Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 113 of 168
Found at i:33073310 original size:29 final size:29
Alignment explanation
Indices: 33073253--33073311 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
33073243 AAATTTAGAA
**
33073253 TTTAATTTTTATACTTTTATTTTTAAATT
1 TTTAATTTTTATACTTTTATAGTTAAATT
33073282 TTTAATCTTTT-TACTTTT-TAGTTAGAATT
1 TTTAAT-TTTTATACTTTTATAGTTA-AATT
33073311 T
1 T
33073312 GGGAACTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 18 0.69
30 4 0.15
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTAATTTTTATACTTTTATAGTTAAATT
Found at i:33073704 original size:22 final size:22
Alignment explanation
Indices: 33073668--33073724 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
33073658 AAAGGAGGCC
*
33073668 CAGAGAATGTTAGCACCAGGGA
1 CAGAGAATGTCAGCACCAGGGA
*
33073690 CAGGGAATGTCAGCACCAGGGA
1 CAGAGAATGTCAGCACCAGGGA
33073712 CAGAGAATGTCAG
1 CAGAGAATGTCAG
33073725 TGCCCTCGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.33, T:0.12
Consensus pattern (22 bp):
CAGAGAATGTCAGCACCAGGGA
Found at i:33076106 original size:24 final size:24
Alignment explanation
Indices: 33076043--33076094 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33076033 TTTCTAAAAG
* * *
33076043 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
33076067 ATTTAGAATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
33076091 ATTT
1 ATTT
33076095 TACTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:33085122 original size:51 final size:51
Alignment explanation
Indices: 33085046--33085148 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
33085036 GTTCATTAGA
* *
33085046 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATG-GAATGGAGTTGTAATT
1 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAG-ATAGAGCTGTAATT
33085097 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAGATAGAGCTGTAATT
1 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAGATAGAGCTGTAATT
33085148 A
1 A
33085149 GTAATTCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (51 bp):
ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAGATAGAGCTGTAATT
Found at i:33089215 original size:99 final size:99
Alignment explanation
Indices: 33089044--33089241 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
33089034 AGTTACAGTC
33089044 ATATATGTGTACATGAGATTGTGACTTCAGGTGTTGCATGGGCAAGGTGCTTTATGAGCTAGAAC
1 ATATATGTGTACATGAGATTGTGACTTCAGGTGTTGCATGGGCAAGGTGCTTTATGAGCTAGAAC
33089109 AGCACTCCTTTGCACTCTAGCTGACTGGTAATGG
66 AGCACTCCTTTGCACTCTAGCTGACTGGTAATGG
33089143 ATATATGTGTACATGAGATTGTGACTTCAGGTGTTGCATGGGCAAGGTGCTTTATGAGCTAGAAC
1 ATATATGTGTACATGAGATTGTGACTTCAGGTGTTGCATGGGCAAGGTGCTTTATGAGCTAGAAC
33089208 AGCACTCCTTTGCACTCTAGCTGACTGGTAATGG
66 AGCACTCCTTTGCACTCTAGCTGACTGGTAATGG
33089242 GTAGGTGTTG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (99 bp):
ATATATGTGTACATGAGATTGTGACTTCAGGTGTTGCATGGGCAAGGTGCTTTATGAGCTAGAAC
AGCACTCCTTTGCACTCTAGCTGACTGGTAATGG
Found at i:33090249 original size:33 final size:32
Alignment explanation
Indices: 33090213--33090298 Score: 129
Period size: 32 Copynumber: 2.6 Consensus size: 32
33090203 AAAATTTTAA
33090213 AAAAATTAAAAAAA-GTATTTTAAAAATATTTT
1 AAAAA-TAAAAAAATGTATTTTAAAAATATTTT
33090245 AAAAATAAAAAAATGTATTTTAAAAATATTTTT
1 AAAAATAAAAAAATGTATTTTAAAAATA-TTTT
*
33090278 AAAAATAAAAAATATATATTT
1 AAAAATAAAAAA-ATGTATTT
33090299 ATTATATTCG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
31 8 0.16
32 19 0.38
33 16 0.32
34 7 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (32 bp):
AAAAATAAAAAAATGTATTTTAAAAATATTTT
Found at i:33090250 original size:11 final size:11
Alignment explanation
Indices: 33090200--33090284 Score: 68
Period size: 11 Copynumber: 7.6 Consensus size: 11
33090190 ATAAACACCA
*
33090200 AAAAAAATTTT
1 AAAAATATTTT
* **
33090211 AAAAAAATTAA
1 AAAAATATTTT
33090222 AAAAAGTATTTT
1 AAAAA-TATTTT
33090234 AAAAATATTTT
1 AAAAATATTTT
*
33090245 AAAAATA---A
1 AAAAATATTTT
33090253 AAAAATGTATTTT
1 AAAAA--TATTTT
33090266 AAAAATATTTTT
1 AAAAATA-TTTT
33090278 AAAAATA
1 AAAAATA
33090285 AAAAATATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.08
10 2 0.03
11 29 0.48
12 19 0.32
13 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:33098748 original size:21 final size:20
Alignment explanation
Indices: 33098707--33098811 Score: 70
Period size: 21 Copynumber: 5.0 Consensus size: 20
33098697 CAAAAGCCCG
*
33098707 AAGGCTAAACA-AAAGCACAT
1 AAGGCTAAACAGAAA-CTCAT
33098727 AAGTGCTAAACAGAAACTCAT
1 AAG-GCTAAACAGAAACTCAT
* * * *
33098748 AAGGATTGAACGGAAGCTCAT
1 AAGG-CTAAACAGAAACTCAT
* *
33098769 AAGAGCTGAACGGAAAC-CTAT
1 AAG-GCTAAACAGAAACTC-AT
*
33098790 AAGGGTTAAACAGAAACTCAT
1 AA-GGCTAAACAGAAACTCAT
33098811 A
1 A
33098812 TGAGTTGAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.07
21 57 0.84
22 6 0.09
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (20 bp):
AAGGCTAAACAGAAACTCAT
Found at i:33098771 original size:42 final size:42
Alignment explanation
Indices: 33098712--33098811 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
33098702 GCCCGAAGGC
* * *
33098712 TAAACAAAAGCACATAAGTGCTAAACAGAAA-CTCATAAGGAT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCT-ATAAGGAT
* * * * *
33098754 TGAACGGAAGCTCATAAGAGCTGAACGGAAACCTATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCTATAAGGAT
*
33098796 TAAACAGAAACTCATA
1 TAAACAGAAGCTCATA
33098812 TGAGTTGAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCTATAAGGAT
Found at i:33098821 original size:42 final size:42
Alignment explanation
Indices: 33098724--33098825 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
33098714 AACAAAAGCA
* * * * * *
33098724 CATAAGTGCTAAACAGAAA-CTCATAAGGATTGAACGGAAGCT
1 CATAAGAGCTGAACGGAAACCT-ATAAGGATTAAACAGAAACT
*
33098766 CATAAGAGCTGAACGGAAACCTATAAGGGTTAAACAGAAACT
1 CATAAGAGCTGAACGGAAACCTATAAGGATTAAACAGAAACT
* *
33098808 CATATGAGTTGAACGGAA
1 CATAAGAGCTGAACGGAA
33098826 GCTCGTAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.19
Consensus pattern (42 bp):
CATAAGAGCTGAACGGAAACCTATAAGGATTAAACAGAAACT
Found at i:33099455 original size:17 final size:17
Alignment explanation
Indices: 33099433--33099466 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33099423 ATTTGGTCCT
33099433 AAAATTAATATCTAAAA
1 AAAATTAATATCTAAAA
* *
33099450 AAAATTACTATGTAAAA
1 AAAATTAATATCTAAAA
33099467 TCATCATACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATTAATATCTAAAA
Found at i:33105700 original size:15 final size:16
Alignment explanation
Indices: 33105676--33105708 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33105666 ACTTATAACA
33105676 ATTTTATTTATTTAAT
1 ATTTTATTTATTTAAT
*
33105692 ATTTT-TTTATTTCAT
1 ATTTTATTTATTTAAT
33105707 AT
1 AT
33105709 AATTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTATTTAAT
Found at i:33106346 original size:123 final size:125
Alignment explanation
Indices: 33106030--33106379 Score: 519
Period size: 125 Copynumber: 2.8 Consensus size: 125
33106020 CAATTTCGAG
** *
33106030 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTACCAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
33106095 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTT
* * * *
33106155 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
33106220 AAATTGCGGCCTCGT-CAGCGCGCTTTTGCTACAGTAGGTCA-TGTAAGAAATAA-T-TTTT
66 AAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACAG-AAGAAATAATTATTTT
* *
33106278 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTATACCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
* *
33106343 AAATCGCGCCCTCGTGGACGCGATTTTGGTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
33106380 CATGTTTGGG
Statistics
Matches: 200, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
123 93 0.47
124 4 0.02
125 103 0.51
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTT
Found at i:33109499 original size:116 final size:116
Alignment explanation
Indices: 33109295--33109512 Score: 409
Period size: 116 Copynumber: 1.9 Consensus size: 116
33109285 TGATAAATTG
* *
33109295 TATTAAGTCAAAATATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
33109360 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
33109411 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
*
33109476 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTA
33109513 CTTTAAGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:33109587 original size:50 final size:50
Alignment explanation
Indices: 33109514--33110113 Score: 301
Period size: 50 Copynumber: 12.0 Consensus size: 50
33109504 CTAACATTAC
*
33109514 TTTAA-GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
**
33109562 TTTAAGGGTTTAGGACTTTTAATTAAATTAGGCTAGGGTTAGGGTTTAGGGTTTTTAA
1 TTTAAGGGTTTAGGGTTTTTAATTAAA-T----TA-GGTTAGGG-TTAGGGTTTTT-A
* * * * *
33109620 TGAATTAAGTTAGGGTTAGGATTTTTAATTGAATTATGTTAGGGTTACGG--TTT-
1 T---TTAAG---GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
* * * *
33109673 TTTAAGGGTTTAGGGCTTTTAATTAAATTAGGCTAGGGTTACGG-TTTAA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
* * * *
33109722 GGTTT-AGGGTTTAAGATTTTTAAATGAATTAGGTTAGGGTTAGGGTTTTTAA
1 --TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-A
* * * ** ** *
33109774 TTAAATTAGG-TTAGGGTTTTTAATT-AA--GGGTTCAGGGTTTTTAAATGAATTAA
1 TTTAA--GGGTTTAGGGTTTTTAATTAAATTAGGTT-AGGG---TT-AGGGTTTTTA
* * * *
33109827 ATT-A-GG-CTAGGGTTTTTAATTAAATTAGGTTAGGATT---TTTAATTTA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT--TTTA
* * **
33109873 TTTAAGGGTTTAGGGCTTTTAATTAAATTAGGCTAGGGTT----TTTAAGACA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT---TTA
* *
33109922 ATT-A-GG-CTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
*
33109963 TTTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
**** * *
33110013 TTTAAGGGTTT-GGAAAAATTAATTAAATCAGGCTAGGGTTAGGGTTTTTA
1 TTTAAGGGTTTAGG-GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
* * * *
33110063 ATTAAGGGTTTAGGGTTTTTAAATGAATTAGGTTA-GGCTAGGGTTTTTA
1 TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
33110112 TT
1 TT
33110114 AAATGTCATA
Statistics
Matches: 420, Mismatches: 76, Indels: 111
0.69 0.13 0.18
Matches are distributed among these distances:
40 4 0.01
