21
11457164 ATAATAAGCA
11457174 AAAAAAAAAACATGAAATAAAAT
1 AAAAAAAAAA-AT-AAATAAAAT
*
11457197 AAAATAAAAAAT--A-AAAAT
1 AAAAAAAAAAATAAATAAAAT
*
11457215 AAAAATAAAAATCAAATCAAAAT
1 AAAAAAAAAAAT-AAAT-AAAAT
11457238 AAAAAA
1 AAAAAA
11457244 CAAGTTGAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 15 0.39
19 1 0.03
21 1 0.03
22 2 0.05
23 19 0.50
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.14
Consensus pattern (21 bp):
AAAAAAAAAAATAAATAAAAT
Found at i:11457208 original size:17 final size:17
Alignment explanation
Indices: 11457188--11457243 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
11457178 AAAAAACATG
11457188 AAATAAAATAAAATAAA
1 AAATAAAATAAAATAAA
11457205 AAATAAAAATAAAA-ATAA
1 AAAT-AAAATAAAATA-AA
*
11457223 AAATCAAATCAAAATAAA
1 AAATAAAAT-AAAATAAA
11457241 AAA
1 AAA
11457244 CAAGTTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 9 0.26
18 24 0.71
19 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAATAAA
Found at i:11457243 original size:7 final size:6
Alignment explanation
Indices: 11457188--11457242 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
11457178 AAAAAACATG
* *
11457188 AAAT-A AAAT-A AAATAAA AAATAA AAATAA AAATAA AAAT-C AAATCA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AAATAA AAATAA
11457234 AAATAA AAA
1 AAATAA AAA
11457243 ACAAGTTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
5 13 0.30
6 26 0.59
7 5 0.11
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:11458322 original size:17 final size:18
Alignment explanation
Indices: 11458293--11458331 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
11458283 CACTAAAATC
11458293 AAAATCAAGATTA-AAGTT
1 AAAATCAAGATTACAA-TT
11458311 AAAATC-AGATTACAATT
1 AAAATCAAGATTACAATT
11458328 AAAA
1 AAAA
11458332 GTTTTAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (18 bp):
AAAATCAAGATTACAATT
Found at i:11459044 original size:17 final size:17
Alignment explanation
Indices: 11459019--11459099 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
11459009 AAAAAATCAA
* *
11459019 ATTTACAAGAATGAAAG
1 ATTTGCAAGAATTAAAG
* *
11459036 ATTTGCAAGATTTTCAA-
1 ATTTGCAAGA-ATTAAAG
* *
11459053 ATTTGCAAGAACT-CAG
1 ATTTGCAAGAATTAAAG
*
11459069 ATTTGTAAGAATTTAAAG
1 ATTTGCAAGAA-TTAAAG
11459087 ATTTGCAAGAATT
1 ATTTGCAAGAATT
11459100 TTAGATTCAC
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.02
16 11 0.22
17 22 0.45
18 15 0.31
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (17 bp):
ATTTGCAAGAATTAAAG
Found at i:11459091 original size:34 final size:33
Alignment explanation
Indices: 11459034--11459097 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
11459024 CAAGAATGAA
* *
11459034 AGATTTGCAAGATTTTCAAATTTGCAAGAACTC
1 AGATTTGCAAGAATTTAAAATTTGCAAGAACTC
*
11459067 AGATTTGTAAGAATTTAAAGATTTGCAAGAA
1 AGATTTGCAAGAATTTAAA-ATTTGCAAGAA
11459098 TTTTAGATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 16 0.59
34 11 0.41
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (33 bp):
AGATTTGCAAGAATTTAAAATTTGCAAGAACTC
Found at i:11459171 original size:17 final size:17
Alignment explanation
Indices: 11459092--11459173 Score: 53
Period size: 17 Copynumber: 4.9 Consensus size: 17
11459082 TAAAGATTTG
* *
11459092 CAAGAATTTTAGATTCA
1 CAAGAATTTCATATTCA
* *
11459109 CAAAAATTTGAGT-TTCA
1 CAAGAATTTCA-TATTCA
* * *
11459126 CAAGATTTTCAAATTTGA
1 CAAGAATTTCATA-TTCA
*
11459144 -AA-AAATTCATATTCA
1 CAAGAATTTCATATTCA
11459159 CAAGAATTTCATATT
1 CAAGAATTTCATATT
11459174 TGTAACAACT
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
15 3 0.06
16 8 0.17
17 33 0.70
18 3 0.06
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.37
Consensus pattern (17 bp):
CAAGAATTTCATATTCA
Found at i:11459811 original size:32 final size:32
Alignment explanation
Indices: 11459763--11459838 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 32
11459753 AACTAATAGG
*
11459763 GGCTTAAACTTTCATTAGATGCCAA-TAAAGTTA
1 GGCTTAAA-TTTCATTAGATGCCAATTAAA-ATA
*
11459796 GGCTTAAATTTCATTAGATGCCAATTAAAATG
1 GGCTTAAATTTCATTAGATGCCAATTAAAATA
11459828 GGCTTAAATTT
1 GGCTTAAATTT
11459839 TTATTCATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 28 0.70
33 12 0.30
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (32 bp):
GGCTTAAATTTCATTAGATGCCAATTAAAATA
Found at i:11459894 original size:32 final size:31
Alignment explanation
Indices: 11459823--11459901 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
11459813 ATGCCAATTA
* * *
11459823 AAATGGGCTTAAATTTTTATTCATGTCAGCT
1 AAATGGGCTTAAACTTTTATTCAAGTCAACT
11459854 AATATGGGCTTAAACTTTTATT-AAGTACAACT
1 AA-ATGGGCTTAAACTTTTATTCAAGT-CAACT
11459886 AAACTGGGCTTAAACT
1 AAA-TGGGCTTAAACT
11459902 ATATTGGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.14
32 36 0.86
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (31 bp):
AAATGGGCTTAAACTTTTATTCAAGTCAACT
