Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 111 of 126
Found at i:21985116 original size:21 final size:22
Alignment explanation
Indices: 21985079--21985121 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
21985069 TATATGTTGA
21985079 AAATATATATAAAATAT-AAAT
1 AAATATATATAAAATATCAAAT
*
21985100 AAATATA-ATTAAGATATCAAAT
1 AAATATATA-TAAAATATCAAAT
21985122 CATAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATATATATAAAATATCAAAT
Found at i:21986963 original size:58 final size:56
Alignment explanation
Indices: 21986893--21987024 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 56
21986883 TCGAATTTTA
* * * * *
21986893 AGGGTTTGGATTTAAGTTTTGATGGTTTTAGGGTTT-GGTTTTAAGGTATGAAAGATTT
1 AGGGTTTTGATTTAAG-TTTGAAGATTTTAGGGTTTCGATTTTAAAGTATG--AGATTT
* *
21986951 AGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGGTTTCGATTTTAAATTTTGAGATTT
1 AGGGTTTTGA-TTTA-AGTTTGAAGATTTTAGGGTTTCGATTTTAAAGTATGAGATTT
*
21987009 GGGGTTTTGATTTAAG
1 AGGGTTTTGATTTAAG
21987025 GGATTTTGGA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
56 2 0.03
57 4 0.06
58 24 0.38
59 21 0.33
60 12 0.19
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.48
Consensus pattern (56 bp):
AGGGTTTTGATTTAAGTTTGAAGATTTTAGGGTTTCGATTTTAAAGTATGAGATTT
Found at i:21986982 original size:30 final size:29
Alignment explanation
Indices: 21986887--21987021 Score: 109
Period size: 30 Copynumber: 4.6 Consensus size: 29
21986877 GAAGGTTCGA
* *
21986887 ATTTTAAGGGTTTGGA-TTTAAGTTTTGATG
1 ATTTT-AGGGTTTTGATTTTAAG-TTTGAAG
* * *
21986917 GTTTTAGGG-TTTGGTTTTAAGGTATGAAAG
1 ATTTTAGGGTTTTGATTTTAA-GTTTG-AAG
21986947 A-TTTAGGGTTTTGATTTTAGAGTTTGAAG
1 ATTTTAGGGTTTTGATTTTA-AGTTTGAAG
* *
21986976 ATTTTAGGGTTTCGATTTTAAATTTTG-AG
1 ATTTTAGGGTTTTGATTTT-AAGTTTGAAG
*
21987005 A-TTTGGGGTTTTGATTT
1 ATTTTAGGGTTTTGATTT
21987022 AAGGGATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
28 17 0.20
29 26 0.30
30 41 0.48
31 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.50
Consensus pattern (29 bp):
ATTTTAGGGTTTTGATTTTAAGTTTGAAG
Found at i:21987006 original size:29 final size:29
Alignment explanation
Indices: 21986887--21987042 Score: 99
Period size: 30 Copynumber: 5.3 Consensus size: 29
21986877 GAAGGTTCGA
* *
21986887 ATTTTAAGGGTTTGGA-TTTAAGTTTTGATG
1 ATTTT-AGGGTTTTGATTTTAAATTTTGA-G
* * ** *
21986917 GTTTTAGGG-TTTGGTTTTAAGGTATGAAAG
1 ATTTTAGGGTTTTGATTTTAAATTTTG--AG
* *
21986947 A-TTTAGGGTTTTGATTTTAGAGTTTGAAG
1 ATTTTAGGGTTTTGATTTTAAATTTTG-AG
*
21986976 ATTTTAGGGTTTCGATTTTAAATTTTGAG
1 ATTTTAGGGTTTTGATTTTAAATTTTGAG
*
21987005 A-TTTGGGGTTTTGA-TTTAAGGGATTTTG-G
1 ATTTTAGGGTTTTGATTTTAA---ATTTTGAG
21987034 ATTTTAGGG
1 ATTTTAGGG
21987043 GTTTAGAAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
27 5 0.05
28 14 0.14
29 29 0.29
30 52 0.51
31 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (29 bp):
ATTTTAGGGTTTTGATTTTAAATTTTGAG
Found at i:21987326 original size:3 final size:3
Alignment explanation
Indices: 21987320--21987362 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
21987310 ATAATTAATC
*
21987320 TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21987363 TTAAGCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:21987399 original size:12 final size:12
Alignment explanation
Indices: 21987314--21987422 Score: 52
Period size: 12 Copynumber: 9.0 Consensus size: 12
21987304 ATAATAATAA
21987314 TTAATCTATTATT
1 TTAAT-TATTATT
21987327 ATT-ATTATTATT
1 -TTAATTATTATT
*
21987339 ATT-ATTAGTATT
1 -TTAATTATTATT
21987351 ATT-ATTATTATT
1 -TTAATTATTATT
**
21987363 TTAAGCA-T-TT
1 TTAATTATTATT
21987373 TTAA-TATATATTT
1 TTAATTAT-TA-TT
21987386 TTAATTATTATT
1 TTAATTATTATT
* *
21987398 TTACTTACTTGTT
1 TTAATTA-TTATT
21987411 TTCAATT-TTATT
1 TT-AATTATTATT
21987423 ATTATTAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
9 1 0.01
10 6 0.08
11 4 0.05
12 43 0.55
13 16 0.21
14 8 0.10
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (12 bp):
TTAATTATTATT
Found at i:21989728 original size:210 final size:211
Alignment explanation
Indices: 21989335--21989754 Score: 698
Period size: 210 Copynumber: 2.0 Consensus size: 211
21989325 AAGTTTCAAA
** * *
21989335 TGCAATTAAGATGATAGTAGATTTTTTATTCTAAAAAGAAAACATATCTGAATTACATCTCATAA
1 TGCAATTAAGATGATAGTAGATTTTCGATACTAAAAAGAAAACATATCTGAATTACATCACATAA
* *
21989400 CTCTTTTGTAAATTGGTGGCTGTACAGAGATTTGCATATGATTTTCTTTTAAATTACATATTCTT
66 CTCTTTTGTAAATTGGTGGCTGTACAGAGATTTGCATATGATTTTCTTTCAAATTACATATTCCT
* * * *
21989465 GGTTGTTAGAAGGGTTGGTTCAAGTACATATTTGATCGTTCAAAGAGTTGAATTTGTTTTTGAGT
131 CGTTGTTAGAAGGGTTGGTTCAAATACATATTTGATCGTTCAAAGAATTGAATTTGTTTTTGAGC
21989530 ATGATAAGAAAAGTCT
196 ATGATAAGAAAAGTCT
21989546 TGCAATTAAGATGATAGTAGATTTTCGATACTAAAAAGAAAACATATCTGAATTACATCACATAA
1 TGCAATTAAGATGATAGTAGATTTTCGATACTAAAAAGAAAACATATCTGAATTACATCACATAA
* *
21989611 TTCTTTTGTAAATTGGTGGC-GTATAGAGATTTGCATATGATTTTCTTTCAAATTACATATTCCT
66 CTCTTTTGTAAATTGGTGGCTGTACAGAGATTTGCATATGATTTTCTTTCAAATTACATATTCCT
* *
21989675 CGTTTTTAGGAGGGTTGGTTCAAATACATATTTGATCGTTCAAAGAATTGAATTTGTTTTTGAGC
131 CGTTGTTAGAAGGGTTGGTTCAAATACATATTTGATCGTTCAAAGAATTGAATTTGTTTTTGAGC
*
21989740 CTGATAAGAAAAGTC
196 ATGATAAGAAAAGTC
21989755 ATCTCATTGA
Statistics
Matches: 194, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
210 114 0.59
211 80 0.41
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (211 bp):
TGCAATTAAGATGATAGTAGATTTTCGATACTAAAAAGAAAACATATCTGAATTACATCACATAA
CTCTTTTGTAAATTGGTGGCTGTACAGAGATTTGCATATGATTTTCTTTCAAATTACATATTCCT
CGTTGTTAGAAGGGTTGGTTCAAATACATATTTGATCGTTCAAAGAATTGAATTTGTTTTTGAGC
ATGATAAGAAAAGTCT
Found at i:21995131 original size:30 final size:30
Alignment explanation
Indices: 21995090--21995192 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
21995080 TTTTATCCAA
* *
21995090 TTAAAAGTTTAATTGGGTGAAAATAAATAT
1 TTAAAAGTTTAATTAGATGAAAATAAATAT
* *
21995120 TTAAGAGTTTAATTAGATGAAAATAATTAT
1 TTAAAAGTTTAATTAGATGAAAATAAATAT
* * *
21995150 TT-AAAGATTCAATTAGTTAAAAATAAATAT
1 TTAAAAG-TTTAATTAGATGAAAATAAATAT
*
21995180 TTAAAAATTTAAT
1 TTAAAAGTTTAAT
21995193 CGATTACAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 3 0.05
30 54 0.90
31 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.11, T:0.39
Consensus pattern (30 bp):
TTAAAAGTTTAATTAGATGAAAATAAATAT
Found at i:21997547 original size:21 final size:21
Alignment explanation
Indices: 21997523--21997564 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
21997513 AAGTTTAACA
21997523 TAAT-AATTAATTTTATTATAT
1 TAATCAATTAA-TTTATTATAT
* *
21997544 TAATCTATTTATTTATTATAT
1 TAATCAATTAATTTATTATAT
21997565 ACTTTAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATCAATTAATTTATTATAT
Found at i:22004705 original size:21 final size:22
Alignment explanation
Indices: 22004669--22004736 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 22
22004659 TTCCTTTCTT
* *
22004669 TTTCTTTCCCTTTTTTCTGCAC
1 TTTCTTTTCTTTTTTTCTGCAC
* *
22004691 TTT-TTTTTTTTTTTTTTGCA-
1 TTTCTTTTCTTTTTTTCTGCAC
* *
22004711 TTTCTTTTCTCTTTCTCTGCAC
1 TTTCTTTTCTTTTTTTCTGCAC
22004733 TTTC
1 TTTC
22004737 ACTAATCTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 3 0.08
21 26 0.72
22 7 0.19
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.68
Consensus pattern (22 bp):
TTTCTTTTCTTTTTTTCTGCAC
Found at i:22009350 original size:34 final size:34
Alignment explanation
Indices: 22009307--22009406 Score: 173
Period size: 34 Copynumber: 2.9 Consensus size: 34
22009297 GTGAGTCATT
*
22009307 CACTCTTCAAAAAGAAAAGGAAAAAGGATTTATA
1 CACTCTTCAAAAAGAAAAGGAAAAAGGACTTATA
*
22009341 CACTCTTCAAAAAGAAAAGGAAAAGGGACTTATA
1 CACTCTTCAAAAAGAAAAGGAAAAAGGACTTATA
*
22009375 CACTCTTCAAAAAGAAAAGTAAAAAGGACTTA
1 CACTCTTCAAAAAGAAAAGGAAAAAGGACTTA
22009407 CTTTATGGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (34 bp):
CACTCTTCAAAAAGAAAAGGAAAAAGGACTTATA
Found at i:22015337 original size:1 final size:1
Alignment explanation
Indices: 22015331--22015356 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22015321 CCTTGAAACC
22015331 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
22015357 CTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22015689 original size:23 final size:25
Alignment explanation
Indices: 22015663--22015722 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
22015653 TCGCTCGATT
22015663 AAGCTCGATTAATATA-T-AAAAAA
1 AAGCTCGATTAATATACTCAAAAAA
**
22015686 AAGCTCGATTTTTATACTCGAAAAAA
1 AAGCTCGATTAATATACTC-AAAAAA
*
22015712 AAACTCGATTA
1 AAGCTCGATTA
22015723 TTCGAGCTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 14 0.47
24 1 0.03
26 15 0.50
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (25 bp):
AAGCTCGATTAATATACTCAAAAAA
Found at i:22015732 original size:27 final size:26
Alignment explanation
Indices: 22015680--22015733 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
22015670 ATTAATATAT
* * *
22015680 AAAAAAAAGCTCGATTTTTATACTCG
1 AAAAAAAAACTCGATTATTAGACTCG
*
22015706 AAAAAAAAACTCGATTATTCGAGCTCG
1 AAAAAAAAACTCGATTATTAGA-CTCG
22015733 A
1 A
22015734 GCTCGAGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (26 bp):
AAAAAAAAACTCGATTATTAGACTCG
Found at i:22015808 original size:12 final size:12
Alignment explanation
Indices: 22015791--22015818 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22015781 TATTTTCAAG
22015791 ATAACAACAACA
1 ATAACAACAACA
22015803 ATAACAACAACA
1 ATAACAACAACA
22015815 ATAA
1 ATAA
22015819 TAATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.21, G:0.00, T:0.11
Consensus pattern (12 bp):
ATAACAACAACA
Found at i:22019545 original size:25 final size:25
Alignment explanation