41 5 0.01
42 1 0.00
43 3 0.01
44 17 0.04
45 4 0.01
46 19 0.05
47 36 0.09
48 14 0.03
49 71 0.17
50 139 0.33
51 15 0.04
52 18 0.04
53 7 0.02
54 4 0.01
55 5 0.01
56 8 0.02
57 15 0.04
58 9 0.02
59 2 0.00
61 5 0.01
63 1 0.00
64 18 0.04
ACGTcount: A:0.27, C:0.03, G:0.26, T:0.44
Consensus pattern (50 bp):
TTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
Found at i:33109631 original size:29 final size:29
Alignment explanation
Indices: 33109599--33109674 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
33109589 TTAGGCTAGG
33109599 GTTAGGGTTTAGGGTTTTTAA-TGAATTAA
1 GTTAGGG-TTAGGGTTTTTAATTGAATTAA
* *
33109628 GTTAGGGTTAGGATTTTTAATTGAATTAT
1 GTTAGGGTTAGGGTTTTTAATTGAATTAA
*
33109657 GTTAGGGTTACGGTTTTT
1 GTTAGGGTTAGGGTTTTT
33109675 TAAGGGTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 12 0.29
29 30 0.71
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (29 bp):
GTTAGGGTTAGGGTTTTTAATTGAATTAA
Found at i:33109634 original size:35 final size:36
Alignment explanation
Indices: 33109566--33109639 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 36
33109556 TTTTTATTTA
*
33109566 AGGGTTTAGGACTTTTAATTAAATTAGGCTAGGGTT
1 AGGGTTTAGGACTTTTAATTAAATTAAGCTAGGGTT
** * *
33109602 AGGGTTTAGGGTTTTTAA-TGAATTAAGTTAGGGTT
1 AGGGTTTAGGACTTTTAATTAAATTAAGCTAGGGTT
33109637 AGG
1 AGG
33109640 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.39
Consensus pattern (36 bp):
AGGGTTTAGGACTTTTAATTAAATTAAGCTAGGGTT
Found at i:33109719 original size:111 final size:113
Alignment explanation
Indices: 33109519--33109726 Score: 330
Period size: 111 Copynumber: 1.8 Consensus size: 113
33109509 ATTACTTTAA
* *
33109519 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTATTTAAGGGTTTAGGACTTTTAA
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTACGG-TTTTATTTAAGGGTTTAGGACTTTTAA
* *
33109584 TTAAATTAGGCTAGGGTTAGGGTTTAGGGTTTTTAATGAATTAAGTTAG
65 TTAAATTAGGCTAGGGTTACGGTTTAAGGTTTTTAATGAATTAAGTTAG
* * *
33109633 GGTTAGGATTTTTAATTGAATTATGTTAGGGTTACGG-TTT-TTTAAGGGTTTAGGGCTTTTAAT
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTACGGTTTTATTTAAGGGTTTAGGACTTTTAAT
33109696 TAAATTAGGCTAGGGTTACGGTTTAAGGTTT
66 TAAATTAGGCTAGGGTTACGGTTTAAGGTTT
33109727 AGGGTTTAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
111 51 0.59
112 3 0.03
114 33 0.38
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (113 bp):
GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTACGGTTTTATTTAAGGGTTTAGGACTTTTAAT
TAAATTAGGCTAGGGTTACGGTTTAAGGTTTTTAATGAATTAAGTTAG
Found at i:33109789 original size:23 final size:23
Alignment explanation
Indices: 33109759--33110002 Score: 232
Period size: 23 Copynumber: 10.4 Consensus size: 23
33109749 ATTAGGTTAG
33109759 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
33109782 GGTTAGGGTTTTTAATT-AA--G
1 GGTTAGGGTTTTTAATTAAATTA
33109802 GGTTCAGGGTTTTTAAATGAATTAAATTA
1 GGTT-AGGG-TTTT---T-AATTAAATTA
*
33109831 GGCTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* * *
33109854 GGTTAGGATTTTTAATTTATTTAA
1 GGTTAGGGTTTTTAATTAAATT-A
*
33109878 GGGTTTAGGGCTTTTAATTAAATTA
1 -GG-TTAGGGTTTTTAATTAAATTA
* *
33109903 GGCTAGGGTTTTTAA-GACAATTA
1 GGTTAGGGTTTTTAATTA-AATTA
*
33109926 GGCTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
33109949 GGTTAGGGTTTTT-ATTTAA--G
1 GGTTAGGGTTTTTAATTAAATTA
*
33109969 GGTTTAGGGTTTTTAATTGAATTA
1 GG-TTAGGGTTTTTAATTAAATTA
33109993 GGTTAGGGTT
1 GGTTAGGGTT
33110003 AGGGTTTTTA
Statistics
Matches: 183, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.03
21 15 0.08
22 17 0.09
23 101 0.55
24 7 0.04
25 4 0.02
26 20 0.11
27 6 0.03
28 4 0.02
29 3 0.02
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:33109814 original size:44 final size:46
Alignment explanation
Indices: 33109757--33109849 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 46
33109747 GAATTAGGTT
*
33109757 AGGGTTAGGG-TTTT-T-AATTAAATTAGGTTAGGGTTTTTAATTA
1 AGGGTTAGGGTTTTTATGAATTAAATTAGGCTAGGGTTTTTAATTA
33109800 AGGGTTCAGGGTTTTTAAATGAATTAAATTAGGCTAGGGTTTTTAATTA
1 AGGGTT-AGGGTTTTT--ATGAATTAAATTAGGCTAGGGTTTTTAATTA
33109849 A
1 A
33109850 ATTAGGTTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 6 0.14
44 4 0.09
45 4 0.09
48 1 0.02
49 28 0.65
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (46 bp):
AGGGTTAGGGTTTTTATGAATTAAATTAGGCTAGGGTTTTTAATTA
Found at i:33109866 original size:72 final size:72
Alignment explanation
Indices: 33109683--33109944 Score: 239
Period size: 72 Copynumber: 3.5 Consensus size: 72
33109673 TTTAAGGGTT
* * * * * *
33109683 TAGGGCTTTTAATTAAATTAGGCTAGGGTTACGGTTTAAGGTTTAGGGTTTAAGATTTTTAAATG
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTT----TTTAA--TTAAGGGTTCAGGGTTTTTAAATG
** *
33109748 AATTAGGTTAGGGT
60 AATTAAATTA-GGC
33109762 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTCAGGGTTTTTAAATGAATTAA
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTCAGGGTTTTTAAATGAATTAA
33109827 ATTAGGC
66 ATTAGGC
* * *
33109834 TAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTTATTTAAGGGTTTAGGG-CTTT---T-A
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT-A---A-TTAAGGGTTCAGGGTTTTTAAATGA
33109894 ATTAAATTAGGC
61 ATTAAATTAGGC
* *
33109906 TAGGGTTTTTAA-GACAATTAGGCTAGGGTTTTTAATTAA
1 TAGGGTTTTTAATTA-AATTAGGTTAGGGTTTTTAATTAA
33109945 ATTAGGTTAG
Statistics
Matches: 162, Mismatches: 15, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
67 4 0.02
68 1 0.01
71 2 0.01
72 75 0.46
73 30 0.19
75 5 0.03
76 4 0.02
77 13 0.08
79 28 0.17
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.43
Consensus pattern (72 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTCAGGGTTTTTAAATGAATTAA
ATTAGGC
Found at i:33109992 original size:90 final size:92
Alignment explanation
Indices: 33109826--33110002 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 92
33109816 AAATGAATTA
*
33109826 AATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTTATTTAAGGGTTTAGGGCTT
1 AATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGG--TGTT-ATTTATTTAAGGGTTTAGGGCTT
33109891 TTAATTAAATTAGGCTAGGGTTTTTAAGAC
63 TTAATTAAATTAGGCTAGGGTTTTTAAGAC
*
33109921 AATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGG-GTT-TTTATTTAAGGGTTTAGGGTTTTTA
1 AATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGTGTTATTTATTTAAGGGTTTAGGGCTTTTA
* *
33109984 ATTGAATTAGGTTAGGGTT
66 ATTAAATTAGGCTAGGGTT
33110003 AGGGTTTTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
90 41 0.53
92 2 0.03
95 35 0.45
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.45
Consensus pattern (92 bp):
AATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGTGTTATTTATTTAAGGGTTTAGGGCTTTTA
ATTAAATTAGGCTAGGGTTTTTAAGAC
Found at i:33110542 original size:18 final size:18
Alignment explanation
Indices: 33110519--33110553 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33110509 CAGAAAAGGA
*
33110519 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
33110537 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
33110554 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:33111282 original size:41 final size:41
Alignment explanation
Indices: 33111225--33111307 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
33111215 ATCAATCGAA
33111225 TAGCGAATGTATGGAAATATCTATTTGTAATAATACTTACT
1 TAGCGAATGTATGGAAATATCTATTTGTAATAATACTTACT
33111266 TAGCGAATGTATGGAAATATCTATTTGTAATAATACTTACT
1 TAGCGAATGTATGGAAATATCTATTTGTAATAATACTTACT
33111307 T
1 T
33111308 CTGCTTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (41 bp):
TAGCGAATGTATGGAAATATCTATTTGTAATAATACTTACT
Found at i:33113034 original size:24 final size:24
Alignment explanation
Indices: 33112984--33113035 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33112974 TTTGTAGAAG
* *
33112984 ATTTAGTATTTATTAGTACAATAT
1 ATTTAGCATTTATTAGCACAATAT
* *
33113008 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCACAATAT
33113032 ATTT
1 ATTT
33113036 GACATACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCACAATAT
Found at i:33117645 original size:18 final size:18
Alignment explanation
Indices: 33117612--33117659 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
33117602 AATATATTTA
33117612 TAAAATTA-TAATAAAAG
1 TAAAATTATTAATAAAAG
* *
33117629 TAAAATTATTTATAAAAT
1 TAAAATTATTAATAAAAG
*
33117647 TATAATTA-TAATA
1 TAAAATTATTAATA
33117660 GTAATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAATTATTAATAAAAG
Found at i:33119831 original size:17 final size:17
Alignment explanation
Indices: 33119798--33119831 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33119788 GTTTATATTA
*
33119798 TTTTCTTTTTCTTTTTT
1 TTTTCTTTTTCTCTTTT
*
33119815 TTTTCTTTTTGTCTTTT
1 TTTTCTTTTTCTCTTTT
33119832 CTTGTGTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTCTCTTTT
Found at i:33121127 original size:87 final size:87
Alignment explanation
Indices: 33120981--33121253 Score: 343
Period size: 87 Copynumber: 3.1 Consensus size: 87
33120971 GATCTGCCAG
* * * *
33120981 TTTAACTGCAACTTATGGGTATAGCGGTTTACCGTACTGTACCACTTGTATGTCAGCTTTGCTGC
1 TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACTTGTACGTCAGCTTTGCTGC
* * *
33121046 ATACTATTATATGATTTGGCAA
66 GTACTATTATATGATCTAGCAA
* *
33121068 TTTAACTATAACTTATCGGTATAGCGGTTTACCGCACTGAACCACTTGTACGTCAGCTTTGCTGC
1 TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACTTGTACGTCAGCTTTGCTGC
* * *
33121133 GTACTATTATCTGATCTAGTAG
66 GTACTATTATATGATCTAGCAA
* * * * *
33121155 TTTAATTGTAACTTATCGGTATAGCAGTTTACTGCACTGTACC-GTATGTACAT-AGCTTTGCTG
1 TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACT-TGTACGTCAGCTTTGCTG
* *
33121218 CGTACTATTATCTAATCTAGCAA
65 CGTACTATTATATGATCTAGCAA
33121241 TTTAAACTGTAAC
1 TTT-AACTGTAAC
33121254 ATGTTTGTGC
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
86 34 0.21
87 127 0.79
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACTTGTACGTCAGCTTTGCTGC
GTACTATTATATGATCTAGCAA
Found at i:33133276 original size:3 final size:3
Alignment explanation
Indices: 33133270--33133297 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33133260 ATTAAAATTT
33133270 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33133298 AAAAGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33135876 original size:21 final size:21