Found at i:11460060 original size:33 final size:32
Alignment explanation
Indices: 11459989--11460061 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
11459979 ACTATTATTG
*
11459989 GGCTTAAATTTCATTAGATGTCAGCTAAACTA
1 GGCTTAAATTTCATTAGATGTCAGATAAACTA
*
11460021 GGCTTAAATTTTTCATTAG-TG-CTAGATAATCTA
1 GGCTTAAA--TTTCATTAGATGTC-AGATAAACTA
11460054 GGCTTAAA
1 GGCTTAAA
11460062 CCTTGGGTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 9 0.25
33 18 0.50
34 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
GGCTTAAATTTCATTAGATGTCAGATAAACTA
Found at i:11460933 original size:10 final size:11
Alignment explanation
Indices: 11460906--11460943 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
11460896 CATTCACTAT
*
11460906 TTTTTTTTTAT
1 TTTTTTTTTAC
11460917 TTGTTTTTTTAC
1 TT-TTTTTTTAC
11460929 TTTTTTTTTAC
1 TTTTTTTTTAC
11460940 TTTT
1 TTTT
11460944 GACTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTAC
Found at i:11460950 original size:25 final size:23
Alignment explanation
Indices: 11460906--11460952 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11460896 CATTCACTAT
**
11460906 TTTTTTTTTATTTGTTTTTTTAC
1 TTTTTTTTTATTTGACTTTTTAC
11460929 TTTTTTTTTACTTTTGACTTTTTA
1 TTTTTTTTTA--TTTGACTTTTTA
11460953 TTATTATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTATTTGACTTTTTAC
Found at i:11467789 original size:12 final size:12
Alignment explanation
Indices: 11467767--11467810 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
11467757 CCTAGAGTAG
*
11467767 ATTATTTGTTCT
1 ATTACTTGTTCT
*
11467779 GTTACTTGTTCT
1 ATTACTTGTTCT
11467791 ATTACTTGTT-T
1 ATTACTTGTTCT
11467802 ACTTACTTG
1 A-TTACTTG
11467811 CATAGTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 2 0.07
12 26 0.93
ACGTcount: A:0.16, C:0.14, G:0.11, T:0.59
Consensus pattern (12 bp):
ATTACTTGTTCT
Found at i:11467846 original size:21 final size:21
Alignment explanation
Indices: 11467799--11467847 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11467789 CTATTACTTG
*
11467799 TTTACTTACTTGCATAGTTAC
1 TTTATTTACTTGCATAGTTAC
* *
11467820 TATATTTACTTGC-TATGTTTC
1 TTTATTTACTTGCATA-GTTAC
11467841 TTTATTT
1 TTTATTT
11467848 TGCTTGTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.57
Consensus pattern (21 bp):
TTTATTTACTTGCATAGTTAC
Found at i:11468139 original size:18 final size:18
Alignment explanation
Indices: 11468098--11468141 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11468088 AGGTTAGACC
* *
11468098 TCCTATGCAAGTCAACCT
1 TCCTTTGCAAGTCAACAT
11468116 TCCTTTGCAAGTCAAACAT
1 TCCTTTGCAAGTC-AACAT
11468135 T-CTTTGC
1 TCCTTTGC
11468142 CAGCCGACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (18 bp):
TCCTTTGCAAGTCAACAT
Found at i:11475536 original size:21 final size:21
Alignment explanation
Indices: 11475499--11475542 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11475489 ATAATCATAT
*
11475499 AATTTATTAATTAAATATTAA
1 AATTTATTAATTAAATAATAA
*
11475520 AATTT-TTAATTTTAATAATAA
1 AATTTATTAA-TTAAATAATAA
11475541 AA
1 AA
11475543 ATAAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTATTAATTAAATAATAA
Found at i:11476274 original size:20 final size:19
Alignment explanation
Indices: 11476197--11476275 Score: 56
Period size: 20 Copynumber: 4.1 Consensus size: 19
11476187 TATTTTCATT
11476197 AATTCAATAATATTAATCATA
1 AATTCAATAATATTAA--ATA
* *
11476218 ATATTTAAT--TATTAAATT
1 A-ATTCAATAATATTAAATA
* *
11476236 AATT-AATATTACTTTAATA
1 AATTCAATAATA-TTAAATA
11476255 CAATTCAATAATATTAAATA
1 -AATTCAATAATATTAAATA
11476275 A
1 A
11476276 TAAAATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
16 3 0.07
17 3 0.07
18 5 0.11
19 6 0.13
20 16 0.35
21 7 0.15
22 6 0.13
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTCAATAATATTAAATA
Found at i:11476386 original size:29 final size:29
Alignment explanation
Indices: 11476316--11476566 Score: 152
Period size: 29 Copynumber: 8.8 Consensus size: 29
11476306 AAAACTAATT
*
11476316 TTAAAATATTATGAAATTAATATATTATA
1 TTAAAATATTATTAAATTAATATATTATA
*
11476345 TTAAATTATTATTAAATTAATAT-TTAGTA
1 TTAAAATATTATTAAATTAATATATTA-TA
* *
11476374 TTAAAATAATATTCAAA-TAGGTATTATTA-A
1 TTAAAATATTATT-AAATTA-ATA-TATTATA
* *
11476404 -TAATTAATATTATT-AATTATTATAATAT-
1 TTAA--AATATTATTAAATTAATATATTATA
* *
11476432 TTTAAATATTA--AAA-TACTAGTCA--ATA
1 TTAAAATATTATTAAATTAATA-T-ATTATA
*
11476458 TTAAAATACTATTAAATTAATAT-TTAATA
1 TTAAAATATTATTAAATTAATATATT-ATA
* * *
11476487 TTAAAATGTTATTTAAA-TAATATAATATG
1 TTAAAATATTA-TTAAATTAATATATTATA
* * *
11476516 TTACAATATTTTTAAAATAATAT-TTATA
1 TTAAAATATTATTAAATTAATATATTATA
* * *
11476544 ATAAAATATTATTATATAAATAT
1 TTAAAATATTATTAAATTAATAT
11476567 TTCATGTTAT
Statistics
Matches: 171, Mismatches: 28, Indels: 47
0.70 0.11 0.19
Matches are distributed among these distances:
25 6 0.04
26 12 0.07
27 8 0.05
28 36 0.21
29 83 0.49
30 14 0.08