Indices: 22019508--22019561 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
22019498 TCCCCATAAT
* *
22019508 ATTCATAAGGGTATTTAATTTAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
22019533 ATTCATAAAGGTATTTAATTAAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
22019558 ATTC
1 ATTC
22019562 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (25 bp):
ATTCATAAAGGTATTTAATTAAGGC
Found at i:22019818 original size:19 final size:19
Alignment explanation
Indices: 22019794--22019831 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22019784 GAATGGGTTT
*
22019794 TGTTGAAGCTGCTGTAAAC
1 TGTTGAAGCTGCTGCAAAC
22019813 TGTTGAAGCTGCTGCAAAC
1 TGTTGAAGCTGCTGCAAAC
22019832 GTCGAAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (19 bp):
TGTTGAAGCTGCTGCAAAC
Found at i:22019902 original size:57 final size:55
Alignment explanation
Indices: 22019827--22020034 Score: 309
Period size: 57 Copynumber: 3.8 Consensus size: 55
22019817 GAAGCTGCTG
* *
22019827 CAAACGTCGAAGGGGTTCTGTTCAAGATCTGTAAATTGTTGAAGCTGTTGCAAGCTA
1 CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTG-TG-AAGCTA
*
22019884 CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGC--T---GCTG
1 CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGTGAAGCTA
*
22019934 CAAACGTCGAATGGGTTTTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGTAAGCTA
1 CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTG-TG-AAGCTA
22019991 CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAG
1 CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAG
22020035 TTACTGCAAA
Statistics
Matches: 138, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
50 47 0.34
53 1 0.01
54 1 0.01
57 89 0.64
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (55 bp):
CAAACGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGTGAAGCTA
Found at i:22020050 original size:37 final size:37
Alignment explanation
Indices: 22020008--22020080 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
22019998 CGAATGGGTT
** *
22020008 CTGTTCAAGATCTGTAAACTGTTGAAGTTACTGCAAA
1 CTGTTCAAGATCTACAAACTGTTGAAGCTACTGCAAA
*
22020045 CTGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAA
1 CTGTTCAAGATCTACAAACTGTTGAAGCTACTGCAA
22020081 GCTGCAAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (37 bp):
CTGTTCAAGATCTACAAACTGTTGAAGCTACTGCAAA
Found at i:22020064 original size:18 final size:18
Alignment explanation
Indices: 22020008--22020067 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
22019998 CGAATGGGTT
*
22020008 CTGTTCAAGATCTGTAAA
1 CTGTTCAAGATCTGCAAA
* *
22020026 CTGTTGAAGTTACTGCAAA
1 CTGTTCAAGAT-CTGCAAA
*
22020045 CTGTTCAAGATCTACAAA
1 CTGTTCAAGATCTGCAAA
22020063 CTGTT
1 CTGTT
22020068 GAAGCTGCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.57
19 15 0.43
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (18 bp):
CTGTTCAAGATCTGCAAA
Found at i:22020113 original size:94 final size:94
Alignment explanation
Indices: 22019952--22020362 Score: 687
Period size: 94 Copynumber: 4.4 Consensus size: 94
22019942 GAATGGGTTT
** * *
22019952 TGTTCAAGATCTGTAAACTGTTGAAGCTGCTGTAAGCTACAAACGTCGAATGGGTTCTGTTCAAG
1 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAG
* *
22020017 ATCTGTAAACTGTTGAAGTTACTGCAAAC
66 ATCTGTAAACTGTTGAAGCTGCTGCAAAC
22020046 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAG
1 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAG
*
22020111 ATCTATAAACTGTTGAAGCTGCTGCAAAC
66 ATCTGTAAACTGTTGAAGCTGCTGCAAAC
* ** *
22020140 TATTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGTAAACGTCGAATGGGTTCTGTTCAAG
1 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAG
* *
22020205 ATCTGTAAACTATTGAAGCTGCTGTAAAC
66 ATCTGTAAACTGTTGAAGCTGCTGCAAAC
* *
22020234 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGTAAACGTCGAATAGGTTCTGTTCAAG
1 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAG
22020299 ATCTGTAAACTGTTGAAGCTGCTGCAAAC
66 ATCTGTAAACTGTTGAAGCTGCTGCAAAC
22020328 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAA
1 TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAA
22020363 ACTATTGAAG
Statistics
Matches: 297, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 297 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (94 bp):
TGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAGCTGCAAACGTCGAATGGGTTCTGTTCAAG
ATCTGTAAACTGTTGAAGCTGCTGCAAAC
Found at i:22020231 original size:19 final size:19
Alignment explanation
Indices: 22020207--22020265 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
22020197 TGTTCAAGAT
*
22020207 CTGTAAACTATTGAAGCTG
1 CTGTAAACTGTTGAAGCTG
* *
22020226 CTGTAAACTGTTCAAGAT-
1 CTGTAAACTGTTGAAGCTG
**
22020244 CTACAAACTGTTGAAGCTG
1 CTGTAAACTGTTGAAGCTG
22020263 CTG
1 CTG
22020266 CAAGCTGTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (19 bp):
CTGTAAACTGTTGAAGCTG
Found at i:22020329 original size:19 final size:19
Alignment explanation
Indices: 22020305--22020381 Score: 111
Period size: 19 Copynumber: 4.1 Consensus size: 19
22020295 CAAGATCTGT
22020305 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
* * *
22020324 AAACTGTTCAAGAT-CTAC
1 AAACTGTTGAAGCTGCTGC
22020342 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
*
22020361 AAACTATTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGC
22020380 AA
1 AA
22020382 GCTACAAACG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
18 15 0.30
19 35 0.70
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
AAACTGTTGAAGCTGCTGC
Found at i:22020331 original size:37 final size:37
Alignment explanation
Indices: 22020290--22020365 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
22020280 CGAATAGGTT
**
22020290 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAA
22020327 CTGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAA
22020364 CT
1 CT
22020366 ATTGAAGCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (37 bp):
CTGTTCAAGATCTACAAACTGTTGAAGCTGCTGCAAA
Found at i:22020346 original size:18 final size:18
Alignment explanation
Indices: 22020290--22020365 Score: 80
Period size: 18 Copynumber: 4.1 Consensus size: 18
22020280 CGAATAGGTT
*
22020290 CTGTTCAAGATCTGTAAA
1 CTGTTCAAGATCTGCAAA
* *
22020308 CTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGAT-CTGCAAA
*
22020327 CTGTTCAAGATCTACAAA
1 CTGTTCAAGATCTGCAAA
* *
22020345 CTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGAT-CTGCAAA
22020364 CT
1 CT
22020366 ATTGAAGCTG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 24 0.51
19 23 0.49
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (18 bp):
CTGTTCAAGATCTGCAAA
Found at i:22020411 original size:14 final size:14
Alignment explanation
Indices: 22020392--22020418 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22020382 GCTACAAACG
22020392 TCGAATGGGTTCTA
1 TCGAATGGGTTCTA
22020406 TCGAATGGGTTCT
1 TCGAATGGGTTCT
22020419 GTTCAAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.37
Consensus pattern (14 bp):
TCGAATGGGTTCTA
Found at i:22020491 original size:19 final size:19
Alignment explanation
Indices: 22020432--22020505 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
22020422 CAAGATCTGC
22020432 AAACTGTTGAAGCTGCTGT
1 AAACTGTTGAAGCTGCTGT
* *
22020451 AAA-TGTCGAA--TG-GGT
1 AAACTGTTGAAGCTGCTGT
*
22020466 --TCTGTTGAAGCTGCTGT
1 AAACTGTTGAAGCTGCTGT
*
22020483 AAACTGTTGAAGCTGCTGC
1 AAACTGTTGAAGCTGCTGT
22020502 AAAC
1 AAAC
22020506 GTCGAATGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
14 6 0.14
15 2 0.05
16 4 0.10
17 2 0.05
18 6 0.14
19 22 0.52
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (19 bp):
AAACTGTTGAAGCTGCTGT
Found at i:22020498 original size:51 final size:51
Alignment explanation
Indices: 22020406--22020543 Score: 217
Period size: 51 Copynumber: 2.7 Consensus size: 51
22020396 ATGGGTTCTA
* * * *
22020406 TCGAATGGGTTCTGTTCAAGAT-CTGCAAACTGTTGAAGCTGCTGTAAATG
1 TCGAATGGGTTCTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACG
*
22020456 TCGAATGGGTTCTGTTGAAGCTGCTGTAAACTGTTGAAGCTGCTGCAAACG
1 TCGAATGGGTTCTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACG
22020507 TCGAATGGGTTCTGTTGAAGCTGCTGCAAAC-GTTGAA
1 TCGAATGGGTTCTGTTGAAGCTGCTGCAAACTGTTGAA
22020544 TGGGTTCTGT
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 26 0.32
51 55 0.68
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
TCGAATGGGTTCTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACG
Found at i:22020527 original size:32 final size:32
Alignment explanation
Indices: 22020486--22020554 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
22020476 CTGCTGTAAA
22020486 CTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
1 CTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
*
22020518 CTGTTGAAGCTGCTGCAAACGTTGAATGGGTT
1 CTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
22020550 CTGTT
1 CTGTT
22020555 CAAGATCGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.32
Consensus pattern (32 bp):
CTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
Found at i:22026157 original size:13 final size:13
Alignment explanation
Indices: 22026139--22026183 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
22026129 TTAATTCTCT
22026139 TTTCTCTTTTTTC
1 TTTCTCTTTTTTC
22026152 TTTCTCTTTTTT-
1 TTTCTCTTTTTTC
* *
22026164 TTTATTTTTTTTC
1 TTTCTCTTTTTTC
22026177 TTT-TCTT
1 TTTCTCTT
22026184 GATTTGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 13 0.46
13 15 0.54
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTCTTTTTTC
Found at i:22027120 original size:10 final size:11
Alignment explanation
Indices: 22027098--22027129 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