Alignment explanation
Indices: 33135846--33135885 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33135836 TGACATTTTG
*
33135846 TTATTCTTTATTTTACTTAGC
1 TTATTCTTTAATTTACTTAGC
*
33135867 TTATTTTTTAATTTACTTA
1 TTATTCTTTAATTTACTTA
33135886 TTTAACCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTCTTTAATTTACTTAGC
Found at i:33136839 original size:154 final size:154
Alignment explanation
Indices: 33136557--33136848 Score: 435
Period size: 154 Copynumber: 1.9 Consensus size: 154
33136547 ATAACCGTTT
* * *
33136557 AGCCAGTTTACGTTTTATAACCCCTATTAGTTGGACATGGACCAAGGACGGATACACGGATCATC
1 AGCCAGTTTACGTTTTATAACCCCTATTAGATGGACACGGACCAAGGACAGATACACGGATCATC
** * * * * **
33136622 CGACCACCACGTCAATCTGGCAGTCAGTGCCTCATCGAAACGATCGAAGTATAATTTGTGCCTAA
66 AAAACACCACGTCAATCTGGCAATCAGTGCCTCATCAAAACGATCGAAGTAAAATTTACGCCTAA
33136687 CACTCATCGGTATAGTTATCGGGC
131 CACTCATCGGTATAGTTATCGGGC
33136711 AGCCAGTTTACGTTTTATAACCCCTATTAGAT-GAGCACGGACCAAGGACAGATACACGGATCAT
1 AGCCAGTTTACGTTTTATAACCCCTATTAGATGGA-CACGGACCAAGGACAGATACACGGATCAT
* *
33136775 CAAAACATCATGTCAATCTGGCAATCAGTGCCTCATCAAAACGA-CTGAAGTAAAATTTACGCCT
65 CAAAACACCACGTCAATCTGGCAATCAGTGCCTCATCAAAACGATC-GAAGTAAAATTTACGCCT
33136839 AACACTCATC
129 AACACTCATC
33136849 AATATATCCA
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
153 3 0.02
154 120 0.98
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (154 bp):
AGCCAGTTTACGTTTTATAACCCCTATTAGATGGACACGGACCAAGGACAGATACACGGATCATC
AAAACACCACGTCAATCTGGCAATCAGTGCCTCATCAAAACGATCGAAGTAAAATTTACGCCTAA
CACTCATCGGTATAGTTATCGGGC
Found at i:33137517 original size:29 final size:30
Alignment explanation
Indices: 33137480--33137538 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
33137470 AATTTTTTGT
*
33137480 ATAACATTGCACA-AAA-TAAAAGTTCATGA
1 ATAAAATTGCACATAAACT-AAAGTTCATGA
33137509 ATAAAATTGCACATTAAACTAAAGTTCATG
1 ATAAAATTGCACA-TAAACTAAAGTTCATG
33137539 TATTGCTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
31 13 0.50
32 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (30 bp):
ATAAAATTGCACATAAACTAAAGTTCATGA
Found at i:33140053 original size:7 final size:7
Alignment explanation
Indices: 33140041--33140072 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33140031 TTATCTGATC
33140041 AGTGACA
1 AGTGACA
33140048 AGTGACA
1 AGTGACA
33140055 AGTGACA
1 AGTGACA
*
33140062 AGTGATA
1 AGTGACA
33140069 AGTG
1 AGTG
33140073 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:33140087 original size:58 final size:58
Alignment explanation
Indices: 33139997--33140320 Score: 328
Period size: 58 Copynumber: 6.1 Consensus size: 58
33139987 ACTTTTGATC
* **
33139997 AGTGATAAGTGATAAGCAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * *
33140055 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAATGACAAGTGGCA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
33140113 AGTGACAAGTGAT-A---GT---TTTAGCTACACTTATCT-A--A-T--C-AGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * *
33140157 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
33140215 AGTG---A-T-A-AA-TGGTAGCTTTAGCTACACTTATCTGATCAGTG---A-T-A-A
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
33140260 A-TGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGATAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
33140316 AGTGA
1 AGTGA
33140321 TCATACGTAA
Statistics
Matches: 223, Mismatches: 15, Indels: 57
0.76 0.05 0.19
Matches are distributed among these distances:
44 20 0.09
45 4 0.02
46 1 0.00
47 3 0.01
48 4 0.02
49 1 0.00
50 26 0.12
51 69 0.31
52 3 0.01
53 2 0.01
54 5 0.02
55 3 0.01
56 2 0.01
57 4 0.02
58 76 0.34
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:33140105 original size:51 final size:51
Alignment explanation
Indices: 33140048--33140321 Score: 388
Period size: 51 Copynumber: 5.4 Consensus size: 51
33140038 ATCAGTGACA
*
33140048 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * * * * *
33140099 AATGACAAGTGGCAAGTGACAAGTGATAGTTTTAGCTACACTTATCTAATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
33140150 AGTGACAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
33140201 AGTGACAAGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
33140252 AGTGATAAATGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
33140302 AGGGATAAGTGATAAGTGAT
1 AGTGACAAGTGACAAGTGAT
33140322 CATACGTAAG
Statistics
Matches: 199, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
50 36 0.18
51 163 0.82
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:33140180 original size:102 final size:102
Alignment explanation
Indices: 33140016--33140320 Score: 387
Period size: 102 Copynumber: 2.9 Consensus size: 102
33140006 TGATAAGCAG
*
33140016 TAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACAAGTGATAAGTGGTAGCTTT
1 TAGCTTTAGCTACACTTATCT-A--A-T--C-AGTGACAAGTGGCAAGTGATAAGTGGTAGCTTT
* * *
33140081 AGCTACACTTATTTGATCAATGACAAGTGGCAAGTGACAAGTGA
59 AGCTACACTTATCTGATCAATGACAAGTGACAAGTGACAAATGA
* * *
33140125 TAGTTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACA
1 TAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGGTAGCTTTAGCTACA
* * *
33140190 CTTATCTGATCAGTGACAAGTGACAAGTGATAAATGG
66 CTTATCTGATCAATGACAAGTGACAAGTGACAAATGA
* * *
33140227 TAGCTTTAGCTACACTTATCTGATCAGTGATAAATGGCAAGTGATAAGTGGTAGC-TTAGCTACA
1 TAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGGTAGCTTTAGCTACA
** * *
33140291 CTTATCTGATCAGGGATAAGTGATAAGTGA
66 CTTATCTGATCAATGACAAGTGACAAGTGA
33140321 TCATACGTAA
Statistics
Matches: 177, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
101 35 0.20
102 118 0.67
103 1 0.01
105 1 0.01
106 1 0.01
108 1 0.01
109 20 0.11
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (102 bp):
TAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGGTAGCTTTAGCTACA
CTTATCTGATCAATGACAAGTGACAAGTGACAAATGA
Found at i:33142914 original size:43 final size:43
Alignment explanation
Indices: 33142849--33143024 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
33142839 GGTTACCATG
*
33142849 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCAAATTGAAGA
1 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAAATTGAAGA
* * *
33142892 ACTAATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTGAAAA
1 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAAATTGAAGA
* * * * * * * *
33142935 TAGAAAATCTTATCTCTCTAAAGTTGCAGT-AAGGCAGATTAAAGCT
1 -A-CAAATCTTATCTCCCTAAAATTGTAGTGGA-GCAAATTGAAG-A
* *
33142981 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGA
1 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCA-AATTGAAGA
33143025 TAGGGAACCT
Statistics
Matches: 106, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
43 39 0.37
44 28 0.26
45 39 0.37
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (43 bp):
ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAAATTGAAGA
Found at i:33142995 original size:89 final size:88
Alignment explanation
Indices: 33142895--33143153 Score: 306
Period size: 90 Copynumber: 2.9 Consensus size: 88
33142885 TTGAAGAACT
* * * *
33142895 AATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTCTGAAGAT
33142960 GCAGTAAGGCAGATTAAAGCTACA
66 GCAGT-AGGCAGATTAAAGCTACA
* ** *
33142984 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGATAGGGAACCTTATCTCTCTGAAGA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAG-ATTGAAAATAGAAAATCTTATCTCTCTGAAGA
*
33143049 GGCAGTAGAGCAGATTAAAGCTACA
65 TGCAGTAG-GCAGATTAAAGCTACA
* * * * * *
33143074 AACCTTATCTCTCTGAAGTTGCAGTGGAGTAGGTT-AAAGATA-ACAAATCTTATCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-ATAGA-AAATCTTATCTCTCTGAAG
*
33143137 ATGCAGTGGGGCAGATT
64 ATGCAGT-AGGCAGATT
33143154 GAAAATAGTG
Statistics
Matches: 144, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.01
89 66 0.46
90 76 0.53
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTCTGAAGAT
GCAGTAGGCAGATTAAAGCTACA
Found at i:33143003 original size:44 final size:44
Alignment explanation
Indices: 33142849--33143840 Score: 535
Period size: 44 Copynumber: 21.9 Consensus size: 44
33142839 GGTTACCATG
* * * *
33142849 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCAAATTGAAGA-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
33142892 ACTAATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTGAAA-AT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* * * * *
33142936 AGAAAATCTTATCTCTCTAAAGTTGCAGT-AAGGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTAAAGAT
* *
33142981 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGAT
** * * ** * *
33143026 AGGGAACCTTATCTCTCTGAAGAGGCAGTAGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
33143071 ACAAACCTTATCTCTCTGAAGTTGCAGTGGAGTAGGTTAAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *
33143115 AACAAATCTTATCTCCCTGAAGATGCAGTGGGGCAGATTGAAA-AT
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
** * * ** * *
33143160 AGTGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAGGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* ** * * * * *
33143205 ACAAACCACAAAACCTATACCGCTAAAGTTGCAATGG-GACGGATTGAAGTCATCGT
1 ACAAA--TC-TTA--TCT-CC-CTGAAGTTGCAGTGGAG-CAGATTAAAG--A---T
* * * * **
33143261 GGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGCC
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
33143306 ATAAAT-TT-TCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
*** * * * * * *
33143348 GTTAATATTATCTCCTTGAAATTGCATTGGAGTAGATTGAAA-AC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* * * *
33143392 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * * *
33143436 ACAAATCTCATCTTCCTAAAGTTACAGTGGAGGAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
** * * * *
33143480 AGTGAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
33143525 ATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
33143569 ATAAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGAT
* **
33143620 ACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
33143664 ACAAATCTTATCTCCCTAAAGTTGTAGTGCAGTAGA-TAGAGGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGAT
* * * * * **
33143708 ACATATCTTATTTCCCTAAAGTTGTAGTAGAATAGATTAAAACGAAAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-G----A-T
* * *