31 9 0.05
32 3 0.02
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
TTAAAATATTATTAAATTAATATATTATA
Found at i:11476416 original size:16 final size:16
Alignment explanation
Indices: 11476395--11476425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11476385 TTCAAATAGG
11476395 TATTATTAATAATTAA
1 TATTATTAATAATTAA
*
11476411 TATTATTAATTATTA
1 TATTATTAATAATTA
11476426 TAATATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTAATAATTAA
Found at i:11476420 original size:9 final size:9
Alignment explanation
Indices: 11476395--11476442 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
11476385 TTCAAATAGG
11476395 TATTATTAA
1 TATTATTAA
11476404 TA--ATTAA
1 TATTATTAA
11476411 TATTATTAA
1 TATTATTAA
11476420 TTATTA-TAA
1 -TATTATTAA
11476429 TATT-TTAAA
1 TATTATT-AA
11476438 TATTA
1 TATTA
11476443 AAATACTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
7 7 0.21
8 5 0.15
9 16 0.48
10 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TATTATTAA
Found at i:11476422 original size:70 final size:69
Alignment explanation
Indices: 11476350--11476491 Score: 55
Period size: 73 Copynumber: 2.0 Consensus size: 69
11476340 TTATATTAAA
* * *
11476350 TTATTATTAAATT-AATATTTAGTATTAAAA-TAATATTCAAATAGGTAT-TATTAATA-ATTAA
1 TTATTATT-AATTAAATATTTAATATTAAAACTAATATTAAAATA-GTATAAATTAATATATT-A
11476411 TATTATTAA
63 TATTA--AA
* * ** * *
11476420 TTATTATAATATTTTAAATA-TTAA-AATACTAGTCAATATTAAAATACTATTAAATTAATAT-T
1 TTATTAT--TA-ATTAAATATTTAATATTAAAACT-AATATTAAAATAGTA-TAAATTAATATAT
11476482 TAATATTAAA
61 T-ATATTAAA
11476492 ATGTTATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
70 7 0.13
71 5 0.09
72 11 0.20
73 16 0.29
74 16 0.29
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (69 bp):
TTATTATTAATTAAATATTTAATATTAAAACTAATATTAAAATAGTATAAATTAATATATTATAT
TAAA
Found at i:11476441 original size:17 final size:18
Alignment explanation
Indices: 11476395--11476474 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
11476385 TTCAAATAGG
*
11476395 TATTATT-AATAAT-TAA
1 TATTATTAAATATTATAA
*
11476411 TATTATTAATTATTATAA
1 TATTATTAAATATTATAA
*
11476429 TATT-TTAAATATTAAAA
1 TATTATTAAATATTATAA
* * * *
11476446 TACTAGTCAATATTAAAA
1 TATTATTAAATATTATAA
*
11476464 TACTATTAAAT
1 TATTATTAAAT
11476475 TAATATTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
16 7 0.13
17 18 0.35
18 27 0.52
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (18 bp):
TATTATTAAATATTATAA
Found at i:11476550 original size:17 final size:18
Alignment explanation
Indices: 11476528--11476562 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11476518 ACAATATTTT
11476528 TAAAATAATATT-TATAA
1 TAAAATAATATTATATAA
*
11476545 TAAAATATTATTATATAA
1 TAAAATAATATTATATAA
11476563 ATATTTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATAATATTATATAA
Found at i:11476691 original size:18 final size:16
Alignment explanation
Indices: 11476651--11476691 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
11476641 ACATTAGTAA
11476651 ATAAATATTAAATATT
1 ATAAATATTAAATATT
11476667 ATGAAATATTAAAATATT
1 AT-AAATATT-AAATATT
11476685 ACTAAAT
1 A-TAAAT
11476692 TAATAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 7 0.32
18 12 0.55
19 1 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
ATAAATATTAAATATT
Found at i:11476691 original size:39 final size:39
Alignment explanation
Indices: 11476631--11476705 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
11476621 AATAAGATTA
* *
11476631 AAATATTTAAACATTAGTAAATAAATA-TTAAATATTATG
1 AAATATTAAAACATTACTAAATAAATAGTT-AATATTATG
* *
11476670 AAATATTAAAATATTACTAAATTAATAGTTAATATT
1 AAATATTAAAACATTACTAAATAAATAGTTAATATT
11476706 TAAGTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 29 0.94
40 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (39 bp):
AAATATTAAAACATTACTAAATAAATAGTTAATATTATG
Found at i:11476838 original size:11 final size:11
Alignment explanation
Indices: 11476822--11476863 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
11476812 TGTTTAAGAT
11476822 AAAATAATATG
1 AAAATAATATG
* *
11476833 AAAATAGTATT
1 AAAATAATATG
11476844 AAAATAATATG
1 AAAATAATATG
11476855 AAAATAATA
1 AAAATAATA
11476864 GTAAATCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (11 bp):
AAAATAATATG
Found at i:11476868 original size:22 final size:22
Alignment explanation
Indices: 11476821--11476868 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
11476811 ATGTTTAAGA
* *
11476821 TAAAATAATATGAAAATAGTAT
1 TAAAATAATATGAAAATAATAG
11476843 TAAAATAATATGAAAATAATAG
1 TAAAATAATATGAAAATAATAG
11476865 TAAA
1 TAAA
11476869 TCTTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAATAATATGAAAATAATAG
Found at i:11476884 original size:32 final size:33
Alignment explanation
Indices: 11476822--11476885 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
11476812 TGTTTAAGAT