22027088 TAAAATTAGG
22027098 AAAGAAAATGA
1 AAAGAAAATGA
22027109 AAAGAAAA-GA
1 AAAGAAAATGA
22027119 AAAGAAAATGA
1 AAAGAAAATGA
22027130 CAACGCTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (11 bp):
AAAGAAAATGA
Found at i:22036645 original size:42 final size:39
Alignment explanation
Indices: 22036598--22036679 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 39
22036588 ATATTTTATT
22036598 TATTTTTA-TAATAAAATATAATTAAATTATTAA-AATAATAAA
1 TATTTTTATTAAT-AAATA-AA-TAAATT-TTAATAAT-ATAAA
*
22036640 TATTTTTATTGATAAATAAATAAATTTTAATAATATAAA
1 TATTTTTATTAATAAATAAATAAATTTTAATAATATAAA
22036679 T
1 T
22036680 TATGTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
39 10 0.27
40 9 0.24
41 2 0.05
42 13 0.35
43 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (39 bp):
TATTTTTATTAATAAATAAATAAATTTTAATAATATAAA
Found at i:22037025 original size:240 final size:241
Alignment explanation
Indices: 22036768--22037214 Score: 659
Period size: 240 Copynumber: 1.9 Consensus size: 241
22036758 ACAATATTTA
** * *
22036768 AAAAATACATTAATTATATTTGAATTTGTTACATTGAATATTAGTTAGAAAATATAAAAATTTAT
1 AAAAATACACAAATTATATTTGAATTTGTTACAATGAATATTAGTTAGAAAATATAAAAATTTAA
* **
22036833 AATATAAAATAACTACAATTAATTTTGAGAA-AAATAAGTTTTTAATTTACATATTAAAT-AAGT
66 AATAAAAAATAACTACAATTAATTTTGAGAAGAAATAAAATTTTAATTTACATATTAAATGAA-T
* * * * ** *
22036896 AATATTGATTATTTTTAATTTTGTATAT-TACTTCATC-TCGATAATAAAAGTTTTTTATCTCTT
130 AATATTAATCATTGTTAATTTTGCATATAT-CTTCATCTTCGA-AATAAAAGTTTCCTATATCTT
22036959 TGGATAGAAATTAAAAATAATATATTATATGTAAAAATATTAAATAAAT
193 TGGATAGAAATTAAAAATAATATATTATATGTAAAAATATTAAATAAAT
*
22037008 AAAAATACACAAATTATATTTGAATTTGTTATAATGAATATTAGTTAGAAAATATAAAAATTTAA
1 AAAAATACACAAATTATATTTGAATTTGTTACAATGAATATTAGTTAGAAAATATAAAAATTTAA
*
22037073 AATAAAAAATAACTACAATTAATTTTGAGAAGAAATAAAATTTTAATTTATATATTAAATGAATA
66 AATAAAAAATAACTACAATTAATTTTGAGAAGAAATAAAATTTTAATTTACATATTAAATGAATA
* * *
22037138 ATATTAATCATTGTTAATTTTGCATATATCTTTATCTTGGAAATAAAAGTTTCCTATATCTTTGT
131 ATATTAATCATTGTTAATTTTGCATATATCTTCATCTTCGAAATAAAAGTTTCCTATATCTTTGG
*
22037203 ATAGGAATTAAA
196 ATAGAAATTAAA
22037215 TCATCTTTTA
Statistics
Matches: 183, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
240 90 0.49
241 87 0.48
242 6 0.03
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (241 bp):
AAAAATACACAAATTATATTTGAATTTGTTACAATGAATATTAGTTAGAAAATATAAAAATTTAA
AATAAAAAATAACTACAATTAATTTTGAGAAGAAATAAAATTTTAATTTACATATTAAATGAATA
ATATTAATCATTGTTAATTTTGCATATATCTTCATCTTCGAAATAAAAGTTTCCTATATCTTTGG
ATAGAAATTAAAAATAATATATTATATGTAAAAATATTAAATAAAT
Found at i:22038771 original size:17 final size:18
Alignment explanation
Indices: 22038731--22038771 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
22038721 TGGATAGAAT
22038731 AATTTATTTATTGATCAA
1 AATTTATTTATTGATCAA
**
22038749 AA-TTATTT-TTTCTCAA
1 AATTTATTTATTGATCAA
22038765 AATTTAT
1 AATTTAT
22038772 ATAATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTATTTATTGATCAA
Found at i:22039304 original size:27 final size:26
Alignment explanation
Indices: 22039274--22039336 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
22039264 AGATGTGATT
22039274 ATATTATATAATCTAATCATATTTATA
1 ATATTATATAATCTAATCATA-TTATA
* * *
22039301 ATATTATTTTATCTTATCATATTATA
1 ATATTATATAATCTAATCATATTATA
*
22039327 ATTTTATATA
1 ATATTATATA
22039337 CTAAATATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATTATATAATCTAATCATATTATA
Found at i:22040137 original size:24 final size:24
Alignment explanation
Indices: 22040104--22040151 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22040094 ATGTTTATTA
22040104 TTAAAATATTAGAT-ATTAAAATT
1 TTAAAATATTAGATAATTAAAATT
**
22040127 TTAAACATATTTTATAATTAAAATT
1 TTAAA-ATATTAGATAATTAAAATT
22040152 AAATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TTAAAATATTAGATAATTAAAATT
Found at i:22040834 original size:30 final size:30
Alignment explanation
Indices: 22040732--22040836 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 30
22040722 TATTCATTTA
* ** *
22040732 TTATATCCAAATAAACTTTTAATTTTTACT
1 TTATACCCAAATAAACCATTAATTTTTAAT
* ** *
22040762 TTACACTTAAATAAACCATT-ATACTTTAAT
1 TTATACCCAAATAAACCATTAAT-TTTTAAT
*** *
22040792 TTATATTTAAATAAACCCTTAATTTTTAAT
1 TTATACCCAAATAAACCATTAATTTTTAAT
22040822 TTATACCCAAATAAA
1 TTATACCCAAATAAA
22040837 TTTTTAACAT
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
29 2 0.03
30 54 0.93
31 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (30 bp):
TTATACCCAAATAAACCATTAATTTTTAAT
Found at i:22048352 original size:19 final size:19
Alignment explanation
Indices: 22048330--22048412 Score: 75
Period size: 19 Copynumber: 4.4 Consensus size: 19
22048320 AAAAATTTTT
22048330 TAAAAATT-TAAAAAACTAA
1 TAAAAATTCTAAAAAA-TAA
*
22048349 T-AAAATTCTAAAAAAAAA
1 TAAAAATTCTAAAAAATAA
22048367 TTTAAAAATTCTAAAAAA-AA
1 --TAAAAATTCTAAAAAATAA
**
22048387 TAAAAA-AATAAAAAGATAA
1 TAAAAATTCTAAAAA-ATAA
22048406 TAAAAAT
1 TAAAAAT
22048413 AAAATTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.11
18 15 0.28
19 16 0.30
20 3 0.06
21 14 0.26
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (19 bp):
TAAAAATTCTAAAAAATAA
Found at i:22048362 original size:20 final size:19
Alignment explanation
Indices: 22048332--22048395 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
22048322 AAATTTTTTA
*
22048332 AAAATT-TAAAAAACTAAT
1 AAAATTCTAAAAAAATAAT
22048350 AAAATTCTAAAAAAA-AATTT
1 AAAATTCTAAAAAAATAA--T
*
22048370 AAAAATTCTAAAAAAAATAAA
1 -AAAATTCT-AAAAAAATAAT
22048391 AAAAT
1 AAAAT
22048396 AAAAAGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 8 0.21
19 7 0.18
20 6 0.16
21 8 0.21
22 7 0.18
23 2 0.05
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATTCTAAAAAAATAAT
Found at i:22048363 original size:21 final size:20
Alignment explanation
Indices: 22048339--22048395 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
22048329 TTAAAAATTT
*
22048339 AAAAAACTAATAAAATTCTA
1 AAAAAAATAATAAAATTCTA
*
22048359 AAAAAAA-ATTTAAAAATTCTA
1 AAAAAAATA-AT-AAAATTCTA
*
22048380 AAAAAAATAAAAAAAT
1 AAAAAAATAATAAAAT
22048396 AAAAAGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 12 0.40
21 16 0.53
22 1 0.03
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAAATAATAAAATTCTA
Found at i:22048391 original size:8 final size:8
Alignment explanation
Indices: 22048380--22048416 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
22048370 AAAAATTCTA
22048380 AAAAAAAT
1 AAAAAAAT
22048388 AAAAAAAT
1 AAAAAAAT
*
22048396 AAAAAGAT
1 AAAAAAAT
22048404 AATAAAAAT
1 AA-AAAAAT
22048413 AAAA
1 AAAA
22048417 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:22048393 original size:31 final size:31
Alignment explanation
Indices: 22048331--22048394 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
22048321 AAAATTTTTT
* * *
22048331 AAAAATTTAAAAAACTAATAAAATTCTAAAA
1 AAAAATTTAAAAAACTAAAAAAAATCAAAAA
*
22048362 AAAAATTTAAAAATTCTAAAAAAAAT-AAAAA
1 AAAAATTTAAAAA-ACTAAAAAAAATCAAAAA
22048393 AA
1 AA
22048395 TAAAAAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (31 bp):
AAAAATTTAAAAAACTAAAAAAAATCAAAAA
Found at i:22048399 original size:16 final size:17
Alignment explanation
Indices: 22048380--22048416 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22048370 AAAAATTCTA
22048380 AAAAAAATAA-AAAAAT
1 AAAAAAATAATAAAAAT
*
22048396 AAAAAGATAATAAAAAT
1 AAAAAAATAATAAAAAT
22048413 AAAA
1 AAAA
22048417 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAAAATAATAAAAAT
Found at i:22048537 original size:21 final size:22
Alignment explanation
Indices: 22048489--22048541 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
22048479 AAAAAAAACA
* *
22048489 GAAAATTTTTTATAAAAATTGT
1 GAAAAATTTTTATAAAAATTAT
22048511 -ACAAAATTTTTA-AAAAATTAT
1 GA-AAAATTTTTATAAAAATTAT
22048532 GAAAAATTTT
1 GAAAAATTTT
22048542 CAATTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (22 bp):
GAAAAATTTTTATAAAAATTAT
Found at i:22048581 original size:14 final size:15
Alignment explanation
Indices: 22048562--22048594 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
22048552 AATCTTACAA
22048562 TTTTAATTATTA-TT
1 TTTTAATTATTACTT
22048576 TTTTAATTATTACTT
1 TTTTAATTATTACTT
22048591 TTTT
1 TTTT
22048595 TATTTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTAATTATTACTT
Found at i:22048727 original size:20 final size:20
Alignment explanation
Indices: 22048696--22048749 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
22048686 GAAATTATTT
*
22048696 ATTTTTTAAAAAATTTTTAGA
1 ATTTTTTAAAAAA-TTTCAGA
22048717 ATTTTTTAAAAAATTTCAGA
1 ATTTTTTAAAAAATTTCAGA
* *
22048737 CTTTTTCAAAAAA
1 ATTTTTTAAAAAA
22048750 AATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (20 bp):
ATTTTTTAAAAAATTTCAGA
Found at i:22048799 original size:20 final size:20
Alignment explanation
Indices: 22048696--22048801 Score: 67
Period size: 20 Copynumber: 5.4 Consensus size: 20
22048686 GAAATTATTT
*
22048696 ATTTTTTAAAAAATTTTTAGA
1 ATTTTTTAAAAAA-TTTAAGA
*
22048717 ATTTTTTAAAAAATTTCAGA
1 ATTTTTTAAAAAATTTAAGA
* * **
22048737 CTTTTTCAAAAAA---AATT
1 ATTTTTTAAAAAATTTAAGA
** *
22048754 ATTTTTTTTAAATTTTCAA-A
1 ATTTTTTAAAAAATTT-AAGA
*
22048774 AATTTTTAAAAAATTTAAGA
1 ATTTTTTAAAAAATTTAAGA
*
22048794 TTTTTTTA
1 ATTTTTTA
22048802 TTTTTCAGTT
Statistics
Matches: 62, Mismatches: 18, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
17 9 0.15
19 2 0.03
20 36 0.58
21 15 0.24
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTTTAAAAAATTTAAGA
Found at i:22048871 original size:20 final size:22
Alignment explanation
Indices: 22048848--22048896 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