33143759 ACAAATCTCATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * * *
33143803 ATAAGTCTAATCTCCATGAAATTGCAGTGGAGTAGATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
33143841 GAAGCAACAC
Statistics
Matches: 726, Mismatches: 175, Indels: 95
0.73 0.18 0.10
Matches are distributed among these distances:
42 31 0.04
43 44 0.06
44 335 0.46
45 154 0.21
46 32 0.04
47 1 0.00
49 3 0.00
50 29 0.04
51 89 0.12
52 2 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 3 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
Found at i:33143385 original size:86 final size:88
Alignment explanation
Indices: 33143269--33143433 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 88
33143259 GTGGCGAATC
* ** * * *
33143269 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGCCATAAAT-TT-TCTCCCTGAGGTTGCAGT
1 TTATCTCCTTGAAATTGCAGTGGAGCAGATTCAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
33143332 GGAGTAGACTGAAGATGTTAATA
66 GGAGTAGACTGAAGATGTTAATA
* * *
33143355 TTATCTCCTTGAAATTGCATTGGAGTAGATTGAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
1 TTATCTCCTTGAAATTGCAGTGGAGCAGATTCAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
*
33143420 GGAGTAGATTGAAG
66 GGAGTAGACTGAAG
33143434 TTACAAATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
86 36 0.54
87 2 0.03
88 29 0.43
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (88 bp):
TTATCTCCTTGAAATTGCAGTGGAGCAGATTCAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
GGAGTAGACTGAAGATGTTAATA
Found at i:33143518 original size:89 final size:88
Alignment explanation
Indices: 33143394--33143692 Score: 238
Period size: 89 Copynumber: 3.3 Consensus size: 88
33143384 TTGAAAACAC
* * * *
33143394 AAATCTTATCTCCCTGAAGTCGCAGTGGAGTAGATTGAAGTTACAAATCTCATCTTCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTCATCTCCCTAAAGTT
* * *
33143459 ACAGTGGAGGAGATTGAAGATAGT
66 ACAGTGGAGCAAATTAAAGATA-T
* * * * * * * *
33143483 GAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTTATAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTCATCTCCCTAAAGTT
** *
33143548 GTAGTGGAGCAAATTAAAGTTAT
66 ACAGTGGAGCAAATTAAAGATAT
* * * ** *
33143571 AAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAAATTTTATCTCCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTACAAACCTCATCTCCC
* * * ** *
33143636 TGAAGTTGCAGTGGAGCAGATTAAAGCCAC
59 TAAAGTTACAGTGGAGCAAATTAAAGATAT
* *
33143666 AAATCTTATCTCCCTAAAGTTGTAGTG
1 AAATCTTATCTCCCTGAAGTTGCAGTG
33143693 CAGTAGATAG
Statistics
Matches: 165, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
88 30 0.18
89 69 0.42
95 66 0.40
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTCATCTCCCTAAAGTT
ACAGTGGAGCAAATTAAAGATAT
Found at i:33143686 original size:139 final size:138
Alignment explanation
Indices: 33142849--33143840 Score: 483
Period size: 139 Copynumber: 7.3 Consensus size: 138
33142839 GGTTACCATG
* * * * * * *
33142849 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCAAATTGAAG-AACT-AATCTTATCTCCCTAAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTA-TAAATCTCATTTCCCTAAA
* * * * * * *
33142912 ATTGTAGTGGAGCAGATTGAA-AAT-AG--A-AAATCTTATCTCTCTAAAGTTGCAGT-AAGGCA
65 GTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGA-GCA
33142971 GATTAAAG-C
129 GATTAAAGAC
* * * ** * * * * *
33142980 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGATAGGGAACCTTATCTCTCTG
1 -ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAG-ATTAAAGTTA-TAAATCTCATTTCCCTA
** * * * * * *
33143045 AAGAGGCAGTAGAGCAGATT-----A-AAGCTACAAACCTTATCTCTCTGAAGTTGCAGTGGAGT
63 AAGTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
33143104 AGGTTAAAGATA
128 AGATTAAAGA-C
* * * * * * *
33143116 ACAAATCTTATCTCCCTGAAGATGCAGTGGGGCAGATTGAAA-ATAGTGAATCTTATTTCCCTAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATT-AAAGTTA-TAAATCTCATTTCCCTAA
* * *** * * * * *
33143180 AGTTGCAGTGGAATAGATT-AAGGCTACAAACCACAAAACCTATAC-CGCTAAAGTTGCAATGG-
64 AGTTGCAGTGGAACAGATTGAA-GC-ATAAGTTACAAATCTTAT-CTCCCTGAAGTTGCAGTGGA
* *
33143242 GACGGATTGAAGTCATC
126 G-CAGATTAAAG--A-C
* * * * * * **
33143259 GTGGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGCCATAAAT-T--TTCTCCCT
1 ---ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCATT-TCCCT
* * ** * * * * *
33143321 GAGGTTGCAGTGGAGTAGACTGAAG-AT--GTT---AATATTATCTCCTTGAAATTGCATTGGAG
62 AAAGTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
*
33143380 TAGATTGAAA-AC
127 CAGATT-AAAGAC
* * * *
33143392 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGTAGATTGAAGTTACAAATCTCATCTT-CCTAAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCAT-TTCCCTAAA
* ** * * * *
33143456 GTTACAGTGGAGGAGATTGAAG-AT-AG-T--GAATCTTATCTCTCTGAAGTTACAGTAGAGCAG
65 GTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
**
33143516 ATTAAAGTT
130 ATTAAAGAC
* * * * *
33143525 ATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGTTATAAATCTCATTTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCATTTCCCTAAAG
*
33143590 TTGCAGTGGAACAGATTGAAGCTATAAGTTACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAG
66 TTGCAGTGGAACAGATTGAAGC-ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
*
33143655 ATTAAAGCC
130 ATTAAAGAC
* * * * *
33143664 ACAAATCTTATCTCCCTAAAGTTGTAGTGCAGTAGA-TAGAG-GATACATATCTTATTTCCCTAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATA-A-ATCTCATTTCCCTAA
* * * * * * * * *
33143727 AGTTGTAGTAGAATAGATTAAAACGAAAAATTACAAATCTCATCTCCTTGAAGTTGCAGTGGAGC
64 AGTTGCAGTGGAACAGATTGAAGC-ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
**
33143792 AGATTAAAGTT
128 AGATTAAAGAC
* * * * * *
33143803 ATAAGTCTAATCTCCATGAAATTGCAGTGGAGTAGATT
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATT
33143841 GAAGCAACAC
Statistics
Matches: 665, Mismatches: 147, Indels: 88
0.74 0.16 0.10
Matches are distributed among these distances:
130 41 0.06
131 4 0.01
132 64 0.10
133 110 0.17
134 70 0.11
135 65 0.10
136 23 0.03
137 7 0.01
138 5 0.01
139 169 0.25
140 3 0.00
141 33 0.05
142 3 0.00
143 25 0.04
144 3 0.00
145 6 0.01
146 34 0.05
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (138 bp):
ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCATTTCCCTAAAG
TTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
TTAAAGAC
Found at i:33143869 original size:139 final size:139
Alignment explanation
Indices: 33143618--33143870 Score: 305
Period size: 139 Copynumber: 1.8 Consensus size: 139
33143608 AAGCTATAAG
* * * *
33143618 TTACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAA
1 TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCATAA
* * * * *
33143683 AGTTGTAGTGCAGTAGATAGAGGATACATATCTTATTTCCCTAAAGTTGTAGTAGAATAGATTAA
66 AGTTGCAGTGCAGTAGATAGAGCATACACATCATATTACCCTAAAGTTGTAGTAGAATAGATTAA
33143748 AACGAAAAA
131 AACGAAAAA
* ** * *
33143757 TTACAAATCTCATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTTATAAGTCTAATCTCCATGA
1 TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCAT-A
* * *
33143822 AA-TTGCAGTGGAGTAGATTGAAGCA-ACACATCATA-TACCTCTGAAGTTG
65 AAGTTGCAGTGCAGTAGATAG-AGCATACACATCATATTACC-CTAAAGTTG
33143871 CAATGGGCTA
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
138 3 0.03
139 85 0.90
140 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (139 bp):
TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCATAA
AGTTGCAGTGCAGTAGATAGAGCATACACATCATATTACCCTAAAGTTGTAGTAGAATAGATTAA
AACGAAAAA
Found at i:33144157 original size:22 final size:23
Alignment explanation
Indices: 33144113--33144160 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
33144103 CAACACTTAC
33144113 AAGCCCAATTTACATTAAACCCAAA
1 AAGCCCAATTTAC--TAAACCCAAA
33144138 AAGCCCAATTTAC-AAACCCAAA
1 AAGCCCAATTTACTAAACCCAAA
33144160 A
1 A
33144161 TTAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.43
25 13 0.57
ACGTcount: A:0.50, C:0.29, G:0.04, T:0.17
Consensus pattern (23 bp):
AAGCCCAATTTACTAAACCCAAA
Found at i:33145481 original size:13 final size:13
Alignment explanation
Indices: 33145460--33145507 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
33145450 TTCATCGGGC
33145460 ATCTATTTATTTT
1 ATCTATTTATTTT
*
33145473 ATTTATTTA-TTT
1 ATCTATTTATTTT
33145485 ATCTA-TTATTATT
1 ATCTATTTATT-TT
33145498 ATCTATTTAT
1 ATCTATTTAT
33145508 GTATTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 15 0.50
14 4 0.13
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (13 bp):
ATCTATTTATTTT
Found at i:33145491 original size:21 final size:21
Alignment explanation
Indices: 33145467--33145517 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
33145457 GGCATCTATT
*
33145467 TATTTTATTTATTTATTTATC
1 TATTTTATTTATCTATTTATC
*
33145488 TATTATTA-TTATCTATTTATG
1 TATT-TTATTTATCTATTTATC
33145509 TATTTTATT
1 TATTTTATT
33145518 ACAAATTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTTATTTATCTATTTATC
Found at i:33145499 original size:25 final size:25
Alignment explanation
Indices: 33145460--33145507 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
33145450 TTCATCGGGC
*
33145460 ATCTATTTATTTTATTTATTTATTT
1 ATCTATTTATTTTATCTATTTATTT
33145485 ATCTA-TTATTATTATCTATTTAT
1 ATCTATTTATT-TTATCTATTTAT
33145508 GTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
ATCTATTTATTTTATCTATTTATTT
Found at i:33150147 original size:162 final size:159
Alignment explanation
Indices: 33149881--33150182 Score: 435
Period size: 162 Copynumber: 1.9 Consensus size: 159
33149871 CCCATCAACA
* * * * ** *
33149881 GTATTGTTTTGAACATTGTTTTCGTTTGTGTTAGTGCTTTCTTAGCATTTTGTTTGATCTGATTG
1 GTATTGTTTTGAACATTGTTTTCATTTCTGTTAATGCTTTCTTAACATTTCATCTGATCTGATTG
* *
33149946 TTTACATGTAAAATCATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAATTTTGAAGGTTG
66 TTTACACGTAAAATAATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAA-TTTGAA-GTTG
33150011 TTTGCTTGTTCATAGAGGGTTTTCCTTGGAT
129 TTTGCTTGTTCATAGAGGGTTTTCCTTGGAT
*
33150042 GTATTGTTTTTG-ACATTGTTTTTCATTTCTGTTAATGCTTTCTTAATATTTCATCTGATCTGAT
1 GTATTG-TTTTGAACATTG-TTTTCATTTCTGTTAATGCTTTCTTAACATTTCATCTGATCTGAT
* * * *
33150106 TGTTTACACGTAAAATAATGTAGGTTTAAGTTAATCAAGTCATTAGATTTGAGAATTTGGAGTTG
64 TGTTTACACGTAAAATAATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAATTTGAAGTTG
33150171 TTTGCTTGTTCA
129 TTTGCTTGTTCA
33150183 AAAAGGGGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