11476822 AAAATAATATGAAAATAGTATTAAAATAATATG
1 AAAATAATATGAAAATAGTATTAAAATAATATG
* ** *
11476855 AAAATAATA-GTAAATCTTATTAAACTAATAT
1 AAAATAATATGAAAATAGTATTAAAATAATAT
11476886 TTAATATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (33 bp):
AAAATAATATGAAAATAGTATTAAAATAATATG
Found at i:11476895 original size:21 final size:20
Alignment explanation
Indices: 11476871--11476939 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
11476861 ATAGTAAATC
11476871 TTATTAAACTAATATTTAATA
1 TTATTAAACT-ATATTTAATA
*** ** *
11476892 TTATTAGTTTCATATAAAAAA
1 TTATTAAACT-ATATTTAATA
11476913 TTATTAAAC-ATATTTAATA
1 TTATTAAACTATATTTAATA
11476932 TTATTAAA
1 TTATTAAA
11476940 TGTCTAACAT
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
19 15 0.43
21 20 0.57
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (20 bp):
TTATTAAACTATATTTAATA
Found at i:11477886 original size:2 final size:2
Alignment explanation
Indices: 11477881--11477905 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11477871 TTTTTATCAA
11477881 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11477906 AAGTTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11482163 original size:37 final size:37
Alignment explanation
Indices: 11482113--11482190 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
11482103 ACAAAAAGAT
*
11482113 GAAAAATTAACCTTGATTTCATGATTGTTAAACTTTA
1 GAAAAATTAACCTTGACTTCATGATTGTTAAACTTTA
11482150 GAAAAATTAACCTTGACTTCATGATTGTTAAACTTTA
1 GAAAAATTAACCTTGACTTCATGATTGTTAAACTTTA
11482187 GAAA
1 GAAA
11482191 GAGAGCATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (37 bp):
GAAAAATTAACCTTGACTTCATGATTGTTAAACTTTA
Found at i:11485210 original size:13 final size:13
Alignment explanation
Indices: 11485192--11485216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11485182 GAGATGATGA
11485192 GAAAAAAAAGAGG
1 GAAAAAAAAGAGG
11485205 GAAAAAAAAGAG
1 GAAAAAAAAGAG
11485217 AAAAGAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAGAGG
Found at i:11485515 original size:18 final size:18
Alignment explanation
Indices: 11485492--11485530 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11485482 TTTTTTGGTA
*
11485492 TTATTTATTTATTTATTT
1 TTATTTATTTATTTACTT
*
11485510 TTATTTGTTTATTTACTT
1 TTATTTATTTATTTACTT
11485528 TTA
1 TTA
11485531 AGGGTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTATTTATTTATTTACTT
Found at i:11485585 original size:20 final size:19
Alignment explanation
Indices: 11485556--11485593 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11485546 GATTAACTTT
11485556 GAAAAAAATAAAAAAAATA
1 GAAAAAAATAAAAAAAATA
*
11485575 GAAAAAGAATAAAATAAAT
1 GAAAAA-AATAAAAAAAAT
11485594 TTTGAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (19 bp):
GAAAAAAATAAAAAAAATA
Found at i:11490320 original size:25 final size:24
Alignment explanation
Indices: 11490290--11490375 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 24
11490280 ATGAAAAAAT
11490290 GAGAAAAAAATAAAAAAAAAAGAAA
1 GAGAAAAAAA-AAAAAAAAAAGAAA
* *
11490315 GAGAAAAAAACAAAAAAAATGAAA
1 GAGAAAAAAAAAAAAAAAAAGAAA
* *
11490339 -ATGGAAAAAAAGAGAAAAAATAGAAA
1 GA--GAAAAAAA-AAAAAAAAAAGAAA
11490365 GA-AAAAAAAAA
1 GAGAAAAAAAAA
11490376 GGAAAACTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.04
24 19 0.38
25 18 0.36
26 10 0.20
27 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (24 bp):
GAGAAAAAAAAAAAAAAAAAGAAA
Found at i:11490380 original size:16 final size:15
Alignment explanation
Indices: 11490293--11490376 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
11490283 AAAAAATGAG
*
11490293 AAAAAAATAAA-AAA
1 AAAAAAAGAAAGAAA
11490307 AAAAGAAAGAGAA-AAA
1 AAAA-AAAGA-AAGAAA
11490323 AACAAAAA-AAATGAAA
1 AA-AAAAAGAAA-GAAA
** *
11490339 ATGGAAAA-AAAGAGA
1 A-AAAAAAGAAAGAAA
*
11490354 AAAAATAGAAAGAAA
1 AAAAAAAGAAAGAAA
11490369 AAAAAAAG
1 AAAAAAAG
11490377 GAAAACTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
14 9 0.17
15 22 0.41
16 21 0.39
17 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.05
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:11490380 original size:35 final size:35
Alignment explanation
Indices: 11490282--11490381 Score: 109
Period size: 35 Copynumber: 2.8 Consensus size: 35
11490272 ACTAATGGAT
11490282 GAAAAAATGAGAAAAAAATAAAAAA--AAAAGAAAGA
1 GAAAAAAT-AGAAAAAAA-AAAAAAGGAAAAGAAAGA
* *
11490317 GAAAAAA-ACAAAAAAAATGAAAATGGAAAA-AAAGA
1 GAAAAAATAGAAAAAAAA--AAAAAGGAAAAGAAAGA
11490352 GAAAAAATAGAAAGAAAAAAAAAAGGAAAA
1 GAAAAAATAGAAA-AAAAAAAAAAGGAAAA
11490382 CTCAAATTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
32 1 0.02
33 8 0.15
34 4 0.07
35 29 0.53
36 8 0.15
37 5 0.09
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.05
Consensus pattern (35 bp):
GAAAAAATAGAAAAAAAAAAAAAGGAAAAGAAAGA
Found at i:11491190 original size:17 final size:17
Alignment explanation