22048838 GAAAAGTTAA
22048848 TTTTTATT-AACTTTTT-CATT
1 TTTTTATTGAACTTTTTGCATT
* * *
22048868 TTTTTTTTGAATTTTTTGGATT
1 TTTTTATTGAACTTTTTGCATT
22048890 TTTTTAT
1 TTTTTAT
22048897 AAATTATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (22 bp):
TTTTTATTGAACTTTTTGCATT
Found at i:22049169 original size:19 final size:19
Alignment explanation
Indices: 22049147--22049184 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
22049137 TGAAAATTTG
22049147 AAAATTTTATTAGAATTTTA
1 AAAATTTT-TTAGAATTTTA
22049167 AAAATTTTTTAGAATTTT
1 AAAATTTTTTAGAATTTT
22049185 TTTGAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AAAATTTTTTAGAATTTTA
Found at i:22049182 original size:10 final size:10
Alignment explanation
Indices: 22049149--22049224 Score: 57
Period size: 10 Copynumber: 7.6 Consensus size: 10
22049139 AAAATTTGAA
22049149 AATTTTATTAG
1 AATTTT-TTAG
* *
22049160 AA-TTTTAAA
1 AATTTTTTAG
22049169 AATTTTTTAG
1 AATTTTTTAG
*
22049179 AATTTTTTTG
1 AATTTTTTAG
* *
22049189 AAATTTTTAA
1 AATTTTTTAG
**
22049199 AAGACTTTT-G
1 AA-TTTTTTAG
22049209 AATTTTTTAG
1 AATTTTTTAG
22049219 AATTTT
1 AATTTT
22049225 GAAAAGATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
9 8 0.16
10 35 0.70
11 7 0.14
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.55
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:22049185 original size:20 final size:20
Alignment explanation
Indices: 22049147--22049258 Score: 70
Period size: 21 Copynumber: 5.5 Consensus size: 20
22049137 TGAAAATTTG
22049147 AAAATTTTATTAGAA-TTTTA
1 AAAATTTT-TTAGAATTTTTA
*
22049167 AAAATTTTTTAGAATTTTTTT
1 AAAATTTTTTAGAA-TTTTTA
* * * *
22049188 GAAATTTTTAAAAGACTTTT-
1 AAAATTTTTTAGA-ATTTTTA
* *
22049208 -GAATTTTTTAGAATTTTGA
1 AAAATTTTTTAGAATTTTTA
* *
22049227 AAAGA-TTTTAAAAATTTTTA
1 AAA-ATTTTTTAGAATTTTTA
22049247 AAGAATTTTTTA
1 AA-AATTTTTTA
22049259 AAAAAATTTG
Statistics
Matches: 69, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
18 4 0.06
19 15 0.22
20 24 0.35
21 25 0.36
22 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (20 bp):
AAAATTTTTTAGAATTTTTA
Found at i:22049244 original size:29 final size:29
Alignment explanation
Indices: 22049114--22049255 Score: 110
Period size: 30 Copynumber: 4.8 Consensus size: 29
22049104 CTTTTTTAGA
* *
22049114 ATTTGAAATTTTTTTAGAAATTTTG-AAA-
1 ATTTTAAAATTTTTTAG-AATTTTGAAAAG
* * *
22049142 ATTTGAAAATTTTATTAGAATTTTAAAAAT
1 ATTTTAAAATTTT-TTAGAATTTTGAAAAG
* * * *
22049172 TTTTTAGAATTTTTTTGAAATTTTTAAAAG
1 ATTTTAAAATTTTTTAG-AATTTTGAAAAG
*
22049202 ACTTTT-GAATTTTTTAGAATTTTGAAAAG
1 A-TTTTAAAATTTTTTAGAATTTTGAAAAG
*
22049231 ATTTTAAAAATTTTTAAAGAATTTT
1 ATTTT-AAAATTTTT-TAGAATTTT
22049256 TTAAAAAAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
28 22 0.24
29 22 0.24
30 37 0.40
31 12 0.13
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (29 bp):
ATTTTAAAATTTTTTAGAATTTTGAAAAG
Found at i:22049258 original size:12 final size:10
Alignment explanation
Indices: 22049162--22049262 Score: 55
Period size: 10 Copynumber: 9.9 Consensus size: 10
22049152 TTTATTAGAA
22049162 TTTTAAAAATT
1 TTTTAAAAA-T
* *
22049173 TTTTAGAATT
1 TTTTAAAAAT
**
22049183 TTTTTGAAAT
1 TTTTAAAAAT
*
22049193 TTTTAAAAGAC
1 TTTTAAAA-AT
*
22049204 TTTT--GAAT
1 TTTTAAAAAT
* *
22049212 TTTTTAGAAT
1 TTTTAAAAAT
*
22049222 TTTGAAAAGA-
1 TTTTAAAA-AT
22049232 TTTTAAAAAT
1 TTTTAAAAAT
22049242 TTTTAAAGAATT
1 TTTTAAA-AA-T
22049254 TTTTAAAAA
1 TTTTAAAAA
22049263 AATTTGTTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
10 38 0.54
11 17 0.24
12 8 0.11
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.50
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:22049306 original size:19 final size:19
Alignment explanation
Indices: 22049269--22049306 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22049259 AAAAAATTTG
*
22049269 TTTTTTTAACTTTTGAAAA
1 TTTTTTTAACTTTTAAAAA
22049288 TTTTATTTAA-TTTTAAAAA
1 TTTT-TTTAACTTTTAAAAA
22049307 AATTTTAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTTTAACTTTTAAAAA
Found at i:22054852 original size:6 final size:6
Alignment explanation
Indices: 22054841--22054869 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22054831 TAGTTAAAGA
22054841 AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAAT
22054870 AGAAAGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:22055094 original size:58 final size:58
Alignment explanation
Indices: 22054904--22055124 Score: 256
Period size: 58 Copynumber: 3.8 Consensus size: 58
22054894 TCTTGTGTAG
* * * * *
22054904 GAAAAATTGATAGTTTCAA-TTTTTCCTCAAAAATACTTTTTTGGAAACTTTAATTTTGA
1 GAAAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTTTGAAA-TTTATTTTTAA
* *
22054963 GAGAAATTGATACTTTCAAC-TTTCCTTCAAAAATCATTTGTTTTT---ATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTC-TCAAAAAT-ATTT-TTTTTGAAATTTATTTTTAA
* *
22055020 GAAAAATTGATACTTTCAACTTTTTTTCAAAAATTTTTTTTTTGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAATTTATTTTTAA
*
22055078 GAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTGAAA
1 GAAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTTTTGAAA
22055125 ATTTTGATTT
Statistics
Matches: 139, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
55 5 0.04
56 3 0.02
57 41 0.29
58 55 0.40
59 28 0.20
60 3 0.02
61 4 0.03
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAATTTATTTTTAA
Found at i:22055177 original size:6 final size:6
Alignment explanation
Indices: 22055145--22055232 Score: 76
Period size: 6 Copynumber: 14.7 Consensus size: 6
22055135 TCATTTAAAG
* *
22055145 AAAATA GAATAATA AAAA-A ATAAATA AAAATA AAAA-A ATAAAGA AAAGT-
1 AAAATA -AA-AATA AAAATA A-AAATA AAAATA AAAATA A-AAATA AAAATA
* *
22055194 AAAACA AAAATA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
22055233 GAATATTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
5 12 0.18
6 43 0.64
7 8 0.12
8 4 0.06
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:22055178 original size:18 final size:18
Alignment explanation
Indices: 22055155--22055237 Score: 98
Period size: 17 Copynumber: 4.7 Consensus size: 18
22055145 AAAATAGAAT
22055155 AATAAAAAAATAAATAAA
1 AATAAAAAAATAAATAAA
*
22055173 AATAAAAAAATAAAGAAA
1 AATAAAAAAATAAATAAA
* *
22055191 AGTAAAACAA-AAATAAA
1 AATAAAAAAATAAATAAA
*
22055208 AATAAAAATA-AAATAAA
1 AATAAAAAAATAAATAAA
*
22055225 GATAAAAAGAATA
1 AATAAAAA-AATA
22055238 TTAAATAAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
17 27 0.50
18 26 0.48
19 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.14
Consensus pattern (18 bp):
AATAAAAAAATAAATAAA
Found at i:22055185 original size:29 final size:31
Alignment explanation
Indices: 22055156--22055220 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
22055146 AAATAGAATA
*
22055156 ATAAAAAAAT-AAATAAAAATAAAAA-AATA
1 ATAAAAAAATAAAACAAAAATAAAAATAATA
* * *
22055185 A-AGAAAAGTAAAACAAAAATAAAAATAAAA
1 ATAAAAAAATAAAACAAAAATAAAAATAATA
22055215 ATAAAA
1 ATAAAA
22055221 TAAAGATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 6 0.21
29 15 0.54
30 4 0.14
31 3 0.11
ACGTcount: A:0.82, C:0.02, G:0.03, T:0.14
Consensus pattern (31 bp):
ATAAAAAAATAAAACAAAAATAAAAATAATA
Found at i:22055229 original size:11 final size:11
Alignment explanation
Indices: 22055145--22055231 Score: 70
Period size: 11 Copynumber: 7.8 Consensus size: 11
22055135 TCATTTAAAG
*
22055145 AAAATAGAATA
1 AAAATAAAATA
22055156 ATAAA-AAAATA
1 A-AAATAAAATA
*
22055167 AATA-AAAATA
1 AAAATAAAATA
* *
22055177 AAAAAATAAAGA
1 AAAATA-AAATA
* *
22055189 AAAGTAAAACA
1 AAAATAAAATA
22055200 AAAATAAAAATA
1 AAAAT-AAAATA
22055212 AAAATAAAATA
1 AAAATAAAATA
*
22055223 AAGATAAAA
1 AAAATAAAA
22055232 AGAATATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
10 11 0.18
11 30 0.48
12 21 0.34
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:22055242 original size:23 final size:22
Alignment explanation
Indices: 22055155--22055235 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
22055145 AAAATAGAAT
22055155 AATAAAAA-AATAAATAAAAATAA
1 AATAAAAAGAA-AAAT-AAAATAA
* * *
22055178 AAAAATAAAGAAAAGTAAAACAAA
1 AATAA-AAAGAAAAATAAAA-TAA
*
22055202 AATAAAAATAAAAATAAAATAA
1 AATAAAAAGAAAAATAAAATAA
22055224 AGATAAAAAGAA
1 A-ATAAAAAGAA
22055236 TATTAAATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
22 3 0.07
23 29 0.63
24 12 0.26
25 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.14
Consensus pattern (22 bp):
AATAAAAAGAAAAATAAAATAA
Found at i:22056308 original size:25 final size:26
Alignment explanation
Indices: 22056264--22056331 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 26
22056254 AAAAAAAATA
22056264 ATAATATAATAATAAATATATAA-CTA-T
1 ATAA-ATAA-AATAAATATA-AATCTATT
*
22056291 ATAAATAAAATACATATAAATCTATT
1 ATAAATAAAATAAATATAAATCTATT
*
22056317 CTAAAT-AAATAAATA
1 ATAAATAAAATAAATA
22056332 CAGATATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.06
25 20 0.56
26 10 0.28
27 4 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
ATAAATAAAATAAATATAAATCTATT
Found at i:22056372 original size:16 final size:15
Alignment explanation
Indices: 22056347--22056385 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
22056337 ATACATATAT
*
22056347 TAATACATAATAATAA
1 TAATAAATAATAA-AA
22056363 TAATAAATAATAAAA
1 TAATAAATAATAAAA
22056378 TATATAAA
1 TA-ATAAA
22056386 ATATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:22056598 original size:17 final size:15
Alignment explanation
Indices: 22056567--22056624 Score: 66
Period size: 15 Copynumber: 3.7 Consensus size: 15
22056557 AACATTGTCA
22056567 TTTTTTGTTTTTTATG
1 TTTTTT-TTTTTTATG
22056583 TTTTATTTTATTTTAT-
1 TTTT-TTTT-TTTTATG