160 16 0.13
161 17 0.14
162 92 0.74
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (159 bp):
GTATTGTTTTGAACATTGTTTTCATTTCTGTTAATGCTTTCTTAACATTTCATCTGATCTGATTG
TTTACACGTAAAATAATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAATTTGAAGTTGTT
TGCTTGTTCATAGAGGGTTTTCCTTGGAT
Found at i:33152485 original size:20 final size:20
Alignment explanation
Indices: 33152443--33152483 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33152433 TATTTCGGAT
* *
33152443 AATATAAGAAAAACAATTAA
1 AATATAATATAAACAATTAA
33152463 AATATAATATAAA-AATTAA
1 AATATAATATAAACAATTAA
33152482 AA
1 AA
33152484 ATTACTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AATATAATATAAACAATTAA
Found at i:33153735 original size:22 final size:21
Alignment explanation
Indices: 33153695--33153736 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
33153685 ATTTTTACTG
*
33153695 AATTATGATTTTTTGTCACTT
1 AATTATGATTTTTTATCACTT
33153716 AATTATGATTTTTTTATCACT
1 AATTATGA-TTTTTTATCACT
33153737 CAACTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
AATTATGATTTTTTATCACTT
Found at i:33156910 original size:27 final size:27
Alignment explanation
Indices: 33156871--33156950 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
33156861 TACTACCCCG
*
33156871 ACATCACCGGACACAAATCCGACTCCA
1 ACATTACCGGACACAAATCCGACTCCA
* *
33156898 ACATTACCAGACACCAATCCGACTCCA
1 ACATTACCGGACACAAATCCGACTCCA
*
33156925 ACATTACCGGACACAAATCCGGCTCC
1 ACATTACCGGACACAAATCCGACTCC
33156951 CACCGGCCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.35, C:0.40, G:0.11, T:0.14
Consensus pattern (27 bp):
ACATTACCGGACACAAATCCGACTCCA
Found at i:33156982 original size:24 final size:24
Alignment explanation
Indices: 33156955--33157070 Score: 124
Period size: 24 Copynumber: 4.8 Consensus size: 24
33156945 GGCTCCCACC
*
33156955 GGCCCTACCACGACTCCTCCGACT
1 GGCCCTACCACAACTCCTCCGACT
33156979 GGCCCTACCACAACTCCTCCGACT
1 GGCCCTACCACAACTCCTCCGACT
** *
33157003 GGCCCTACCATGACTCCTCCAACT
1 GGCCCTACCACAACTCCTCCGACT
** * * *
33157027 GGGACAACCACAACTCCTCCAACA
1 GGCCCTACCACAACTCCTCCGACT
** *
33157051 GGGACAACCACAACTCCTCC
1 GGCCCTACCACAACTCCTCC
33157071 AACAGGGACA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.25, C:0.47, G:0.14, T:0.15
Consensus pattern (24 bp):
GGCCCTACCACAACTCCTCCGACT
Found at i:33157007 original size:48 final size:48
Alignment explanation
Indices: 33156955--33157085 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
33156945 GGCTCCCACC
* * *
33156955 GGCCCTACCACGACTCCTCCGACTGGCCCTACCACAACTCCTCCGACT
1 GGCCCTACCACGACTCCTCCAACTGGCACAACCACAACTCCTCCGACT
* * * *
33157003 GGCCCTACCATGACTCCTCCAACTGGGACAACCACAACTCCTCCAACA
1 GGCCCTACCACGACTCCTCCAACTGGCACAACCACAACTCCTCCGACT
** * * * *
33157051 GGGACAACCACAACTCCTCCAACAGGGACAACCAC
1 GGCCCTACCACGACTCCTCCAACTGGCACAACCAC
33157086 GAGTCCAGGA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.27, C:0.45, G:0.15, T:0.13
Consensus pattern (48 bp):
GGCCCTACCACGACTCCTCCAACTGGCACAACCACAACTCCTCCGACT
Found at i:33157071 original size:24 final size:24
Alignment explanation
Indices: 33157015--33157085 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
33157005 CCCTACCATG
*
33157015 ACTCCTCCAACTGGGACAACCACA
1 ACTCCTCCAACAGGGACAACCACA
33157039 ACTCCTCCAACAGGGACAACCACA
1 ACTCCTCCAACAGGGACAACCACA
33157063 ACTCCTCCAACAGGGACAACCAC
1 ACTCCTCCAACAGGGACAACCAC
33157086 GAGTCCAGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.35, C:0.42, G:0.13, T:0.10
Consensus pattern (24 bp):
ACTCCTCCAACAGGGACAACCACA
Found at i:33159907 original size:16 final size:16
Alignment explanation
Indices: 33159868--33159910 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
33159858 TCTTTAAATT
*
33159868 TTCAAGTCATTTTAGG
1 TTCAGGTCATTTTAGG
* * *
33159884 ATCGGGTCATTTTATG
1 TTCAGGTCATTTTAGG
33159900 TTCAGGTCATT
1 TTCAGGTCATT
33159911 CGGGTTTGCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (16 bp):
TTCAGGTCATTTTAGG
Found at i:33162907 original size:22 final size:21
Alignment explanation
Indices: 33162863--33162930 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 21
33162853 ATATTTAGTC
* * *
33162863 ATAAAATAAATTATTAATATA
1 ATAATATAAATTATTATTTTA
33162884 ATTAATATAAATTATTATTTTA
1 A-TAATATAAATTATTATTTTA
* *
33162906 AT-ATTTTAATT-TTATTTTA
1 ATAATATAAATTATTATTTTA
33162925 ATAATA
1 ATAATA
33162931 AATTTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 10 0.26
20 9 0.23
21 2 0.05
22 18 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAATATAAATTATTATTTTA
Found at i:33162908 original size:18 final size:17
Alignment explanation
Indices: 33162885--33162937 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
33162875 ATTAATATAA
33162885 TTAATATAAATTATTATT
1 TTAATATAAATT-TTATT
*
33162903 TTAATATTTTAATTTTATT
1 TTAATA--TAAATTTTATT
33162922 TTAATAATAAATTTTA
1 TTAAT-ATAAATTTTA
33162938 AAAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 14 0.47
19 10 0.33
20 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATATAAATTTTATT
Found at i:33162937 original size:13 final size:14
Alignment explanation
Indices: 33162919--33162960 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
33162909 TTTTAATTTT
33162919 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
33162932 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
33162947 ATTTTAAATAATAT
1 ATTTT-AATAATAT
33162961 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:33162945 original size:16 final size:16
Alignment explanation
Indices: 33162923--33162959 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
33162913 AATTTTATTT
33162923 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
33162940 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
33162955 TAATA
1 TAATA
33162960 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:33163359 original size:16 final size:16
Alignment explanation
Indices: 33163338--33163372 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33163328 AAATAAAGTC
33163338 AATTAAATAATAAAAA
1 AATTAAATAATAAAAA
*
33163354 AATTAAATAATGAAAA
1 AATTAAATAATAAAAA
33163370 AAT
1 AAT
33163373 AAGAAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AATTAAATAATAAAAA
Found at i:33163531 original size:14 final size:14
Alignment explanation
Indices: 33163512--33163547 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
33163502 GGAAAGCAAG
*
33163512 TCATTTTCCATAAA
1 TCATTTTCCAAAAA
33163526 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
33163540 TCATTTTC
1 TCATTTTC
33163548 AGTTAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:33172590 original size:19 final size:19
Alignment explanation
Indices: 33172565--33172618 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
33172555 AATATTCAAG
33172565 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33172584 TATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33172603 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33172619 AGATATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33172625 original size:22 final size:21
Alignment explanation
Indices: 33172565--33172649 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 21
33172555 AATATTCAAG
33172565 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAAAGATAT
*
33172584 TATATGCAATCTT--AGATAT
1 GATATGCAATCTTAAAGATAT
33172603 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTA-AAGATAT
* * *
33172625 GATATACAATATTATAATATAT
1 GATATGCAATCTTA-AAGATAT
33172647 GAT
1 GAT
33172650 TTTGTAATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 30 0.53
22 27 0.47
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAAAGATAT
Found at i:33172911 original size:23 final size:23
Alignment explanation
Indices: 33172867--33172911 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
33172857 TCTTATTTTG
* *
33172867 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
33172890 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
33172912 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:33175612 original size:12 final size:12
Alignment explanation
Indices: 33175595--33175625 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33175585 ATTTAGCCTT
33175595 AAGTGAATATTG
1 AAGTGAATATTG
33175607 AAGTGAATATTG
1 AAGTGAATATTG
33175619 AAGTGAA
1 AAGTGAA
33175626 ATAAATTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (12 bp):
AAGTGAATATTG
Found at i:33177200 original size:18 final size:17
Alignment explanation
Indices: 33177172--33177206 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33177162 ATTTTTAAGA
*
33177172 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33177189 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33177207 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33177502 original size:16 final size:16
Alignment explanation
Indices: 33177452--33177508 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
33177442 ACACAGCTTT
* *
33177452 TCTATTACACCTCTAT
1 TCTAATACACCTCTAA
* *
33177468 TCCATTACACCTCTAA
1 TCTAATACACCTCTAA
33177484 TCTAATACACCTCTAA
1 TCTAATACACCTCTAA
33177500 TCTAATACA
1 TCTAATACA
33177509 GCGAACTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (16 bp):
TCTAATACACCTCTAA
Found at i:33189544 original size:22 final size:22
Alignment explanation
Indices: 33189519--33189600 Score: 119
Period size: 22 Copynumber: 3.7 Consensus size: 22
33189509 ATTTTTTCTA
33189519 GTACTAAGCTCTCATGTTTAAC
1 GTACTAAGCTCTCATGTTTAAC
33189541 GTACTAAGCTCTCATGTTTAAC
1 GTACTAAGCTCTCATGTTTAAC
* * * **
33189563 GAACTAAACCCTCATGGCTAAC
1 GTACTAAGCTCTCATGTTTAAC
33189585 GTACTAAGCTCTCATG
1 GTACTAAGCTCTCATG
33189601 GCTATCAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (22 bp):
GTACTAAGCTCTCATGTTTAAC
Found at i:33191634 original size:23 final size:23
Alignment explanation
Indices: 33191612--33191726 Score: 176
Period size: 23 Copynumber: 5.0 Consensus size: 23
33191602 AAGTTAGAAG
*
33191612 AGTGAAGAGACTTGAATATGAAG
1 AGTGAAGAGACTTGAATATGAAA
*
33191635 AGTGAAGAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
33191658 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
*
33191681 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
33191704 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