Indices: 11491164--11491199 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11491154 AGCCTGTGAT
11491164 TAAATAATATAAGGCAA
1 TAAATAATATAAGGCAA
* *
11491181 TAAATGATATGAGGCAA
1 TAAATAATATAAGGCAA
11491198 TA
1 TA
11491200 GACGAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (17 bp):
TAAATAATATAAGGCAA
Found at i:11491822 original size:21 final size:22
Alignment explanation
Indices: 11491771--11491825 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
11491761 TTTGAACCCA
* *
11491771 AATGAGAAACTTTAAACTTTTG
1 AATGAGAATCTTTAAACATTTG
* *
11491793 GATGTGAATCTTTAAA-ATTTG
1 AATGAGAATCTTTAAACATTTG
11491814 AATGAGAATCTT
1 AATGAGAATCTT
11491826 CAAATGTTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
AATGAGAATCTTTAAACATTTG
Found at i:11492132 original size:42 final size:42
Alignment explanation
Indices: 11492053--11492288 Score: 271
Period size: 42 Copynumber: 5.6 Consensus size: 42
11492043 GATAGGATTG
* *
11492053 TAGAGGAGCATTTTATTTTT-TAAAGTTGTGGTACCTCTATT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATT
* *
11492094 TAGATGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTCTT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATT
* *
11492136 TAGAGGAGTATTTTATTTTTC-AAAGTTGTGGTGCCTCTGTT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATT
* * *
11492177 TAGAGGAGTATTTTATTTTTCAAAAGTTGTAGTACCTCTATT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATT
* * * * *
11492219 TAGAGGAGCA-TTTATTTTTCTCAAAGTCGTTGAGCCTCTGTT
1 TAGAGGAGCATTTTATTTTTC-AAAAGTTGTGGTGCCTCTATT
* *
11492261 TAGATGAGCTTTGTTTACTTTTTCAAAA
1 TAGAGGAGC-AT-TTTA-TTTTTCAAAA
11492289 AAATGAAAAA
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
41 69 0.41
42 86 0.51
45 7 0.04
46 6 0.04
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (42 bp):
TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTATT
Found at i:11492173 original size:41 final size:42
Alignment explanation
Indices: 11492053--11492238 Score: 270
Period size: 41 Copynumber: 4.5 Consensus size: 42
11492043 GATAGGATTG
*
11492053 TAGAGGAGCATTTTATTTTT-TAAAGTTGTGGTACCTCTATT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTACCTCTATT
* * *
11492094 TAGATGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTCTT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTACCTCTATT
* * *
11492136 TAGAGGAGTATTTTATTTTTC-AAAGTTGTGGTGCCTCTGTT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTACCTCTATT
* *
11492177 TAGAGGAGTATTTTATTTTTCAAAAGTTGTAGTACCTCTATT
1 TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTACCTCTATT
11492219 TAGAGGAGCA-TTTATTTTTC
1 TAGAGGAGCATTTTATTTTTC
11492239 TCAAAGTCGT
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 69 0.52
42 63 0.48
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.46
Consensus pattern (42 bp):
TAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTACCTCTATT
Found at i:11492192 original size:83 final size:83
Alignment explanation
Indices: 11492053--11492288 Score: 303
Period size: 83 Copynumber: 2.8 Consensus size: 83
11492043 GATAGGATTG
* * * *
11492053 TAGAGGAGCATTTTATTTTTTAAAGTTGTGGTACCTCTATTTAGATGAGCATTTTATTTTTCAAA
1 TAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGATGAGTATTTTATTTTTCAAA
* * *
11492118 AGTTGTGGTGCCTCTCTT
66 AGTTGTAGTACCTCTATT
* *
11492136 TAGAGGAGTATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTATTTTATTTTTCAAA
1 TAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGATGAGTATTTTATTTTTCAAA
11492201 AGTTGTAGTACCTCTATT
66 AGTTGTAGTACCTCTATT
* * * *
11492219 TAGAGGAGCA-TTTATTTTTCTCAAAGTCGTTGAGCCTCTGTTTAGATGAGCTTTGTTTACTTTT
1 TAGAGGAGCATTTTA-TTTT-TCAAAGTTGTGGTGCCTCTGTTTAGATGAG-TAT-TTTA-TTTT
11492283 TCAAAA
61 TCAAAA
11492289 AAATGAAAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
82 4 0.03
83 87 0.65
84 26 0.20
85 2 0.02
86 4 0.03
87 10 0.08
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (83 bp):
TAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGATGAGTATTTTATTTTTCAAA
AGTTGTAGTACCTCTATT
Found at i:11493439 original size:18 final size:18
Alignment explanation
Indices: 11493412--11493447 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11493402 ATTAAATTTG
11493412 AAAAAAAATAAAA-AAAT
1 AAAAAAAATAAAATAAAT
11493429 AAAAAAGAATAAAATAAAT
1 AAAAAA-AATAAAATAAAT
11493448 TTTGGGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAAAATAAAATAAAT
Found at i:11499325 original size:17 final size:17
Alignment explanation
Indices: 11499303--11499341 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11499293 AAAAAAACTA
11499303 AAGAAAAGAAAGAAGAG
1 AAGAAAAGAAAGAAGAG
* * *
11499320 AAGAAAAGTAAGGAGTG
1 AAGAAAAGAAAGAAGAG
11499337 AAGAA
1 AAGAA
11499342 TATTGAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (17 bp):
AAGAAAAGAAAGAAGAG
Found at i:11501993 original size:17 final size:18
Alignment explanation