22056599 TTTTTTGTTTTTT-TG
1 TTTTTT-TTTTTTATG
22056614 TTTTTTTTTTT
1 TTTTTTTTTTT
22056625 ACCAAAACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 12 0.32
17 8 0.21
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTATG
Found at i:22056724 original size:41 final size:42
Alignment explanation
Indices: 22056632--22056812 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 42
22056622 TTTACCAAAA
* *
22056632 CTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTGAGAAA-ATAAATTG
*
22056675 CTCCTCTAAACAGAGGTACCACGACTTTG-GAAAATAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTG
* *
22056716 CTCCTCTAAATAGAGGCACCACGACTTT--GAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTG
*
22056756 CTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTG
22056798 CTCCTCTAAACAGAG
1 CTCCTCTAAACAGAG
22056813 TAAATTGCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
40 38 0.29
41 34 0.26
42 31 0.24
43 26 0.20
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTG
Found at i:22056777 original size:81 final size:84
Alignment explanation
Indices: 22056632--22056812 Score: 278
Period size: 81 Copynumber: 2.2 Consensus size: 84
22056622 TTTACCAAAA
* *
22056632 CTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGTACCAC
1 CTCCTCTAAACAGAGGCACAACGACTTT-AGAAACATAAATTGCTCCTCTAAACAGAGGCACCAC
22056697 GACTTTG-GAAAATAAATTG
65 GACTTTGAGAAAATAAATTG
* * *
22056716 CTCCTCTAAATAGAGGCACCACGACTTT-GAAA-GTAAATTGCTCCTCTAAACAGAGGCACCACG
1 CTCCTCTAAACAGAGGCACAACGACTTTAGAAACATAAATTGCTCCTCTAAACAGAGGCACCACG
*
22056779 ACTTTGAGAAAGTAAATTG
66 ACTTTGAGAAAATAAATTG
22056798 CTCCTCTAAACAGAG
1 CTCCTCTAAACAGAG
22056813 TAAATTGCTC
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
81 35 0.39
82 29 0.33
84 25 0.28
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (84 bp):
CTCCTCTAAACAGAGGCACAACGACTTTAGAAACATAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAGAAAATAAATTG
Found at i:22056817 original size:22 final size:22
Alignment explanation
Indices: 22056789--22056834 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22056779 ACTTTGAGAA
22056789 AGTAAATTGCTCCTCTAAACAG
1 AGTAAATTGCTCCTCTAAACAG
22056811 AGTAAATTGCTCCTCTAAACAG
1 AGTAAATTGCTCCTCTAAACAG
22056833 AG
1 AG
22056835 CCACCACGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (22 bp):
AGTAAATTGCTCCTCTAAACAG
Found at i:22056868 original size:40 final size:40
Alignment explanation
Indices: 22056811--22057067 Score: 356
Period size: 40 Copynumber: 6.3 Consensus size: 40
22056801 CTCTAAACAG
*
22056811 AGTAAATTGCTCCTCTAAACAGAGCCACCACGACTTTAAA
1 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTAAA
* * *
22056851 AGTAAATTGCTCTTCTAAACAGAGGCACCACCACTTTGAA
1 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTAAA
*
22056891 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAA
1 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTAAA
22056931 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTAAA
1 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTAAA
* * **
22056971 AGTAAATTGCTCCTTTAAATAGAGGCACCATAACTTTTGAAA
1 AGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTT-AAA
*
22057013 AGTAAATTGCTCCTCTAAACAAAGGCA--ACGAAACTTTGAAA
1 AGTAAATTGCTCCTCTAAACAGAGGCACCACG--ACTTT-AAA
*
22057054 AGTAAATTACTCCT
1 AGTAAATTGCTCCT
22057068 TAACAATCAT
Statistics
Matches: 196, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
40 144 0.73
41 23 0.12
42 29 0.15
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (40 bp):
AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTAAA
Found at i:22056889 original size:104 final size:102
Alignment explanation
Indices: 22056709--22056914 Score: 349
Period size: 104 Copynumber: 2.0 Consensus size: 102
22056699 CTTTGGAAAA
* * *
22056709 TAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 TAAATTGCTCCTCTAAACAGAGCCACCACGACTTTAAAAGTAAATTGCTCCTCTAAACAGAGGCA
*
22056774 CCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAG
66 CCACCACTTT--GAAAGTAAATTGCTCCTCTAAACAGAG
*
22056813 TAAATTGCTCCTCTAAACAGAGCCACCACGACTTTAAAAGTAAATTGCTCTTCTAAACAGAGGCA
1 TAAATTGCTCCTCTAAACAGAGCCACCACGACTTTAAAAGTAAATTGCTCCTCTAAACAGAGGCA
22056878 CCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAG
66 CCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAG
22056915 GCACCACGAC
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 27 0.28
104 70 0.72
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (102 bp):
TAAATTGCTCCTCTAAACAGAGCCACCACGACTTTAAAAGTAAATTGCTCCTCTAAACAGAGGCA
CCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAG
Found at i:22056929 original size:144 final size:142
Alignment explanation
Indices: 22056668--22056954 Score: 486
Period size: 144 Copynumber: 2.0 Consensus size: 142
22056658 TTGAGAAACA
** *
22056668 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAATAAATTGCTCCTCTAAATAGAGGC
1 TAAATTGCTCCTCTAAACAGAGCCACCACGACTTT-GAAAATAAATTGCTCCTCTAAACAGAGGC
*
22056733 ACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTG
65 ACCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT--GAAAGTAAATTG
22056798 CTCCTCTAAACAGAG
128 CTCCTCTAAACAGAG
*
22056813 TAAATTGCTCCTCTAAACAGAGCCACCACGACTTT-AAAAGTAAATTGCTCTTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGCCACCACGACTTTGAAAA-TAAATTGCTCCTCTAAACAGAGGC
22056877 ACCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCT
65 ACCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCT
22056942 CCTCTAAACAGAG
130 CCTCTAAACAGAG
22056955 GCACCACGAC
Statistics
Matches: 136, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
142 27 0.20
143 4 0.03
144 72 0.53
145 33 0.24
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (142 bp):
TAAATTGCTCCTCTAAACAGAGCCACCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCA
CCACCACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTC
CTCTAAACAGAG
Found at i:22056945 original size:184 final size:186
Alignment explanation
Indices: 22056632--22056994 Score: 581
Period size: 184 Copynumber: 2.0 Consensus size: 186
22056622 TTTACCAAAA
* * *
22056632 CTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGTACCAC
1 CTCCTCTAAACAGAGCCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCAC
* *
22056697 GACTTTGGAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTC
66 CACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTC
22056762 TAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGTAAATTG
131 TAAACAGAGGCACCACGACTTT-A-AAAGTAAATTGCTCCTCTAAACAGAGTAAATTG
* * *
22056820 CTCCTCTAAACAGAGCCACCACGACTTT-A-AAA-GTAAATTGCTCTTCTAAACAGAGGCACCAC
1 CTCCTCTAAACAGAGCCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCAC
*
22056882 CACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTC
66 CACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTC
* *
22056946 TAAACAGAGGCACCACGACTTTAAAAGTAAATTGCTCCTTTAAATAGAG
131 TAAACAGAGGCACCACGACTTTAAAAGTAAATTGCTCCTCTAAACAGAG
22056995 GCACCATAAC
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
182 24 0.15
183 1 0.01
184 78 0.48
185 32 0.20
186 3 0.02
187 1 0.01
188 25 0.15
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (186 bp):
CTCCTCTAAACAGAGCCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCAC
CACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTC
TAAACAGAGGCACCACGACTTTAAAAGTAAATTGCTCCTCTAAACAGAGTAAATTG
Found at i:22059820 original size:20 final size:21
Alignment explanation
Indices: 22059788--22059841 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
22059778 TTTGAATCTC
*
22059788 TTTTTTTC-ATTTTTTCAT-T
1 TTTTTTTCTTTTTTTTCATAT
22059807 TTTTTTTCTTTTTTTTCATCAT
1 TTTTTTTCTTTTTTTTCAT-AT
*
22059829 CTTTTTTCTTTTT
1 TTTTTTTCTTTTT
22059842 GCTCGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 8 0.27
20 9 0.30
22 13 0.43
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTTCATAT
Found at i:22063762 original size:6 final size:6
Alignment explanation
Indices: 22063751--22063779 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22063741 TAGTTAAAGA
22063751 AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAAT
22063780 AGAAAGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:22064101 original size:119 final size:114
Alignment explanation
Indices: 22063814--22064103 Score: 386
Period size: 119 Copynumber: 2.5 Consensus size: 114
22063804 TCTTGTGTAG
* * * * **
22063814 GAAAAATTGATAGTTTCAACTTTTCCTCAAAAATACTTTTTTGGAAACTTTAATTTTGAGAGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCAAGAGAAA
* *
22063879 TTGATACTTTCAACTTTTCTTCAAAAACTATTTATTTATTTATTTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAAACCATTTATTTATTTATTTTTAA
*
22063928 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTTTGAAACCTTGATTTCCAAG-GA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTTGAAACTTTGATTT-CAAGAG-
* *
22063992 AAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTTAA
63 AAATTGATACTTTCAACTTTTCCTCAAAAACCATTTATTT---ATTTATTTTTAA
*
22064047 GAAAAATTGATACTTTCAACTTTT-CTCTAAAAATATTTTTTTTGAAAATTTTGATTT
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTG-AAACTTTGATTT
22064104 TCATTTTTAA
Statistics
Matches: 155, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
114 33 0.21
115 19 0.12
116 38 0.25
118 13 0.08
119 52 0.34
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (114 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCAAGAGAAA
TTGATACTTTCAACTTTTCCTCAAAAACCATTTATTTATTTATTTTTAA
Found at i:22064132 original size:16 final size:15
Alignment explanation
Indices: 22064111--22064189 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
22064101 TTTTCATTTT
22064111 TAAAAAAATAGAATAA