33191727 GGATACACAC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 86 1.00
ACGTcount: A:0.45, C:0.04, G:0.29, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:33192201 original size:18 final size:18
Alignment explanation
Indices: 33192167--33192215 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
33192157 GGGTGTGCAT
33192167 AATTCGGTTAAAACCGAAAA
1 AATTCGGTT--AACCGAAAA
***
33192187 AATTCGGTTAACCGACCG
1 AATTCGGTTAACCGAAAA
33192205 AATTCGGTTAA
1 AATTCGGTTAA
33192216 GCGGTCGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (18 bp):
AATTCGGTTAACCGAAAA
Found at i:33193008 original size:27 final size:27
Alignment explanation
Indices: 33192970--33193049 Score: 160
Period size: 27 Copynumber: 3.0 Consensus size: 27
33192960 AACTATGTCG
33192970 TTGTATACTATTGTCTTAATTTTTTCA
1 TTGTATACTATTGTCTTAATTTTTTCA
33192997 TTGTATACTATTGTCTTAATTTTTTCA
1 TTGTATACTATTGTCTTAATTTTTTCA
33193024 TTGTATACTATTGTCTTAATTTTTTC
1 TTGTATACTATTGTCTTAATTTTTTC
33193050 TTTCATCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.60
Consensus pattern (27 bp):
TTGTATACTATTGTCTTAATTTTTTCA
Found at i:33193172 original size:8 final size:8
Alignment explanation
Indices: 33193155--33193187 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
33193145 CCTATATTGT
*
33193155 TAATTTAA
1 TAATTAAA
33193163 TAATTAAA
1 TAATTAAA
33193171 TAATTAAA
1 TAATTAAA
33193179 TAATTAAA
1 TAATTAAA
33193187 T
1 T
33193188 GCGGACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATTAAA
Found at i:33193415 original size:17 final size:17
Alignment explanation
Indices: 33193393--33193428 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
33193383 AATTCAGTCG
33193393 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
33193410 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
33193427 TA
1 TA
33193429 CCTTAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TATAAGATTATTTTTCA
Found at i:33195693 original size:24 final size:24
Alignment explanation
Indices: 33195638--33195696 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
33195628 GGTTTAATGC
* *
33195638 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
33195662 AAATGGATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
33195686 AAATGGATATA
1 AAATGGATATA
33195697 AATGGAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:33195768 original size:17 final size:17
Alignment explanation
Indices: 33195746--33195843 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
33195736 AATTCAAGAC
33195746 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
33195763 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
33195782 CTCATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
* ** *
33195800 TTATGTAGTGATTCAAATAT
1 TTATGTAAT-ATT--TTTAA
*
33195820 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
33195837 TTATGTA
1 TTATGTA
33195844 GTAATTTAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 8 0.14
19 7 0.12
20 17 0.30
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:33195791 original size:37 final size:37
Alignment explanation
Indices: 33195737--33195845 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
33195727 TTATGTGTTA
33195737 ATTC-AAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
*
33195773 ATTCAAAGACTCATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* * *
33195810 ATTCAAATATTTATGTAATGTTTTTAATTATGTAGT
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGT
33195846 AATTTAATTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 4 0.06
37 63 0.94
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:33195864 original size:9 final size:9
Alignment explanation
Indices: 33195850--33196013 Score: 202
Period size: 9 Copynumber: 17.6 Consensus size: 9
33195840 TGTAGTAATT
33195850 TAATTCGGG
1 TAATTCGGG
33195859 TAATTCGGG
1 TAATTCGGG
*
33195868 TAATTTGGG
1 TAATTCGGG
33195877 TAATTTTCGGG
1 TAA--TTCGGG
33195888 TAATTCGGG
1 TAATTCGGG
*
33195897 TAATTTGGG
1 TAATTCGGG
33195906 TAATTTTCGGG
1 TAA--TTCGGG
*
33195917 TAATTTGGG
1 TAATTCGGG
33195926 TAATTTTCGGG
1 TAA--TTCGGG
*
33195937 TAATTTGGG
1 TAATTCGGG
33195946 TAATTCGGG
1 TAATTCGGG
*
33195955 TAAGTCGGG
1 TAATTCGGG
33195964 TAATTCGGG
1 TAATTCGGG
*
33195973 TAAGTCGGG
1 TAATTCGGG
33195982 TAATTCGGG
1 TAATTCGGG
*
33195991 TAAGTCGGG
1 TAATTCGGG
*
33196000 TAAGTCGGG
1 TAATTCGGG
33196009 TAATT
1 TAATT
33196014 TTTAACCAAA
Statistics
Matches: 135, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
9 111 0.82
11 24 0.18
ACGTcount: A:0.22, C:0.08, G:0.34, T:0.37
Consensus pattern (9 bp):
TAATTCGGG
Found at i:33195889 original size:29 final size:28
Alignment explanation
Indices: 33195853--33196014 Score: 204
Period size: 29 Copynumber: 5.8 Consensus size: 28
33195843 AGTAATTTAA
33195853 TTCGGGTAATTCGGGTAATTTGGGTAATT
1 TTCGGGTAATTCGGGTAATTTGGGTAA-T
33195882 TTCGGGTAATTCGGGTAATTTGGGTAATT
1 TTCGGGTAATTCGGGTAATTTGGGTAA-T
*
33195911 TTCGGGTAATTTGGGTAATTTTCGGGTAAT
1 TTCGGGTAATTCGGGTAA-TTT-GGGTAAT
* *
33195941 TT-GGGTAATTCGGGTAAGTCGGGTAA-
1 TTCGGGTAATTCGGGTAATTTGGGTAAT
* *
33195967 TTCGGGTAAGTCGGGTAATTCGGGTAA-
1 TTCGGGTAATTCGGGTAATTTGGGTAAT
* *
33195994 GTCGGGTAAGTCGGGTAATTT
1 TTCGGGTAATTCGGGTAATTT
33196015 TTAACCAAAA
Statistics
Matches: 122, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.02
27 47 0.39
28 1 0.01
29 60 0.49
30 6 0.05
31 6 0.05
ACGTcount: A:0.21, C:0.08, G:0.34, T:0.37
Consensus pattern (28 bp):
TTCGGGTAATTCGGGTAATTTGGGTAAT
Found at i:33200186 original size:23 final size:23
Alignment explanation
Indices: 33200160--33200254 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
33200150 TGAAAAGTTA
33200160 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
33200183 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
33200206 GAATAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * *
33200229 GAAAAGTTAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
33200252 GAA
1 GAA
33200255 AGGATACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:33204824 original size:12 final size:12
Alignment explanation
Indices: 33204807--33204832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33204797 CAAAACAGGC
33204807 TTTTAGCGGCGT
1 TTTTAGCGGCGT
33204819 TTTTAGCGGCGT
1 TTTTAGCGGCGT
33204831 TT
1 TT
33204833 GTACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:33204920 original size:39 final size:41
Alignment explanation
Indices: 33204848--33204933 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 41
33204838 AAAAATATCA
*
33204848 CTAAAAATCGAGCATTAGCGGCGTTTCTAGG-AAAGCGCCG
1 CTAAAAATCGAGCATTAGCGGCGTTTCTAGGAAAAACGCCG
* * *
33204888 CTAAAAAT-TAGCATTAGCGGCGTTTTTTGGAAAAACGCCG
1 CTAAAAATCGAGCATTAGCGGCGTTTCTAGGAAAAACGCCG
33204928 C-AAAAA
1 CTAAAAA
33204934 GTCTAAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 24 0.59
40 17 0.41
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (41 bp):
CTAAAAATCGAGCATTAGCGGCGTTTCTAGGAAAAACGCCG
Found at i:33205048 original size:41 final size:41
Alignment explanation
Indices: 33204965--33205246 Score: 420
Period size: 41 Copynumber: 6.9 Consensus size: 41
33204955 TTTGTACCTT
*
33204965 TCAGATCTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGC
* * *
33205007 TTAGATCTTTAGCAGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
33205048 TCAGATCTTTTGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
33205089 TCAAATCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
33205130 TTAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCACTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
33205171 TCAGATCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** *
33205212 TCAGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
33205247 AAAAACATTT
Statistics
Matches: 217, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
41 197 0.91
42 20 0.09
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:33205811 original size:82 final size:82
Alignment explanation
Indices: 33205723--33205896 Score: 222
Period size: 82 Copynumber: 2.1 Consensus size: 82
33205713 GAGTTAGAGA
* * ** *
33205723 TTTAGGGTTTATAGATTTAGTGTTAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAAT
1 TTTAGGGTTTAGAGATTTAGGGCCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAAT
* *
33205788 TTATATATTACATAATG
66 TTATATATTAAATAAGG
* * * * *
33205805 TTTAGGGGTTAGGGATTTGGGGCCAGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAAT
1 TTTAGGGTTTAGAGATTTAGGGCCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAAT
*
33205870 TTCTATATTAAATAAGG
66 TTATATATTAAATAAGG
33205887 TTTAGAGGTT
1 TTTAG-GGTT
33205897 AGTGGTTTGG
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
82 74 0.96
83 3 0.04
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (82 bp):
TTTAGGGTTTAGAGATTTAGGGCCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAAT
TTATATATTAAATAAGG
Found at i:33205897 original size:82 final size:82
Alignment explanation
Indices: 33205747--33205908 Score: 245
Period size: 82 Copynumber: 2.0 Consensus size: 82
33205737 ATTTAGTGTT
* * * *
33205747 AGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTACATAATGTTTAGGG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAG
33205812 GTTAG-GGATTTGGGGCC
66 GTTAGTGG-TTTGGGGCC
* * *
33205829 AGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAG
33205894 GTTAGTGGTTTGGGG
66 GTTAGTGGTTTGGGG
33205909 TTTGGGGTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 70 0.97
83 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.44
Consensus pattern (82 bp):
AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAG
GTTAGTGGTTTGGGGCC
Found at i:33207023 original size:41 final size:41
Alignment explanation
Indices: 33206966--33207052 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
33206956 AAGTTCTACG
33206966 ATTTTGGGCCGACTTTGTTATACGGGCATATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACGGGCATATCCATATAAAA
*
33207007 ATTTTGGGCCGACTTTGTTATACGGGCTTATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACGGGCATATCCATATAAAA
33207048 ATTTT
1 ATTTT
33207053 ATCCATATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (41 bp):
ATTTTGGGCCGACTTTGTTATACGGGCATATCCATATAAAA