Indices: 11501955--11501995 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11501945 GGGATCTAAG
* *
11501955 TTTAAGGTTTGGATTCGG
1 TTTAGGGTTTGGATTCGA
11501973 TTTAGGGTTTGG-TTCGA
1 TTTAGGGTTTGGATTCGA
11501990 TTTAGG
1 TTTAGG
11501996 CATAAAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.15, C:0.05, G:0.34, T:0.46
Consensus pattern (18 bp):
TTTAGGGTTTGGATTCGA
Found at i:11503009 original size:16 final size:15
Alignment explanation
Indices: 11502980--11503019 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
11502970 TAAATTTCAT
*
11502980 TGCAAGAACATTAAAG
1 TGCAAGAA-ATTTAAG
*
11502996 TGCATGAAATTTAAG
1 TGCAAGAAATTTAAG
11503011 TGCAAGAAA
1 TGCAAGAAA
11503020 AGTAAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (15 bp):
TGCAAGAAATTTAAG
Found at i:11504776 original size:25 final size:25
Alignment explanation
Indices: 11504736--11504785 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
11504726 AACGACCCCT
11504736 TAATTTCAACTTTAAGTTCAATGTAG
1 TAATTTCAACTTTAAGTTC-ATGTAG
*
11504762 TAATTT-AATTTTAAGTTCATGTAG
1 TAATTTCAACTTTAAGTTCATGTAG
11504786 ACTTTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 11 0.48
26 6 0.26
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (25 bp):
TAATTTCAACTTTAAGTTCATGTAG
Found at i:11505283 original size:98 final size:103
Alignment explanation
Indices: 11505157--11505339 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 103
11505147 TGAAAAATTT
* * *
11505157 TTTTGGAATTTATTTATTTTAAATTATAAAACTAGATAAAATATA-C-AAA-TATATT-TATCT-
1 TTTTGAAATTTATTTATTTGAAACTATAAAACTAGATAAAATATATCAAAAGTATATTGTATCTA
*
11505217 AAAAATTAAAAACATAAAAACTTCTTCAAATTAAAAAA
66 AAAAATAAAAAACATAAAAACTTCTTCAAATTAAAAAA
** * * *
11505255 TTTTGAAATTTATTTATTTGAAACTATAAATTTTGGTAAAATATATCAAAAGTATATTGTATTTA
1 TTTTGAAATTTATTTATTTGAAACTATAAAACTAGATAAAATATATCAAAAGTATATTGTATCTA
*
11505320 AAAAATAAAAAATATAAAAA
66 AAAAATAAAAAACATAAAAA
11505340 AAAGAAAATT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
98 38 0.54
99 1 0.01
100 3 0.04
101 6 0.09
102 4 0.06
103 18 0.26
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (103 bp):
TTTTGAAATTTATTTATTTGAAACTATAAAACTAGATAAAATATATCAAAAGTATATTGTATCTA
AAAAATAAAAAACATAAAAACTTCTTCAAATTAAAAAA
Found at i:11510687 original size:21 final size:20
Alignment explanation
Indices: 11510653--11510702 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
11510643 CTCGAAATTA
11510653 ATAAAATA-TTTTTTAAAAT
1 ATAAAATATTTTTTTAAAAT
*
11510672 ATAAAATATTATTTTTTAAAT
1 ATAAAATATT-TTTTTAAAAT
11510693 AT-AAATATTT
1 ATAAAATATTT
11510703 AAAAATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 8 0.29
21 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTTTTTTAAAAT
Found at i:11510687 original size:22 final size:20
Alignment explanation
Indices: 11510659--11510701 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 20
11510649 ATTAATAAAA
11510659 TATTTTTTAAAATATAAAATAT
1 TATTTTTT-AAATAT-AAATAT
11510681 TATTTTTTAAATATAAATAT
1 TATTTTTTAAATATAAATAT
11510701 T
1 T
11510702 TAAAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTTTTAAATATAAATAT
Found at i:11513069 original size:18 final size:18
Alignment explanation
Indices: 11513046--11513082 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11513036 ATTTTTTATT
11513046 ACAATAATTGCCAGTTGC
1 ACAATAATTGCCAGTTGC
11513064 ACAATAATTGCCAGTTGC
1 ACAATAATTGCCAGTTGC
11513082 A
1 A
11513083 TGGACTGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
ACAATAATTGCCAGTTGC
Found at i:11516138 original size:21 final size:20
Alignment explanation
Indices: 11516101--11516164 Score: 85
Period size: 20 Copynumber: 3.1 Consensus size: 20
11516091 TTAAAACAAG
* *
11516101 ATTTTAAAAATTTTTTATAA
1 ATTTTAAAAACTTTTTAAAA
11516121 ATTTTAAAGAACTTTTTAAAA
1 ATTTTAAA-AACTTTTTAAAA
11516142 ATTTTAAAATAC-TTTTAAAA
1 ATTTTAAAA-ACTTTTTAAAA
11516162 ATT
1 ATT
11516165 ATGCAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 20 0.50
21 20 0.50
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTTAAAAACTTTTTAAAA
Found at i:11516159 original size:11 final size:9
Alignment explanation
Indices: 11516101--11516164 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 9
11516091 TTAAAACAAG
11516101 ATTTTAAAA
1 ATTTTAAAA
*
11516110 ATTTTTTATAA
1 A--TTTTAAAA
11516121 ATTTTAAAGA
1 ATTTTAAA-A
11516131 ACTTTTTAAAA
1 A--TTTTAAAA
11516142 ATTTTAAAA
1 ATTTTAAAA
11516151 TACTTTTAAAA
1 -A-TTTTAAAA
11516162 ATT
1 ATT
11516165 ATGCAAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
9 17 0.37
10 4 0.09
11 18 0.39
12 7 0.15
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:11516713 original size:17 final size:18
Alignment explanation
Indices: 11516693--11516740 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
11516683 TTTGTGAATG
*
11516693 TTTTTAAAATTTTTTA-T
1 TTTTTAAAATTTTTGAGT
* *
11516710 TTTTAAAAAAATTTTGAGT
1 TTTT-TAAAATTTTTGAGT