1 TAAAAAAATA-AATAA
22064127 TAAAAAAATAAATAA
1 TAAAAAAATAAATAA
*
22064142 -AAATAAA-AAATAA
1 TAAAAAAATAAATAA
* * *
22064155 -AGAAAAGTAAAACAA
1 TAAAAAAAT-AAATAA
*
22064170 AAATAAAAATAAA-AA
1 TAA-AAAAATAAATAA
22064185 TAAAA
1 TAAAA
22064190 TAAAGATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
13 10 0.20
14 8 0.16
15 14 0.27
16 14 0.27
17 5 0.10
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (15 bp):
TAAAAAAATAAATAA
Found at i:22064147 original size:6 final size:6
Alignment explanation
Indices: 22064114--22064201 Score: 76
Period size: 6 Copynumber: 14.8 Consensus size: 6
22064104 TCATTTTTAA
* * *
22064114 AAAAAT AGAATAAT AAAAA- AATAAAT AAAAAT AAAAA- ATAAAG AAAAGT
1 AAAAAT A-AA-AAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
22064163 -AAAAC AAAAAT AAAAAT AAAAAT -AAAAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
22064202 GAATATTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
5 14 0.21
6 42 0.64
7 6 0.09
8 4 0.06
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:22064150 original size:34 final size:34
Alignment explanation
Indices: 22064111--22064201 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
22064101 TTTTCATTTT
*
22064111 TAAAAAA-ATAGAATAA-TAAAAAAATAAATAAAAA
1 TAAAAAATAAAGAA-AAGTAAAAAAA-AAATAAAAA
*
22064145 TAAAAAATAAAGAAAAGTAAAACAAAAATAAAAA
1 TAAAAAATAAAGAAAAGTAAAAAAAAAATAAAAA
22064179 T-AAAAATAAA-ATAAAGATAAAAA
1 TAAAAAATAAAGA-AAAG-TAAAAA
22064202 GAATATTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.02
33 13 0.26
34 24 0.48
35 12 0.24
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (34 bp):
TAAAAAATAAAGAAAAGTAAAAAAAAAATAAAAA
Found at i:22064198 original size:11 final size:11
Alignment explanation
Indices: 22064114--22064200 Score: 72
Period size: 11 Copynumber: 7.9 Consensus size: 11
22064104 TCATTTTTAA
*
22064114 AAAAATAGAAT
1 AAAAATAAAAT
22064125 AATAAA-AAAAT
1 AA-AAATAAAAT
*
22064136 AAATA-AAAAT
1 AAAAATAAAAT
*
22064146 AAAAA-ATAAAG
1 AAAAATA-AAAT
* *
22064157 AAAAGTAAAAC
1 AAAAATAAAAT
22064168 AAAAATAAAAAT
1 AAAAAT-AAAAT
22064180 AAAAATAAAAT
1 AAAAATAAAAT
*
22064191 AAAGATAAAA
1 AAAAATAAAA
22064201 AGAATATTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
10 12 0.19
11 37 0.59
12 14 0.22
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:22064198 original size:17 final size:17
Alignment explanation
Indices: 22064114--22064201 Score: 85
Period size: 17 Copynumber: 5.3 Consensus size: 17
22064104 TCATTTTTAA
* *
22064114 AAAAATAGAATAATAA-
1 AAAAATAAAATAAAAAT
22064130 AAAAAT-AAATAAAAAT
1 AAAAATAAAATAAAAAT
* *
22064146 AAAAA-ATAAAGAAAAGT
1 AAAAATA-AAATAAAAAT
22064163 AAAACA-AAAATAAAAAT
1 AAAA-ATAAAATAAAAAT
*
22064180 AAAAATAAAATAAAGAT
1 AAAAATAAAATAAAAAT
22064197 AAAAA
1 AAAAA
22064202 GAATATTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.12
16 12 0.20
17 39 0.65
18 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:22065275 original size:25 final size:26
Alignment explanation
Indices: 22065231--22065293 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
22065221 AAAAAAAATA
22065231 ATAATATAATAATAAATATATAAT-TA-T
1 ATAA-ATAA-AATAAATATA-AATCTATT
*
22065258 ATAAATAAAATACATATAAATCTATT
1 ATAAATAAAATAAATATAAATCTATT
*
22065284 CTAAATAAAA
1 ATAAATAAAA
22065294 AATAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.09
25 11 0.34
26 14 0.44
27 4 0.12
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAATAAAATAAATATAAATCTATT
Found at i:22065353 original size:28 final size:28
Alignment explanation
Indices: 22065322--22065376 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
22065312 TACATATATT
*
22065322 AATACATAATAATA-ATAAAAAATAATAA
1 AATACATAA-AATATAAAAAAAATAATAA
22065350 AATACATAAAATATAAAAAAAATAATA
1 AATACATAAAATATAAAAAAAATAATA
22065377 CAGGATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (28 bp):
AATACATAAAATATAAAAAAAATAATAA
Found at i:22065358 original size:19 final size:18
Alignment explanation
Indices: 22065322--22065374 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
22065312 TACATATATT
22065322 AATACATAATAATAATAAAA
1 AATA-ATAA-AATAATAAAA
22065342 AATAATAAAATACATAAAA
1 AATAATAAAATA-ATAAAA
*
22065361 TATAA-AAAA-AATAA
1 AATAATAAAATAATAA
22065375 TACAGGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 8 0.26
19 14 0.45
20 4 0.13
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAATAAAATAATAAAA
Found at i:22065365 original size:7 final size:8
Alignment explanation
Indices: 22065327--22065367 Score: 50
Period size: 7 Copynumber: 5.1 Consensus size: 8
22065317 ATATTAATAC
22065327 ATAATAATA
1 ATAATAA-A
22065336 ATAA-AAA
1 ATAATAAA
22065343 ATAATAAA
1 ATAATAAA
22065351 ATACATAAA
1 ATA-ATAAA
22065360 AT-ATAAA
1 ATAATAAA
22065367 A
1 A
22065368 AAAATAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 11 0.37
8 8 0.27
9 11 0.37
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:22069664 original size:11 final size:11
Alignment explanation
Indices: 22069644--22069699 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
22069634 TGTTAACGAA
22069644 TAAAATTTGTT
1 TAAAATTTGTT
*
22069655 TAAAAATTGTT
1 TAAAATTTGTT
22069666 TAAAATTTGTT
1 TAAAATTTGTT
* *
22069677 T-ATATTTATT
1 TAAAATTTGTT
*
22069687 TAAGATTTGTT
1 TAAAATTTGTT
22069698 TA
1 TA
22069700 TTATTTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 8 0.21
11 30 0.79
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (11 bp):
TAAAATTTGTT
Found at i:22069694 original size:21 final size:22
Alignment explanation
Indices: 22069644--22069706 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
22069634 TGTTAACGAA
** * *
22069644 TAAAATTTGTTTAAAAATTGTT
1 TAAAATTTGTTTATTATTTATT
22069666 TAAAATTTGTTTA-TATTTATT
1 TAAAATTTGTTTATTATTTATT
*
22069687 TAAGATTTGTTTATTATTTA
1 TAAAATTTGTTTATTATTTA
22069707 ATAATAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TAAAATTTGTTTATTATTTATT
Found at i:22071511 original size:14 final size:14
Alignment explanation
Indices: 22071492--22071526 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22071482 GAATCAACAA
22071492 TTTATTAAAACTAC
1 TTTATTAAAACTAC
* *
22071506 TTTATTAAAATTAT
1 TTTATTAAAACTAC
22071520 TTTATTA
1 TTTATTA
22071527 GTTTGTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTATTAAAACTAC
Found at i:22071724 original size:14 final size:14
Alignment explanation
Indices: 22071705--22071736 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22071695 TTTCCTCTCA
22071705 TTTATTAAAGTTAT
1 TTTATTAAAGTTAT
22071719 TTTATTAAAGTTAT
1 TTTATTAAAGTTAT
22071733 TTTA
1 TTTA
22071737 ATTAGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTATTAAAGTTAT
Found at i:22079956 original size:30 final size:30
Alignment explanation
Indices: 22079921--22080010 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
22079911 ATTGAAGATT
22079921 TAATAATTTATGTATTTATATTATATAAAA
1 TAATAATTTATGTATTTATATTATATAAAA
* * * *
22079951 TAATAATTTATGTGTTTTTATTATATTTTATA
1 TAATAATTTATGTATTTATATTATA--TAAAA
* *
22079983 TAA-AA-TTATATATTTGTATTATATAAAA
1 TAATAATTTATGTATTTATATTATATAAAA
22080011 ATATAAAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
28 3 0.06
30 38 0.78
31 2 0.04
32 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (30 bp):
TAATAATTTATGTATTTATATTATATAAAA
Found at i:22080114 original size:22 final size:23
Alignment explanation
Indices: 22080078--22080122 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
22080068 TAAATTAAAT
22080078 TATTTTTATATTTAT-TATTCATA
1 TATTTTTATATTTATATA-TCATA
22080101 TATTTTTATA-TTATATATCATA
1 TATTTTTATATTTATATATCATA
22080123 ACAATACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTTTATATTTATATATCATA
Found at i:22081596 original size:2 final size:2
Alignment explanation
Indices: 22081589--22081622 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
22081579 CTATATCATG
22081589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
22081623 TTATTTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22083136 original size:29 final size:29
Alignment explanation
Indices: 22083057--22083137 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
22083047 TAGTTAAATT
22083057 AATAAATCTTTATATTTTTA-TTACACCTA
1 AATAAATCTTT-TATTTTTATTTACACCTA
* * *
22083086 AATAAA-CCTTAACTTTTAATTTACATCC-A
1 AATAAATCTTTTA-TTTTTATTTACA-CCTA
22083115 AATAAATCTTTTATTTTTATTTA
1 AATAAATCTTTTATTTTTATTTA
22083138 TATTGAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 1 0.02
28 8 0.19
29 27 0.64
30 6 0.14
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAAATCTTTTATTTTTATTTACACCTA
Found at i:22083417 original size:15 final size:15
Alignment explanation
Indices: 22083397--22083430 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
22083387 TTAGGTTAGA
*
22083397 TTTGAATTGAGTTAT
1 TTTGAATTAAGTTAT
22083412 TTTGAATTAAGTTAT
1 TTTGAATTAAGTTAT
22083427 TTTG
1 TTTG
22083431 CGTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTGAATTAAGTTAT
Found at i:22084320 original size:2 final size:2
Alignment explanation
Indices: 22084315--22084352 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22084305 GTGTGTGTAC
22084315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22084353 TAGAACCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22084664 original size:29 final size:28
Alignment explanation
Indices: 22084623--22084677 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
22084613 ACTTTATCAC
* * *
22084623 TATACTTACATAAGTTTTTATATTTTTAT
1 TATACTCAAATAAATTTTTAT-TTTTTAT
22084652 TATACTCAAATAAATTTTTATTTTTT
1 TATACTCAAATAAATTTTTATTTTTT
22084678 GATTTATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (28 bp):