Found at i:33210734 original size:43 final size:43
Alignment explanation
Indices: 33210655--33210820 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
33210645 CGTTTTTGCA
* *
33210655 AAAAGCGTCGCTAAAGG--ATTGTTCTTTAGCGGCGTTTGTGAT
1 AAAAGCGCCGCTAAAGGTCA-TGTTCTTTAGCGGCGTTTGTGAC
* *
33210697 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGAC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
33210740 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
*
33210783 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
33210821 TTTCACATAA
Statistics
Matches: 117, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
42 17 0.15
43 99 0.85
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
Found at i:33223765 original size:3 final size:3
Alignment explanation
Indices: 33223757--33223805 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
33223747 AGCCGAGTTG
33223757 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33223804 TA
1 TA
33223806 GCTTATTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33248186 original size:25 final size:24
Alignment explanation
Indices: 33248141--33248193 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
33248131 GTCATTAGGG
* *
33248141 TTACTGATTCCAGCTCTTATGAGC
1 TTACTGATACCAGCTCGTATGAGC
33248165 TTACTGATACTCAGCTCGTATGAGC
1 TTACTGATAC-CAGCTCGTATGAGC
33248190 TTAC
1 TTAC
33248194 CGTTATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (24 bp):
TTACTGATACCAGCTCGTATGAGC
Found at i:33248207 original size:25 final size:25
Alignment explanation
Indices: 33248158--33248222 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
33248148 TTCCAGCTCT
* * *
33248158 TATGAGCTTACTGATACTCAGCTCG
1 TATGAGCTTACCGTTACTCAACTCG
*
33248183 TATGAGCTTACCGTTATTCAACTCG
1 TATGAGCTTACCGTTACTCAACTCG
* * *
33248208 GAGGAGCTTATCGTT
1 TATGAGCTTACCGTT
33248223 TATCGTTCGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
TATGAGCTTACCGTTACTCAACTCG
Found at i:33251333 original size:16 final size:16
Alignment explanation
Indices: 33251312--33251346 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
33251302 CACAAAATAA
33251312 CTAATATTTAGACACT
1 CTAATATTTAGACACT
33251328 CTAATATTTAGACACT
1 CTAATATTTAGACACT
33251344 CTA
1 CTA
33251347 GGTACATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (16 bp):
CTAATATTTAGACACT
Found at i:33251847 original size:22 final size:23
Alignment explanation
Indices: 33251822--33251878 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
33251812 TGCACTAATG
*
33251822 AACAAAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTATAAGTGCTA
*
33251844 AACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTATAAGTGCTA
*
33251866 AACGGAGAGCACT
1 AACAGAGAGCACT
33251879 GTGGTGCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (23 bp):
AACAGAGAGCACTATAAGTGCTA
Found at i:33252861 original size:5 final size:5
Alignment explanation
Indices: 33252851--33252893 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
33252841 GTTTGTTTTC
33252851 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
33252894 TACTTAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:33252936 original size:10 final size:10
Alignment explanation
Indices: 33252851--33252936 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 10
33252841 GTTTGTTTTC
*
33252851 ATAATATAAT
1 ATAATATATT
*
33252861 ATAATATAAT
1 ATAATATATT
*
33252871 ATAATATAAT
1 ATAATATATT
33252881 ATAATATAATAT
1 ATAATAT-AT-T
* *
33252893 ATACTTAAATT
1 ATA-ATATATT
*
33252904 TTAAGTAATATT
1 ATAA-T-ATATT
*
33252916 ATTACTATATT
1 A-TAATATATT
33252927 ATAATATATT
1 ATAATATATT
33252937 TTAACTTTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
10 35 0.57
11 11 0.18
12 11 0.18
13 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (10 bp):
ATAATATATT
Found at i:33258901 original size:15 final size:15
Alignment explanation
Indices: 33258881--33258922 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
33258871 TTTTTTTATG
*
33258881 TTTTTAATTACTTTA
1 TTTTTAATTAATTTA
*
33258896 TTTTT-ATAAATTTA
1 TTTTTAATTAATTTA
33258910 TATTTTAATTAAT
1 T-TTTTAATTAAT
33258923 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.36
15 9 0.41
16 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTAATTAATTTA
Found at i:33269267 original size:28 final size:30
Alignment explanation
Indices: 33269208--33269270 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
33269198 AAAAAAAATG
* *
33269208 CATTTTGACCCCTGTACTTTTTGAAATTTA
1 CATTTTGACCCCTGTACTTTTTCAAAATTA
33269238 CATTTTGA-CCCTGTAC-TTTTCAAAATTA
1 CATTTTGACCCCTGTACTTTTTCAAAATTA
33269266 CATTT
1 CATTT
33269271 CAACCCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 15 0.48
29 8 0.26
30 8 0.26
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (30 bp):
CATTTTGACCCCTGTACTTTTTCAAAATTA
Found at i:33269276 original size:28 final size:28
Alignment explanation
Indices: 33269217--33269294 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
33269207 GCATTTTGAC
* * **
33269217 CCCTGTACTTTTTGAAATTTACATTTTGA
1 CCCTGTAC-TTTTCAAAATTACATTTCAA
33269246 CCCTGTACTTTTCAAAATTACATTTCAA
1 CCCTGTACTTTTCAAAATTACATTTCAA
33269274 CCCT-TAAACTTTCTCAAAATT
1 CCCTGT--ACTTT-TCAAAATT
33269295 TTACTTTAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 20 0.48
29 13 0.31
30 8 0.19
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.42
Consensus pattern (28 bp):
CCCTGTACTTTTCAAAATTACATTTCAA
Found at i:33269306 original size:30 final size:29
Alignment explanation
Indices: 33269252--33269330 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
33269242 TTGACCCTGT
*
33269252 ACTTTTCAAAATTACATTTCAACCCTTAA
1 ACTTTTCAAAATTACATTTCAACCCCTAA
33269281 ACTTTCTCAAAATTTTAC-TTT-AACCCCTAA
1 ACTTT-TCAAAA--TTACATTTCAACCCCTAA
* *
33269311 AATTTTAAGAAATTACATTT
1 ACTTTTCA-AAATTACATTT
33269331 TGGCCCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
28 4 0.10
29 10 0.24
30 21 0.50
31 3 0.07
32 4 0.10
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41
Consensus pattern (29 bp):
ACTTTTCAAAATTACATTTCAACCCCTAA
Found at i:33269605 original size:20 final size:20
Alignment explanation
Indices: 33269581--33269619 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33269571 CGGCAGCAAA
*
33269581 AAAAACAAAAAAACAGCAGAG
1 AAAATCAAAAAAA-AGCAGAG
*
33269602 AAAATTAAAAAAAAGCAG
1 AAAATCAAAAAAAAGCAG
33269620 CAAGCAAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.72, C:0.10, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAATCAAAAAAAAGCAGAG
Found at i:33269909 original size:11 final size:11
Alignment explanation
Indices: 33269889--33269964 Score: 70
Period size: 11 Copynumber: 7.0 Consensus size: 11
33269879 CCCGAAGAAG
*
33269889 AAGAAGGAAAA
1 AAGAAAGAAAA
33269900 AAGAAAG-AAA
1 AAGAAAGAAAA
33269910 AAG-AAGAAGAAA
1 AAGAAAG-A-AAA
*
33269922 AAGAGAGAAAA
1 AAGAAAGAAAA
33269933 AAGAAAGAGAAA
1 AAGAAAGA-AAA
*
33269945 AA-AAGGAAAA
1 AAGAAAGAAAA
33269955 AA-AAAGAAAA
1 AAGAAAGAAAA
33269965 GAAAAATCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
9 3 0.05
10 18 0.33
11 20 0.36
12 12 0.22
13 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:33269918 original size:24 final size:22
Alignment explanation
Indices: 33269886--33269970 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 22
33269876 TGACCCGAAG
33269886 AAGAAGAAGGAAAAAAGAAAGAAA
1 AAGAA-AA-GAAAAAAGAAAGAAA
*
33269910 AAGAAGAAG-AAAAAGAGAGAAAA
1 AAGAA-AAGAAAAAAGAAAG-AAA
*
33269933 AAGAAAGAGAAAAAAAGGAAAAAAA
1 AAGAAA-AG-AAAAAA-GAAAGAAA
33269958 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
33269971 TCAACAGTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
22 10 0.19
23 16 0.30
24 10 0.19
25 14 0.26
26 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAGAAAAGAAAAAAGAAAGAAA
Found at i:33269932 original size:33 final size:34
Alignment explanation
Indices: 33269882--33269945 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
33269872 GGTGTGACCC
*
33269882 GAAGAAGAAGAAGGAAAAAAGAAAGA-AAAAGAA
1 GAAGAAAAAGAAGGAAAAAAGAAAGAGAAAAGAA
33269915 GAAGAAAAAG-AGAGAAAAAAGAAAGAGAAAA
1 GAAGAAAAAGAAG-GAAAAAAGAAAGAGAAAA
33269946 AAAGGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 2 0.07
33 22 0.79
34 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (34 bp):
GAAGAAAAAGAAGGAAAAAAGAAAGAGAAAAGAA
Found at i:33269943 original size:26 final size:24
Alignment explanation
Indices: 33269890--33269970 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
33269880 CCGAAGAAGA
* *
33269890 AGAAGGAAAAA-AGAAAGAAAAAG
1 AGAAGAAAAAAGAGAAAAAAAAAG
33269913 AAGAAGAAAAAGAGAGAAAAAAGAAAG
1 -AGAAGAAAAA-AGAGAAAAAA-AAAG
33269940 AG-A-AAAAAAG-GAAAAAAAAAG
1 AGAAGAAAAAAGAGAAAAAAAAAG
*
33269961 AAAAGAAAAA
1 AGAAGAAAAA
33269971 TCAACAGTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
21 5 0.10
22 8 0.16
23 7 0.14
24 14 0.29
25 2 0.04
26 9 0.18
27 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (24 bp):
AGAAGAAAAAAGAGAAAAAAAAAG
Found at i:33269956 original size:33 final size:32
Alignment explanation
Indices: 33269895--33269964 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
33269885 GAAGAAGAAG
* *
33269895 GAAAAAAGAAAGAAAAAGAAGAAGAAAAAGAGA
1 GAAAAAAGAAAGAAAAAAAAGAAGAAAAA-AAA
*
33269928 GAAAAAAGAAAGAGAAAAAAAGGA-AAAAAAAA
1 GAAAAAAGAAAGA-AAAAAAAGAAGAAAAAAAA
33269960 GAAAA
1 GAAAA
33269965 GAAAAATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 7 0.21
33 18 0.55
34 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (32 bp):
GAAAAAAGAAAGAAAAAAAAGAAGAAAAAAAA
Found at i:33269969 original size:10 final size:10
Alignment explanation
Indices: 33269898--33269969 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 10
33269888 GAAGAAGGAA
33269898 AAAAG-AAAG
1 AAAAGAAAAG
33269907 AAAAAGAAGAAG
1 -AAAAGAA-AAG
33269919 AAAAAGAGAGAA-
1 -AAAAGA-A-AAG
33269931 AAAAGAAAGAG
1 AAAAGAAA-AG
*
33269942 AAAA-AAAGG
1 AAAAGAAAAG
*
33269951 AAAAAAAAAG
1 AAAAGAAAAG
33269961 AAAAGAAAA
1 AAAAGAAAA
33269970 ATCAACAGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.11
10 22 0.42
11 11 0.21
12 10 0.19
13 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:33270004 original size:13 final size:13
Alignment explanation