11516729 TTTTTAAAATTT
1 TTTTTAAAATTT
11516741 CTTAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTTAAAATTTTTGAGT
Found at i:11517953 original size:5 final size:5
Alignment explanation
Indices: 11517943--11517968 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11517933 TTAATTATGA
11517943 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
11517969 ACAAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:11519490 original size:5 final size:5
Alignment explanation
Indices: 11519482--11519516 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
11519472 ACTAGAGGAG
*
11519482 AGAAA AGAAA AAAAA AGAAA AG-AA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
11519517 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:11520398 original size:64 final size:63
Alignment explanation
Indices: 11520320--11521151 Score: 502
Period size: 64 Copynumber: 13.1 Consensus size: 63
11520310 TTGGGTTTAC
* * *
11520320 AAAAAATCTCATCTAATGCCAACTTAATTGGACTTAAAATCTCAGTGCTAGCCATATTGAACTT
1 AAAAAATCTCATCTAATGCCAACTTAATTGG-CTTAAAATCTCAGTGCTAGCTAGATTGGACTT
* *
11520384 AAAAAATCTCATCTAATGCCAA-TTGAAGTAGGCTTAAAATCTC-GATGCCAGCTAGATTGGACT
1 AAAAAATCTCATCTAATGCCAACTT-AA-TTGGCTTAAAATCTCAG-TGCTAGCTAGATTGGACT
11520447 T
63 T
* * * * *
11520448 AAAAATTTTCATCTAATGTCAACTTAACT-GC--AAAATCTCAGTGCCTA-TTAGATTGGACTT
1 AAAAAATCTCATCTAATGCCAACTTAATTGGCTTAAAATCTCAGTG-CTAGCTAGATTGGACTT
* * * * * *
11520508 AAAAAATCCCATCTAATGCCAACTTAAGTGGACTTAAAATCT-TGATACCAGCTAGATTAGACTT
1 AAAAAATCTCATCTAATGCCAACTTAATTGG-CTTAAAATCTCAG-TGCTAGCTAGATTGGACTT
* ** * * *
11520572 AAAAAATCTCAT-TCAATACCAACACAACTAGGCTTAACAATCTCCA-TAC-AGCTAGATTGGGC
1 AAAAAATCTCATCT-AATGCCAACTTAA-TTGGCTTAA-AATCT-CAGTGCTAGCTAGATTGGAC
11520634 TT
62 TT
* ** * * * * * * *
11520636 AAAAAAACTCAAATAATACCAACTT-ATCTAGACTTAAAATCT-TGCTGCCAACTGGATTGAACT
1 AAAAAATCTCATCTAATGCCAACTTAAT-T-GGCTTAAAATCTCAG-TGCTAGCTAGATTGGACT
11520699 T
63 T
* * * * * *
11520700 AAAAAATCTCATCCAATGCCAATTTAACT-GCATTTAAAATCTCAATGCTAGCTAGGTT-AAGCT
1 AAAAAATCTCATCTAATGCCAACTTAATTGGC--TTAAAATCTCAGTGCTAGCTAGATTGGA-CT
11520763 T
63 T
* * * * * *
11520764 AAAAAATCTTATCTAATGCCAACTTAACT-GC--AAAATCTTAATGTCTA-TTAGATTGGGCTT
1 AAAAAATCTCATCTAATGCCAACTTAATTGGCTTAAAATCTCAGTG-CTAGCTAGATTGGACTT
* * * * ** * * * *
11520824 AAAAAATCTTATCCAATGCCAAATTAGTTGGACTTAAAATCTTGGTACTAGTTAGATTAGGCCTA
1 AAAAAATCTCATCTAATGCCAACTTAATTGG-CTTAAAATCTCAGTGCTAGCTAGATT-GGACTT
* * * *
11520889 AAAAAATCTTAT-TCAATGCCAACTTAACTAGGCTTAACAATCTCAATGC-AGCTAGATTGGGCT
1 AAAAAATCTCATCT-AATGCCAACTTAA-TTGGCTTAA-AATCTCAGTGCTAGCTAGATTGGACT
11520952 T
63 T
* * ** * * * * *
11520953 AAGAAACTTTCAAATAATACCAACTTAACTAGG-TTCAAAATCTCAATGCCAGCTAGATT-AAGC
1 AA-AAAATCTCATCTAATGCCAACTTAA-TTGGCTT-AAAATCTCAGTGCTAGCTAGATTGGA-C
11521016 TT
62 TT
* * * * ** *
11521018 AAAAAATCTCATCCAATGGCAACTTAATTGGACTTAAAATCTCGGTGCCAATTAGATTGGGCTT
1 AAAAAATCTCATCTAATGCCAACTTAATTGG-CTTAAAATCTCAGTGCTAGCTAGATTGGACTT
* * * * * * * *
11521082 AAATAATCTCATCCAATGTCAACTTATTTGGGCTTAACAATCTCATTGCCAACTAGATTGGATTT
1 AAAAAATCTCATCTAATGCCAACTTAATT-GGCTTAA-AATCTCAGTGCTAGCTAGATTGGACTT
11521147 AAAAA
1 AAAAA
11521152 CCAATGGATC
Statistics
Matches: 604, Mismatches: 115, Indels: 97
0.74 0.14 0.12
Matches are distributed among these distances:
60 90 0.15
61 8 0.01
62 6 0.01
63 23 0.04
64 340 0.56
65 126 0.21
66 11 0.02
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (63 bp):
AAAAAATCTCATCTAATGCCAACTTAATTGGCTTAAAATCTCAGTGCTAGCTAGATTGGACTT
Found at i:11520661 original size:188 final size:191
Alignment explanation
Indices: 11520320--11520786 Score: 473
Period size: 188 Copynumber: 2.5 Consensus size: 191
11520310 TTGGGTTTAC
* * * * *
11520320 AAAAAATCTCATCTAATGCCAACTTAATTGGACTTAAAATCTCAGTGCTAGCCATATT-GAACTT
1 AAAAAATCTCATCTAATGCCAACTTAACTGGACTTAAAATCTTAATGCTAGCTAGATTAG-ACTT
* *** * * *
11520384 AAAAAATCTCATCTAATGCCAATTGAAGTAGGCTTAAAATCTCGATGCCAGCTAGATTGGACTTA
65 AAAAAATCTCATCTAATACCAACACAACTAGGCTTAAAATCTCCATGACAGCTAGATTGGACTTA
*** ** ** * * *
11520449 AAAATTTTCATCTAATGTCAACTTAACT-G-C-AAAATCTCAG-TGCCTATTAGATTGGACTT
130 AAAAAACTCAAATAATACCAACTTAACTAGACTAAAATCT-AGCTGCCAACTAGATTGAACTT
* * * * *
11520508 AAAAAATCCCATCTAATGCCAACTTAAGTGGACTTAAAATCTTGATACCAGCTAGATTAGACTTA
1 AAAAAATCTCATCTAATGCCAACTTAACTGGACTTAAAATCTTAATGCTAGCTAGATTAGACTTA
*
11520573 AAAAATCTCAT-TCAATACCAACACAACTAGGCTTAACAATCTCCAT-ACAGCTAGATTGGGCTT
66 AAAAATCTCATCT-AATACCAACACAACTAGGCTTAA-AATCTCCATGACAGCTAGATTGGACTT
* * *
11520636 AAAAAAACTCAAATAATACCAACTTATCTAGACTTAAAATCTTGCTGCCAACTGGATTGAACTT
129 AAAAAAACTCAAATAATACCAACTTAACTAGAC-TAAAATCTAGCTGCCAACTAGATTGAACTT
* * * * * *
11520700 AAAAAATCTCATCCAATGCCAATTTAACTGCATTTAAAATCTCAATGCTAGCTAGGTTA-AGCTT
1 AAAAAATCTCATCTAATGCCAACTTAACTGGACTTAAAATCTTAATGCTAGCTAGATTAGA-CTT
* *
11520764 AAAAAATCTTATCTAATGCCAAC
65 AAAAAATCTCATCTAATACCAAC
11520787 TTAACTGCAA