TATACTCAAATAAATTTTTATTTTTTAT
Found at i:22085724 original size:28 final size:28
Alignment explanation
Indices: 22085688--22085749 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
22085678 TTTTTACTAA
* *
22085688 AAATTTTAATAAAATTTTATATT-TAAAT
1 AAATATTAATAAAA-TTTAAATTATAAAT
*
22085716 AAATATTAATCAAATTTAAATTATAAAT
1 AAATATTAATAAAATTTAAATTATAAAT
22085744 -AATATT
1 AAATATT
22085750 TTTATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
AAATATTAATAAAATTTAAATTATAAAT
Found at i:22087773 original size:21 final size:21
Alignment explanation
Indices: 22087749--22087791 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22087739 GGTATCATTA
22087749 CTTTCCTCCCCTCCTCCTCCT
1 CTTTCCTCCCCTCCTCCTCCT
22087770 CTTTCCTCCCCTCCTCCTCCT
1 CTTTCCTCCCCTCCTCCTCCT
22087791 C
1 C
22087792 GTTGCTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (21 bp):
CTTTCCTCCCCTCCTCCTCCT
Found at i:22099770 original size:2 final size:2
Alignment explanation
Indices: 22099763--22099801 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22099753 TACCTTAGAA
22099763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22099802 ACTAGAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22100298 original size:3 final size:3
Alignment explanation
Indices: 22100290--22100347 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
22100280 TGATGGTAAA
22100290 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22100338 TAT TAT TAT T
1 TAT TAT TAT T
22100348 TAATTATTGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22100361 original size:18 final size:18
Alignment explanation
Indices: 22100291--22100393 Score: 80
Period size: 18 Copynumber: 6.1 Consensus size: 18
22100281 GATGGTAAAT
22100291 ATTATTA-TT-ATTATT-
1 ATTATTATTTAATTATTG
22100306 ATTATTA-TT-ATTATT-
1 ATTATTATTTAATTATTG
*
22100321 ATTATTATTATTATTATT-
1 ATTATTATT-TAATTATTG
22100339 ATTATTATTTAATTATTG
1 ATTATTATTTAATTATTG
* *
22100357 GTTATGA-TTAATTTATTG
1 ATTATTATTTAA-TTATTG
* *
22100375 GTAATTA-TTAATTATTG
1 ATTATTATTTAATTATTG
22100392 AT
1 AT
22100394 ATTTTCATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
15 22 0.29
16 1 0.01
17 19 0.25
18 35 0.45
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTATTATTTAATTATTG
Found at i:22102528 original size:29 final size:29
Alignment explanation
Indices: 22102481--22102541 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
22102471 AATATTAAAA
22102481 TAATAATATTTTAATAATTTT-AAT-TTT
1 TAATAATATTTTAATAATTTTGAATCTTT
22102508 TAATATATATGTTT-ATAAATTTTGAATCTTT
1 TAATA-ATAT-TTTAAT-AATTTTGAATCTTT
22102539 TAA
1 TAA
22102542 GCTCATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.17
28 6 0.21
29 9 0.31
30 3 0.10
31 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (29 bp):
TAATAATATTTTAATAATTTTGAATCTTT
Found at i:22102668 original size:23 final size:19
Alignment explanation
Indices: 22102612--22102654 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
22102602 ATCCATAGAC
22102612 ATGTTAAATATATATTTAT
1 ATGTTAAATATATATTTAT
22102631 ATGTTAAATATATATTTAT
1 ATGTTAAATATATATTTAT
22102650 ATGTT
1 ATGTT
22102655 GGTTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
ATGTTAAATATATATTTAT
Found at i:22107438 original size:12 final size:12
Alignment explanation
Indices: 22107422--22107475 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
22107412 ATTCTTCTCT
*
22107422 TTTTTTTTATTTT
1 TTTTTTTT-TTTA
22107435 TTTTTATATTTTTA
1 TTTTT-T-TTTTTA
22107449 GTTTTTTTTTTTA
1 -TTTTTTTTTTTA
*
22107462 TGTTTTTTTTTA
1 TTTTTTTTTTTA
22107474 TT
1 TT
22107476 AGGCTAAGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 12 0.34
13 11 0.31
14 5 0.14
15 7 0.20
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:22107605 original size:26 final size:26
Alignment explanation
Indices: 22107576--22107637 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
22107566 TTTCTTTAAA
22107576 AGCTTTCTTTGTTACAATTAAATTTC
1 AGCTTTCTTTGTTACAATTAAATTTC
22107602 AGCTTTCTTTGTTACAATTAAATTTC
1 AGCTTTCTTTGTTACAATTAAATTTC
22107628 AGCTTTCTTT
1 AGCTTTCTTT
22107638 TATTGTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (26 bp):
AGCTTTCTTTGTTACAATTAAATTTC
Found at i:22108258 original size:22 final size:22
Alignment explanation
Indices: 22108233--22108280 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
22108223 ATTCTGTCGA
*
22108233 TAATCTGTCAGT-ATTCCATTAG
1 TAATCTGT-AGTGAATCCATTAG
* *
22108255 TAATTTGTAGTGAATCTATTAG
1 TAATCTGTAGTGAATCCATTAG
22108277 TAAT
1 TAAT
22108281 GGCATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (22 bp):
TAATCTGTAGTGAATCCATTAG
Found at i:22108312 original size:20 final size:19
Alignment explanation
Indices: 22108286--22108345 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
22108276 GTAATGGCAT
22108286 TAATTTCATCGATAATATTGA
1 TAATTTCATC-ATAATATT-A
*
22108307 -AATTTCATCATTAAAATTA
1 TAATTTCATCA-TAATATTA
22108326 TAATTTCATCAATAAT-TTA
1 TAATTTCATC-ATAATATTA
22108345 T
1 T
22108346 TACTTTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.18
20 27 0.79
21 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (19 bp):
TAATTTCATCATAATATTA
Found at i:22109476 original size:101 final size:102
Alignment explanation
Indices: 22109301--22109541 Score: 315
Period size: 101 Copynumber: 2.4 Consensus size: 102
22109291 TATCTATTTT
* * * * *
22109301 ATCAACAATCATAATACACAACTAGAATCACAATGCAAAATATGTAATAGTTTTCACATTTCATA
1 ATCAACAATCACAATACACAACCAGAATCACAATGCAAAATAAGCAATAGTTTTCACATTTCACA
22109366 AATGTGATCTTAT-GTAATATACTATTAAGATAGTTC
66 AATGTGATCTTATCGTAATATACTATTAAGATAGTTC
* * *
22109402 ATCAACAATCACATTACACAACCAGAATTACAATGTAAAATAAGCAATAGTTTTCACATTTCACA
1 ATCAACAATCACAATACACAACCAGAATCACAATGCAAAATAAGCAATAGTTTTCACATTTCACA
* *
22109467 AATGTGATCTTATCGTAATATACTA-TACAAATAATTC
66 AATGTGATCTTATCGTAATATACTATTA-AGATAGTTC
* * * * * *
22109504 AACAATAATTACAATACACAACTAAAATCACAAAGCAA
1 ATCAACAATCACAATACACAACCAGAATCACAATGCAA
22109542 GTTACACAAT
Statistics
Matches: 119, Mismatches: 19, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
101 72 0.61
102 47 0.39
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (102 bp):
ATCAACAATCACAATACACAACCAGAATCACAATGCAAAATAAGCAATAGTTTTCACATTTCACA
AATGTGATCTTATCGTAATATACTATTAAGATAGTTC
Found at i:22111241 original size:34 final size:34
Alignment explanation
Indices: 22111195--22111274 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 34
22111185 CTATTAAATT
*
22111195 TTTAAAGTTTAGC-AGTGTTTCTGCATTTAAATGCC
1 TTTAAA-TTTAGCTA-TGTTTCTGCATATAAATGCC
*
22111230 TTTAAATTTAGCTATGTTTTTGCATATAAATGCC
1 TTTAAATTTAGCTATGTTTCTGCATATAAATGCC
**
22111264 ACTAAATTTAG
1 TTTAAATTTAG
22111275 TGACGTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 33 0.82
35 7 0.17
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (34 bp):
TTTAAATTTAGCTATGTTTCTGCATATAAATGCC
Found at i:22111288 original size:34 final size:34
Alignment explanation
Indices: 22111211--22111301 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 34
22111201 GTTTAGCAGT
* ** *
22111211 GTTTCTGCATTTAAATGCCTTTAAATTTAGCTAT
1 GTTTCTGCATATAAATGCCACTAAATTTAGCTAC
*
22111245 GTTTTTGCATATAAATGCCACTAAATTTAG-TGAC
1 GTTTCTGCATATAAATGCCACTAAATTTAGCT-AC
* *
22111279 GTTTGTGCATGA-AAATGCTACTA
1 GTTTCTGCAT-ATAAATGCCACTA
22111302 TTAAGAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 1 0.02
34 46 0.96
35 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (34 bp):
GTTTCTGCATATAAATGCCACTAAATTTAGCTAC
Found at i:22113886 original size:160 final size:161
Alignment explanation
Indices: 22112379--22114235 Score: 1311
Period size: 160 Copynumber: 11.6 Consensus size: 161
22112369 GACAATAATG
* * * * * * *
22112379 AAGTTCAAACATTC-TACAACTTTAATATCATGTATTGGAGTTATCTAAACTATTAAAATATAAC
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * * * * * ** * *
22112443 AATAACTGTAAATTTACATGTCTACTTTTTAATGGTATAAAAAGTCCTAAACAGATATAAATCAC
66 AATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAA-C-C
* **
22112508 -T-ACTTATTT---ACATATCAAATCATGAAAGCC
129 GTAACTT-TTTCACACATATC-AATCGTGAAAATC
* * * * * * *
22112538 AAGTTCAATCATT-TGAACAAGTTTAATATCTTATATTTAAGCTATCTAAAATGTTAAAACATAA
1 AAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAA
* * * * *
22112602 -ATATAACTGCAAATTT-TCATTTTGATCC-TTTAAC-ATCACAAAAAGTGC-TAAACATACATA
65 CA-ATAACTGCAAATTTAT-ATTTTTA-CCTTTTAACGA-CATAAAAAGT-CTTAAATAGATATA
** * * **
22112662 AATGGTAACTTGTTCACACATA-CTAATAGTGAAAAAG
125 AACCGTAACTTTTTCACACATATC-AATCGTGAAAATC
** * *
22112699 AACATCAATCATTC-GACCAAGTTTAATATCATATATTTAAGCTATCT-AACTTGTTAAAATAGA
1 AAGTTCAATCATTCAGA-CAAGTTTAATATCATGTATTGAAGCTATCTAAAC-TGTTAAAATAGA
* ** * * * * * *
22112762 ACAATAATTATAATTTTGTATTTTTTACCTTTTAATGGCACAAAAAGTCTTAAATAGATATAAAT
64 ACAATAACTGCAAATTTATA-TTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAAC
** * *
22112827 ATTAACTTTTTTCACAGATATCAACCGT-ATAAATC
128 CGTAAC-TTTTTCACACATATCAATCGTGA-AAATC
* * * * *
22112862 AAGTTCAATTATTTAGACAAG-----T-TCTTGTATCGAAGCTATCCAAACTGTTAAAATAGAAC
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * * * * ** * *
22112921 AATAATTGTAAATTTATA-TTTTACCTTTTAATGGCATAAAAATTAATAGATAGATATAAACAGT
66 AATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACCGT
* * *
22112985 AATTTTTTCACACACATCAATTGTGAAAA-C
131 AACTTTTTCACACATATCAATCGTGAAAATC
* * * *
22113015 TAAGTTCAATCATTTAAACAAGTTTAATATCATATATTGAAGCTAT-TCAAACTATTAAAATAGA
1 -AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCT-AAACTGTTAAAATAGA
* * * * *
22113079 ATAATAATTGCAAATTTATAGTTTTACCTTTTAACAACATAAAAAGTCTT-AATAGACATAAA-C
64 ACAATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACC
* * *