Indices: 33269986--33270011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33269976 AGTCGGGTCA
33269986 ACCCGACCCGACC
1 ACCCGACCCGACC
33269999 ACCCGACCCGACC
1 ACCCGACCCGACC
33270012 CGGATCCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.62, G:0.15, T:0.00
Consensus pattern (13 bp):
ACCCGACCCGACC
Found at i:33270951 original size:18 final size:18
Alignment explanation
Indices: 33270864--33271268 Score: 212
Period size: 18 Copynumber: 22.3 Consensus size: 18
33270854 GAGTTTTCAA
*
33270864 AAAAATTTCTCGCG-TTTC
1 AAAAATTT-TCGTGTTTTC
*
33270882 AAAAATTTTCGTTTTTTC
1 AAAAATTTTCGTGTTTTC
33270900 AAAAAATTCTT-GTG-TTTC
1 -AAAAATT-TTCGTGTTTTC
*
33270918 AAAAATTTTCGCGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
33270936 AAAATTTTTTGTGTTTTAA
1 AAAAATTTTCGTGTTTT-C
* * *
33270955 AAAAAATTTCAT-ATTTC
1 AAAAATTTTCGTGTTTTC
* *
33270972 AAAAATATTCGTGTTTTAA
1 AAAAATTTTCGTGTTTT-C
* * *
33270991 AAAAATAAAAAAAAGAATCCAT-TTTTC
1 AAAAAT----------TTTCGTGTTTTC
**
33271018 -AAAATTCCCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
33271035 AAAAA-TTCCAGTGTTTT-
1 AAAAATTTTC-GTGTTTTC
* *
33271052 AAAAATTTCCGTATTTTC
1 AAAAATTTTCGTGTTTTC
* *
33271070 AAAAATTTCCTTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
33271088 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
**
33271106 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
33271124 AAAAA-TTCCG-GTATTTC
1 AAAAATTTTCGTGT-TTTC
33271141 -AAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
33271158 AGAAATTCTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
*
33271175 AAAAA-CTTCTGTGTTTTC
1 AAAAATTTTC-GTGTTTTC
*
33271193 -AAAATTTTCGTGTTTTTT
1 AAAAATTTTCGTG-TTTTC
* *
33271211 AAGAATTTTCGTG-TCTC
1 AAAAATTTTCGTGTTTTC
* * *
33271228 TAAAATTCTCATGTTTT-
1 AAAAATTTTCGTGTTTTC
33271245 AAAAATTTTTCGTGTTTTC
1 AAAAA-TTTTCGTGTTTTC
33271264 AAAAA
1 AAAAA
33271269 AAAATAATTG
Statistics
Matches: 297, Mismatches: 55, Indels: 69
0.71 0.13 0.16
Matches are distributed among these distances:
16 13 0.04
17 87 0.29
18 143 0.48
19 39 0.13
20 2 0.01
26 5 0.02
28 4 0.01
29 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:33271169 original size:52 final size:53
Alignment explanation
Indices: 33271013--33271268 Score: 233
Period size: 53 Copynumber: 4.8 Consensus size: 53
33271003 AAGAATCCAT
* * *
33271013 TTTTC-AAAA-TTCCCGTGTTTTCAAAAATTCCAGTGTTTT-AAAAATT-TCCGTA
1 TTTTCAAAAACTT-CCGTGTTTTCAAAATTTTC-GTGTTTTCAAAAATTCT-CGTG
* * * *
33271065 TTTTCAAAAATTTCCTTGTTTTCAAAAATCTTCGTGTTTTCAAAAATCCTCGTG
1 TTTTCAAAAACTTCCGTGTTTTC-AAAATTTTCGTGTTTTCAAAAATTCTCGTG
*
33271119 TTTTCAAAAA-TTCCG-GTATTTCAAAATTTTCGTGTTTTCAGAAATTCTCGTG
1 TTTTCAAAAACTTCCGTGT-TTTCAAAATTTTCGTGTTTTCAAAAATTCTCGTG
* * * *
33271171 TTTT-AAAAACTTCTGTGTTTTCAAAATTTTCGTGTTTTTTAAGAATTTTCGTG
1 TTTTCAAAAACTTCCGTGTTTTCAAAATTTTCGTG-TTTTCAAAAATTCTCGTG
* * * *
33271224 -TCTCTAAAA-TTCTCATGTTTTAAAAATTTTTCGTGTTTTCAAAAA
1 TTTTCAAAAACTTC-CGTGTTTTCAAAA-TTTTCGTGTTTTCAAAAA
33271269 AAAATAATTG
Statistics
Matches: 170, Mismatches: 22, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
51 5 0.03
52 63 0.37
53 66 0.39
54 35 0.21
55 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.46
Consensus pattern (53 bp):
TTTTCAAAAACTTCCGTGTTTTCAAAATTTTCGTGTTTTCAAAAATTCTCGTG
Found at i:33273566 original size:15 final size:17
Alignment explanation
Indices: 33273546--33273586 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
33273536 TGGTTGTGTT
33273546 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
33273561 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
33273578 TATATATAT
1 TATATATAT
33273587 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:33273875 original size:41 final size:41
Alignment explanation
Indices: 33273820--33274029 Score: 366
Period size: 41 Copynumber: 5.1 Consensus size: 41
33273810 ATTGGTGAAT
* *
33273820 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
33273861 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* *
33273902 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
33273943 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
33273984 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
33274025 CGAAT
1 TGAAT
33274030 ATGATGAATT
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
Found at i:33274262 original size:31 final size:35
Alignment explanation
Indices: 33274226--33274310 Score: 106
Period size: 37 Copynumber: 2.5 Consensus size: 35
33274216 GCATATTTAG
33274226 GCATTCGGCATAGGTGGATAT-A-TAT-T-TGTAT
1 GCATTCGGCATAGGTGGATATAAGTATATATGTAT
* *
33274257 GCATTCGGCATAGATAGATATAAGTGTATATATGTAT
1 GCATTCGGCATAGGTGGATATAA--GTATATATGTAT
33274294 GCATTCGGCATAGGTGG
1 GCATTCGGCATAGGTGG
33274311 GTAATAGTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
31 19 0.43
32 1 0.02
35 3 0.07
36 1 0.02
37 20 0.45
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (35 bp):
GCATTCGGCATAGGTGGATATAAGTATATATGTAT
Found at i:33294145 original size:2 final size:2
Alignment explanation
Indices: 33294138--33294185 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
33294128 TTAAACATAC
33294138 AT AT 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 AT AT
33294180 -T AT AT A
1 AT AT AT A
33294186 AGAAAACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33294223 original size:2 final size:2
Alignment explanation
Indices: 33294206--33294243 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
33294196 ACGTGAATAC
* *
33294206 TA TA AA TA TA TG TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33294244 TAAAAACCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33295181 original size:18 final size:19
Alignment explanation
Indices: 33295137--33295184 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
33295127 TCACCTTCAA
33295137 TTTTTCAGTATTTCTCTGTC
1 TTTTTC-GTATTTCTCTGTC
33295157 TTTTTCGTATTTCT-T-TC
1 TTTTTCGTATTTCTCTGTC
33295174 TATTTTCGTAT
1 T-TTTTCGTAT
33295185 ATTTTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.11
18 10 0.37
19 8 0.30
20 6 0.22
ACGTcount: A:0.10, C:0.17, G:0.08, T:0.65
Consensus pattern (19 bp):
TTTTTCGTATTTCTCTGTC
Found at i:33296279 original size:89 final size:89
Alignment explanation
Indices: 33296128--33296659 Score: 803
Period size: 89 Copynumber: 6.0 Consensus size: 89
33296118 TTAGGGAGAT
* * *
33296128 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTTTTCGATCT
1 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
* *
33296193 GCTTTGCCACCAGTATGGGAAGAC
66 GCTTCGCCACCAGTATGGGAAGGC
* *
33296217 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
1 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
*
33296282 GCTTTGCCACCAGTATGGGAAGGC
66 GCTTCGCCACCAGTATGGGAAGGC
* * ** *
33296306 AAGATATGGTATCTCTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTTGATCT
1 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
33296371 GCTTCGCCACCAGTATGGGAAGGC
66 GCTTCGCCACCAGTATGGGAAGGC
* *
33296395 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTATTTGATCT
1 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
* *
33296460 GCTTCGCCACCGGTATGGGAAGGT
66 GCTTCGCCACCAGTATGGGAAGGC
* * *
33296484 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTATATGAAGACAATATCTATTTTCTTTGATCT
1 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
* *
33296549 GCTTCGCCATCAGTATGGGAAGGT
66 GCTTCGCCACCAGTATGGGAAGGC
* * *
33296573 AAGATCTGGTATCTCTAATCTACTTCACGCAAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
** * *
33296638 ATTTCACCACTAGTATGGGAAG
66 GCTTCGCCACCAGTATGGGAAG
33296660 ATAAAATCTG
Statistics
Matches: 410, Mismatches: 33, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 410 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (89 bp):
AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
GCTTCGCCACCAGTATGGGAAGGC
Found at i:33308585 original size:10 final size:9
Alignment explanation
Indices: 33308570--33308594 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33308560 TAGAAGTTTT
33308570 AAAAAAAAG
1 AAAAAAAAG
33308579 AAAAAAAAG
1 AAAAAAAAG
33308588 AAAAAAA
1 AAAAAAA
33308595 CATATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:33308644 original size:2 final size:2
Alignment explanation
Indices: 33308637--33308680 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33308627 TAAAACATGC
33308637 AT AT 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 AT AT
33308679 AT
1 AT
33308681 TAAAAACCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33308727 original size:15 final size:15
Alignment explanation
Indices: 33308703--33308733 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33308693 AAGTATACTA
*
33308703 AAAACGTGTGTATGT
1 AAAACATGTGTATGT
33308718 AAAACATGTGTATGT
1 AAAACATGTGTATGT
33308733 A
1 A
33308734 TATGTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (15 bp):
AAAACATGTGTATGT
Found at i:33309637 original size:18 final size:19
Alignment explanation
Indices: 33309593--33309638 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
33309583 TCACCTTCAA
33309593 TTTTTCAGTATTTCTCTGTC
1 TTTTTC-GTATTTCTCTGTC
33309613 TTTTTCGTATTTCT-T-TC
1 TTTTTCGTATTTCTCTGTC
33309630 TATTTTCGT
1 T-TTTTCGT
33309639 GTATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 8 0.32
19 8 0.32
20 6 0.24
ACGTcount: A:0.09, C:0.17, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTTTCGTATTTCTCTGTC
Found at i:33311612 original size:12 final size:12
Alignment explanation
Indices: 33311597--33311645 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
33311587 TTAAATAATT
33311597 ATTTTATATATA
1 ATTTTATATATA
33311609 ATTTTATA-ATA
1 ATTTTATATATA
**
33311620 ATACT-TAT-TA
1 ATTTTATATATA
*
33311630 ATTTTATTTATA
1 ATTTTATATATA
33311642 ATTT
1 ATTT
33311646 AGGGCCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 7 0.24
11 8 0.28
12 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTATATATA
Found at i:33320792 original size:11 final size:12
Alignment explanation
Indices: 33320776--33320804 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
33320766 CTAAAACATT
33320776 TAAATAATAAA-
1 TAAATAATAAAC
33320787 TAAATAATAAAC
1 TAAATAATAAAC
33320799 TAAATA
1 TAAATA
33320805 CTTAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAATAATAAAC
Done.