Statistics
Matches: 226, Mismatches: 43, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
187 1 0.00
188 119 0.53
189 10 0.04
190 1 0.00
191 2 0.01
192 92 0.41
193 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (191 bp):
AAAAAATCTCATCTAATGCCAACTTAACTGGACTTAAAATCTTAATGCTAGCTAGATTAGACTTA
AAAAATCTCATCTAATACCAACACAACTAGGCTTAAAATCTCCATGACAGCTAGATTGGACTTAA
AAAAACTCAAATAATACCAACTTAACTAGACTAAAATCTAGCTGCCAACTAGATTGAACTT
Found at i:11523322 original size:19 final size:19
Alignment explanation
Indices: 11523298--11523335 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11523288 CACCCCATCA
*
11523298 TTTTATTTTTTTATTTTTC
1 TTTTATTGTTTTATTTTTC
*
11523317 TTTTATTGTTTTGTTTTTC
1 TTTTATTGTTTTATTTTTC
11523336 ACTTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTATTGTTTTATTTTTC
Found at i:11526613 original size:17 final size:17
Alignment explanation
Indices: 11526591--11526625 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11526581 AAGATGCAAG
*
11526591 TTCATTTCTTTTAAGGA
1 TTCATTTCTTTAAAGGA
11526608 TTCATTTCTTTAAAGGA
1 TTCATTTCTTTAAAGGA
11526625 T
1 T
11526626 ATGCTGAAAC
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:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (17 bp):
TTCATTTCTTTAAAGGA
Found at i:11532756 original size:484 final size:482
Alignment explanation
Indices: 11531838--11532765 Score: 1086
Period size: 484 Copynumber: 1.9 Consensus size: 482
11531828 GTTGAGTACT
* * *
11531838 AGTTTTAAATTTTGTTGAAGACCCAATATAATATTTAAATAGGATTAACAATTATGTTTAAAATC
1 AGTTTTAAATTTTATTGAAGACCCAATATAAAATTTAAATAGGATTAAAAATTATGTTTAAAATC
* *
11531903 ATTTAATGAGTTTTAATTTTTTGTTCAAGTCATGATTAGTTCAGTTGGATAGACAAATGACTTTG
66 ATTTAATGAGTTTTAATTTTTTGTTAAAGTCATGATTAGTTCAGTTGGATAAACAAATGACTTTG
* * * *
11531968 ATTTGGTACATCAAAATGTTTGCATCGAATTGTTTTCACGAGACTAAAAACTTAAAATCACAAAG
131 ATTTGGTACACCAAAATGTTTGCACCGAATTGTCTTCACGAGACTAAAAACCTAAAATCACAAAG
* * * * ** ***
11532033 TTGGAGGTCGGTTAAAAGCAAATATTAGAGGTTTACTTAACGTTTACATTTTGATGTTCAAGTCA
196 TTAGAGGTCGGTTAAAAGCAAAGACTAGAGGTTTACTTAACGTATACATTTCAACACTCAAGTCA
* **
11532098 ATGCTCAAAAAAAAAGAAAAAAAAAAATCTTAAGAAGAGAGAGAAAAATTGAATGAATATATTAG
261 ATACTCAAAAAAAAAGAAAAAAAAAAATCTTAAGAAGAGAGAGAAAAATCAAATGAATATATTAG
* *
11532163 ATGTGAGAAGAGTTATTTATATTTGTAGAGTAAAAATGTCTCAAGTTTACGGTTAAAAATGCTAA
326 ATATGAGAAGAGTTATTTATATTTGTAGAGTAAAAATGTCTCAAGTTTACGGCTAAAAATGCTAA
* * * *
11532228 TCCGATCTAACTTAGAAGGTTACAATTCAAGTAAGAGATAATAAGTCAGCATTCATATATATATG
391 CCCGATCTAACCTAGAAGGTTACAATCCAAGTAAGAGATAATAAGTAAGCATTCATATATATATG
11532293 AATTTGGATTAAGTTGAGTTGGACTTG
456 AATTTGGATTAAGTTGAGTTGGACTTG
* * * *
11532320 AGTTTTAAATTTTATTTAAGACCTAATATAAAATTTAAATAGGTTTAAAAATTATGTTTAAAATT
1 AGTTTTAAATTTTATTGAAGACCCAATATAAAATTTAAATAGGATTAAAAATTATGTTTAAAATC
* * * ** ** *
11532385 GTTTAATGAGTTTTAATTTTTTTTTGTTAAAGTTATGATTGGTTTGGTTGTTTAAACAAATGATT
66 ATTTAATGAGTTTTAA---TTTTTTGTTAAAGTCATGATTAGTTCAGTTGGATAAACAAATGACT
* * ** * * * *
11532450 TTTATTTGTTATGCCAAAATGTTTGCGCCGAATTGTCTTCATGA-AGC-CAACACCTAAAATCAC
128 TTGATTTGGTACACCAAAATGTTTGCACCGAATTGTCTTCACGAGA-CTAAAAACCTAAAATCAC
* * * * **
11532513 AAGGTTAGAGGTTGGTTAAAAGCAAAGGCTAGAGGTTT-TTCTAACGTATATGTTTCAACACTCA
192 AAAGTTAGAGGTCGGTTAAAAGCAAAGACTAGAGGTTTACT-TAACGTATACATTTCAACACTCA
* * *
11532577 AGTCAATATTCGAGAAAAGAAAA-AAAGAGAAAAATCTTAAGAA-A-AGAGAAAAATCAAATGAA
256 AGTCAATACTC-A-AAAA-AAAAGAAAAAAAAAAATCTTAAGAAGAGAGAGAAAAATCAAATGAA
* * * *
11532639 TATACTT-GATATGAGAATAGTTATTTATATTTGTAGAGTGAAAATGTCAT-GAGTTTAGGGCTA
318 TATA-TTAGATATGAGAAGAGTTATTTATATTTGTAGAGTAAAAATGTC-TCAAGTTTACGGCTA
* * * *
11532702 AAAAT-CTTGACCCGA-CTTGACCTA-ATAGGTTACAATCCAAGTAGGAGGTAATAAGTAAGCAT
381 AAAATGC-TAACCCGATC-TAACCTAGA-AGGTTACAATCCAAGTAAGAGATAATAAGTAAGCAT
11532764 TC
443 TC
11532766 TATGTGCCTT
Statistics
Matches: 369, Mismatches: 64, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
482 73 0.20
483 4 0.01
484 188 0.51
485 78 0.21
486 22 0.06
487 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (482 bp):
AGTTTTAAATTTTATTGAAGACCCAATATAAAATTTAAATAGGATTAAAAATTATGTTTAAAATC
ATTTAATGAGTTTTAATTTTTTGTTAAAGTCATGATTAGTTCAGTTGGATAAACAAATGACTTTG
ATTTGGTACACCAAAATGTTTGCACCGAATTGTCTTCACGAGACTAAAAACCTAAAATCACAAAG
TTAGAGGTCGGTTAAAAGCAAAGACTAGAGGTTTACTTAACGTATACATTTCAACACTCAAGTCA
ATACTCAAAAAAAAAGAAAAAAAAAAATCTTAAGAAGAGAGAGAAAAATCAAATGAATATATTAG
ATATGAGAAGAGTTATTTATATTTGTAGAGTAAAAATGTCTCAAGTTTACGGCTAAAAATGCTAA
CCCGATCTAACCTAGAAGGTTACAATCCAAGTAAGAGATAATAAGTAAGCATTCATATATATATG
AATTTGGATTAAGTTGAGTTGGACTTG
Found at i:11534940 original size:15 final size:15
Alignment explanation
Indices: 11534920--11534948 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11534910 TAAATAAACG
11534920 AAAATAATTATAAAT
1 AAAATAATTATAAAT
11534935 AAAATAATTATAAA
1 AAAATAATTATAAA
11534949 AATTCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAATTATAAAT
Done.