22113142 GTAACTTTTTTACACATGTTAATCGTGGAAAA-C
129 GTAACTTTTTCACACATATCAATCGT-GAAAATC
* * * * *
22113175 AAGTTCAATCATTCAAACAAGTTCAATATCATGTATTTAAGCTATGTAAACTATTAAAATAGAA-
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * * * * * * * *
22113239 ATATAACTACAAA-ATA-ACTTTTTACCCTTTAACGATATAAAAAGTCATAAACAAACATAAAAC
66 A-ATAACTGCAAATTTATA-TTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACC
* *
22113302 GATAACTTTTTCACATATATCAATTGTGAAAA-C
129 G-TAACTTTTTCACACATATCAATCGTGAAAATC
* * * * * *
22113335 AAAGTTTAATCATTC-GAACAAGTTTAGTATAATGTATTGAA-CTATATAAACTATTAAAACAGA
1 -AAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGA
** * * * * * * * *
22113398 ACAATAACTGCAAATTTGCATTTGTTGCTTTTTAACAATACAAAAAGCCTTAAACAAATATAAAC
64 ACAATAACTGCAAATTTATATTT-TTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAAC
* *
22113463 CATAACCTTTTCACACATATC-ATC--GAAAATC
128 CGTAACTTTTTCACACATATCAATCGTGAAAATC
* ** * * ** *
22113494 AAGTTCAATTATTTGGATAAGTTTAATATCATGTATTGAAGCTATTTAAACTACTAAAATAGTAC
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * * * *
22113559 AATAATTGCAAA-TTATATTTTTATCTTTTAAC-AGCACAAAAAGTCCTT-AACAGACATAAACC
66 AATAACTGCAAATTTATATTTTTACCTTTTAACGA-CATAAAAAGT-CTTAAATAGATATAAACC
* * * * *
22113621 ATAATTTTTTCACACATATCTATCAACT-ATAGAAAC
129 GTAACTTTTTCACACATATCAATC--GTGA-A-AATC
* * * * * *
22113657 AAAGATCAATCATTC-GAATAAGTTTAATATCATATATTAAAGCCATCTAAACTGTTGAAATAGA
1 -AAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGA
* * * * * *
22113721 ACAATAACTGCAAACTTGTATTTTTGCTTTTTAACGACATAAAAAGTTTTAAATAGATATAAACT
64 ACAATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACC
* * *
22113786 GTAACCTTTTCACATATATCAATCATGAAAATC
129 GTAACTTTTTCACACATATCAATCGTGAAAATC
* * * *
22113819 AAGTTTAATCA-TCAGACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAAAATAAAAC
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * * * *
22113883 AATAACTGCAAACTTACATTTTTGCTTTTTAACGACATAAAAAGTCCTAAATAGATATAAACCGT
66 AATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACCGT
* *
22113948 AAACTTTTTCACACATATCAACCATGAAAATC
131 -AACTTTTTCACACATATCAATCGTGAAAATC
* ** * * * *
22113980 AAGTTCAATTATTTGGACAAGTTTAATATCATGTATTGAAACTATTTAAACTGTTAAAATAAAAT
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * ** * * * * * * *
22114045 AATAACTGTAAATTTATATTTTTATCTTTTAGTGGCACAAAAAATCCTAAACA-AAATAAACCAT
66 AATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACCGT
* * *
22114109 AAC-TTTTCACACATATCAATTGTGGAAACC
131 AACTTTTTCACACATATCAATCGTGAAAATC
* * * * *** * * * *
22114139 AAGTTCAATCATTAAAATAAATTTAATATCACAAATTGAAGTTATATAAACTGCTAAAACAGAAC
1 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
* * * *
22114204 AATAACTACAATTTTTTATTTTTGCCTTTTAA
66 AATAACTGCAAATTTATATTTTTACCTTTTAA
22114236 TGGCAAAAAA
Statistics
Matches: 1362, Mismatches: 266, Indels: 140
0.77 0.15 0.08
Matches are distributed among these distances:
153 1 0.00
154 39 0.03
155 42 0.03
156 1 0.00
157 91 0.07
158 81 0.06
159 243 0.18
160 300 0.22
161 232 0.17
162 169 0.12
163 38 0.03
164 69 0.05
165 55 0.04
166 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (161 bp):
AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAC
AATAACTGCAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCTTAAATAGATATAAACCGT
AACTTTTTCACACATATCAATCGTGAAAATC
Found at i:22115445 original size:23 final size:22
Alignment explanation
Indices: 22115418--22115464 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
22115408 AATAATTATT
22115418 AAATTTTAAAAAAATCAAATATA
1 AAATTTTAAAAAAA-CAAATATA
***
22115441 AAATTTTTTCAAAACAAATATA
1 AAATTTTAAAAAAACAAATATA
22115463 AA
1 AA
22115465 TCTTAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATTTTAAAAAAACAAATATA
Found at i:22115625 original size:32 final size:33
Alignment explanation
Indices: 22115545--22115630 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
22115535 AATCTATAAC
* ** *
22115545 AAAAAATCTAACAAATCTCAATAATACTCAACA
1 AAAAAACCTAACAAAAATTAATAATACTCAACA
** *
22115578 AAAAAACAC-CCCAAAAATTAATAATACTCAA-T
1 AAAAAAC-CTAACAAAAATTAATAATACTCAACA
22115610 AAAAAACCTAACAAAAATTAA
1 AAAAAACCTAACAAAAATTAA
22115631 CAAAAAGTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
31 1 0.02
32 17 0.40
33 23 0.55
34 1 0.02
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.19
Consensus pattern (33 bp):
AAAAAACCTAACAAAAATTAATAATACTCAACA
Found at i:22117887 original size:28 final size:29
Alignment explanation
Indices: 22117839--22117897 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
22117829 TTTTTCTTTA
* *
22117839 TAATATTAAAAAACATTAAA-TATATTTT
1 TAATATTAAAAAACATAAAATTATAGTTT
*
22117867 TAATA-TAAAATACAATAAAATTATAGTTT
1 TAATATTAAAAAAC-ATAAAATTATAGTTT
22117896 TA
1 TA
22117898 TTTCATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 7 0.27
28 10 0.38
29 9 0.35
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (29 bp):
TAATATTAAAAAACATAAAATTATAGTTT
Found at i:22118420 original size:28 final size:29
Alignment explanation
Indices: 22118365--22118433 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
22118355 ATAGGTATTT
22118365 AAAAATTTAACTAATTAAAAATAAAATACA
1 AAAAATTTAA-TAATTAAAAATAAAATACA
* * *
22118395 TAAAATTTAATAATT-ATAATAAAATATA
1 AAAAATTTAATAATTAAAAATAAAATACA
22118423 AAAAATTTAAT
1 AAAAATTTAAT
22118434 TGATTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 21 0.60
29 5 0.14
30 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAAATTTAATAATTAAAAATAAAATACA
Found at i:22125041 original size:33 final size:33
Alignment explanation
Indices: 22124974--22125041 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
22124964 TAAATATGAA
*
22124974 AATATTTTTAAAATATTAAAAACATTTTATATT
1 AATATTTTTAAAATATTAAAAACATTTTAAATT
* * *
22125007 AATATTTTT-ATATTTTAAATACATTTTAAAATT
1 AATATTTTTAAAATATTAAAAACATTTT-AAATT
22125040 AA
1 AA
22125042 AAATGAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (33 bp):
AATATTTTTAAAATATTAAAAACATTTTAAATT
Found at i:22134612 original size:20 final size:21
Alignment explanation
Indices: 22134587--22134628 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
22134577 TTATTAAAAA
22134587 TTTTATCTTT-AAA-TTTTATT
1 TTTTAT-TTTAAAAGTTTTATT
22134607 TTTTATTTTAAAAGTTTTATT
1 TTTTATTTTAAAAGTTTTATT
22134628 T
1 T
22134629 CTAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 9 0.45
21 8 0.40
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATTTTAAAAGTTTTATT
Found at i:22135326 original size:3 final size:3
Alignment explanation
Indices: 22135318--22135376 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
22135308 AAAATTAAAA
22135318 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22135366 ATT ATT ATT AT
1 ATT ATT ATT AT
22135377 ACCCACAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22137805 original size:158 final size:158
Alignment explanation
Indices: 22137461--22137842 Score: 478
Period size: 158 Copynumber: 2.4 Consensus size: 158
22137451 TGAAATCACA
* * * *
22137461 TTTGTGAAAGGT-AAAAATATTGCTTATTTTGTTTTGTGATTCTGGTTGTGTATTATAATTGTTG
1 TTTGT-AAAGGTGAAAAATATTGCATATTTTATTTTGTGATTATGGTTGTGTATTATGATTGTTG
* * * * * *
22137525 ATGAAGTAGATAGTATAGTAATTGAAAGGCTAAACATTGTAGGACAAATGAAATTAAACTATATA
65 ATAAAGTAAATAGTATAGCAATTGAAAGACTAAACATTGCAAGACAAATGAAATTAAACTATATA
22137590 GTGTTTTATACTTATTGAAATGCAATAAC
130 GTGTTTTATACTTATTGAAATGCAATAAC
* * * * * * ** *
22137619 TTTGTGAAGGTGAAAAAAATTACGTATTTTACTTTGTGATTGTGGTTGTACATTATGATTGTTGG
1 TTTGTAAAGGTGAAAAATATTGCATATTTTATTTTGTGATTATGGTTGTGTATTATGATTGTTGA
* * * *
22137684 TAAAGTAAATAGTGTAGCAATTGAAATACTAAACATTGCAAGACAAATGATATTGAACTATATAG
66 TAAAGTAAATAGTATAGCAATTGAAAGACTAAACATTGCAAGACAAATGAAATTAAACTATATAG
* * *
22137749 TGTTTTGTGCTTATTGAGATGCAATAAC
131 TGTTTTATACTTATTGAAATGCAATAAC
* * * *
22137777 TTTGTAAAGGTGAAAATTATTGCATATTTTATTTTATGATTATAGTTGTGTATTGTGATTGTTGA
1 TTTGTAAAGGTGAAAAATATTGCATATTTTATTTTGTGATTATGGTTGTGTATTATGATTGTTGA
22137842 T
66 T
22137843 GAAATATCTT
Statistics
Matches: 186, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
157 5 0.03
158 181 0.97
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.41
Consensus pattern (158 bp):
TTTGTAAAGGTGAAAAATATTGCATATTTTATTTTGTGATTATGGTTGTGTATTATGATTGTTGA
TAAAGTAAATAGTATAGCAATTGAAAGACTAAACATTGCAAGACAAATGAAATTAAACTATATAG
TGTTTTATACTTATTGAAATGCAATAAC
Found at i:22141644 original size:29 final size:29
Alignment explanation
Indices: 22141581--22141672 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
22141571 AATATCATTG
* * * *
22141581 AATTATAATAAAATATTTAATATATTAATTG
1 AATTAT-A-AAAATTTTTAATATAATATTTA
*
22141612 AATTTTAAAAATTTTTAATATAATATTTA
1 AATTATAAAAATTTTTAATATAATATTTA
**
22141641 AATTATAAATTTGTTAATTAATATAATATTTA
1 AATTATAAAAAT-TT--TTAATATAATATTTA
22141673 TTATTAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 27 0.54
30 3 0.06
31 5 0.10
32 15 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AATTATAAAAATTTTTAATATAATATTTA
Found at i:22141678 original size:18 final size:18
Alignment explanation
Indices: 22141644--22141682 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22141634 ATATTTAAAT
*
22141644 TATAAATTTGTTAATTAA
1 TATAAATTTATTAATTAA
22141662 TATAATATTTATT-ATTAA
1 TATAA-ATTTATTAATTAA
22141680 TAT
1 TAT
22141683 TATTAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TATAAATTTATTAATTAA
Found at i:22148990 original size:4 final size:4
Alignment explanation
Indices: 22148981--22149006 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22148971 ATTACAATCC
22148981 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
22149007 AGTACTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Done.