Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 96 of 120
Found at i:12969030 original size:18 final size:18
Alignment explanation
Indices: 12968997--12969031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12968987 TTATTTTATT
*
12968997 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
12969015 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
12969032 GACTAATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:12974311 original size:11 final size:11
Alignment explanation
Indices: 12974297--12974323 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12974287 AAAAATAATA
12974297 AAAAAGAAAAC
1 AAAAAGAAAAC
12974308 AAAAAGAAAAC
1 AAAAAGAAAAC
12974319 AAAAA
1 AAAAA
12974324 AAGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAC
Found at i:12974323 original size:17 final size:17
Alignment explanation
Indices: 12974286--12974339 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
12974276 GATGGGGCAT
* *
12974286 AAAAAATAATAAAAAAGA
1 AAAAAAGAA-AAAAAACA
* *
12974304 AAACAA-AAAGAAAACA
1 AAAAAAGAAAAAAAACA
12974320 AAAAAAGAAAAAAAACA
1 AAAAAAGAAAAAAAACA
12974337 AAA
1 AAA
12974340 GGGACATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 11 0.37
17 14 0.47
18 5 0.17
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.04
Consensus pattern (17 bp):
AAAAAAGAAAAAAAACA
Found at i:12974333 original size:11 final size:11
Alignment explanation
Indices: 12974296--12974334 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
12974286 AAAAAATAAT
12974296 AAAAAAGAAAA
1 AAAAAAGAAAA
*
12974307 CAAAAAGAAAACA
1 AAAAAAG-AAA-A
12974320 AAAAAAGAAAA
1 AAAAAAGAAAA
12974331 AAAA
1 AAAA
12974335 CAAAAGGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 11 0.46
12 6 0.25
13 7 0.29
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:12975679 original size:29 final size:30
Alignment explanation
Indices: 12975647--12975718 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
12975637 ATGAAAATTT
* *
12975647 AAAAAAAAAATTTTCAAAAAAAA-AAAAAC
1 AAAAACAAAATTTTAAAAAAAAACAAAAAC
***
12975676 AAAAACAAAA-GCAAAAAAAAAACAAAAAC
1 AAAAACAAAATTTTAAAAAAAAACAAAAAC
12975705 AAAAACAAAATTTT
1 AAAAACAAAATTTT
12975719 TTCACAAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
28 8 0.24
29 25 0.76
ACGTcount: A:0.78, C:0.10, G:0.01, T:0.11
Consensus pattern (30 bp):
AAAAACAAAATTTTAAAAAAAAACAAAAAC
Found at i:12975691 original size:23 final size:23
Alignment explanation
Indices: 12975665--12975714 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
12975655 AATTTTCAAA
*
12975665 AAAAAAAAAACAAAAACAAAAGC
1 AAAAAAAAAACAAAAACAAAAAC
12975688 AAAAAAAAAACAAAAACAAAAAC
1 AAAAAAAAAACAAAAACAAAAAC
12975711 AAAA
1 AAAA
12975715 TTTTTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAAACAAAAAC
Found at i:12976184 original size:41 final size:41
Alignment explanation
Indices: 12976073--12976185 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
12976063 GCATGTTTTT
* * * *
12976073 AAAATTTTAAAGTCTCTATTTAAGAGAAACC-GTTATCAATC
1 AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATT-TCAATC
12976114 AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
1 AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
*
12976155 AAGATTTTAAAGCCTCTGTTT-AGAGGGAACC
1 AAAATTTTAAAGCCTCTGTTTAAGA-GGAACC
12976186 TTCCTCAGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.05
41 60 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (41 bp):
AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
Found at i:12976501 original size:109 final size:109
Alignment explanation
Indices: 12976310--12976569 Score: 425
Period size: 109 Copynumber: 2.4 Consensus size: 109
12976300 AGATTTTGAG
* * *
12976310 ATTCTGTAAGACCTCTGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTTACGGTGTTAT
1 ATTCTGTAAGACCTCTGGGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTGACGATGTTAT
* * *
12976375 CCTGATCAATTCTATAATTTTGACTTGTGGTGTTATCCTAGTCA
66 CCCGATCAATTCTATAATTTTGACTTATGGTGTTATCCCAGTCA
*
12976419 ATTCTGTAAGACCT-TCGGGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTGGCGATGTTA
1 ATTCTGTAAGACCTCT-GGGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTGACGATGTTA
12976483 TCCCGATCAATTCTATAATTTTGACTTATGGTGTTATCCCAGTCA
65 TCCCGATCAATTCTATAATTTTGACTTATGGTGTTATCCCAGTCA
*
12976528 ATTCTGTAAGACCTCTGGGCATGA-TTTTAAGACCTTCGGGCA
1 ATTCTGTAAGACCTCTGGGCATGATTTTTAAGACCTCCGGGCA
12976570 ATTTTGTAAG
Statistics
Matches: 141, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
108 18 0.13
109 122 0.87
110 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (109 bp):
ATTCTGTAAGACCTCTGGGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTGACGATGTTAT
CCCGATCAATTCTATAATTTTGACTTATGGTGTTATCCCAGTCA
Found at i:12976560 original size:21 final size:22
Alignment explanation
Indices: 12976534--12976658 Score: 121
Period size: 22 Copynumber: 5.7 Consensus size: 22
12976524 GTCAATTCTG
*
12976534 TAAGACCTCTGGGCATGATTT-
1 TAAGACCTCCGGGCATGATTTA
* *
12976555 TAAGACCTTCGGGCA--ATTTTG
1 TAAGACCTCCGGGCATGA-TTTA
* * *
12976576 TAAGCCCTCCGGGCATGATGTC
1 TAAGACCTCCGGGCATGATTTA
*
12976598 TAAGACCTCCGGACATGATTCTA
1 TAAGACCTCCGGGCATGATT-TA
* *
12976621 TAAGATCTCCGGGCATGATTTC
1 TAAGACCTCCGGGCATGATTTA
*
12976643 TAGGACCTCCGGGCAT
1 TAAGACCTCCGGGCAT
12976659 AAATTTGATT
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.01
20 3 0.04
21 26 0.31
22 34 0.40
23 20 0.24
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTA
Found at i:12976680 original size:196 final size:195
Alignment explanation
Indices: 12976419--12976964 Score: 797
Period size: 196 Copynumber: 2.8 Consensus size: 195
12976409 ATCCTAGTCA
* * ** *
12976419 ATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTGGCGATGTTAT
1 ATTCTATAAGACCTTCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTAT
*
12976484 CCCGATCAATTCTATAATTTTGACTTATGGTGTTATCCCAGTCAATTCTGTAAGACCTCTGGGCA
66 CCCGATCAATTCTATAATTTTGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTC-GGGCA
* * * *
12976549 TGATTTTAAGACCTTCGGGCAATTTTGTAAGCCCTCCGGGCATGATGTCTAAGACCTCCGGACAT
130 TGATTTTAAGACCTTCGAGCAATTTTGTAAGACCTCCGGACATGATGTCTAAGACCTCCAGACAT
12976614 G
195 G
* * *
12976615 ATTCTATAAGATCTCCGGGCATGATTTCTAGGACCTCCGGGCATAAATTTGATTCACGGTGTTAT
1 ATTCTATAAGACCTTCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTAT
12976680 CCCGATCAATTCTATAATTTTGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTGCGGGCA
66 CCCGATCAATTCTATAATTTTGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCT-CGGGCA
* *
12976745 TGATTTTAAGACTTTCGAGCAATTTTGTAAGACCTCCGGATATGATGTCTAAGACCTCCAGACAT
130 TGATTTTAAGACCTTCGAGCAATTTTGTAAGACCTCCGGACATGATGTCTAAGACCTCCAGACAT
12976810 G
195 G
* ** *
12976811 ATTCTATAAGACCTTCGGACATGATTTCTAAGACCTCCAAGCATAATTTTGATTCACGGTGTTAT
1 ATTCTATAAGACCTTCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTAT
* * * * *
12976876 CCCGATCGATT-TTTTATCTTTCGACTTGTGGTGTTATTCCAATCAATTCTGTAAGACCTCCGGG
66 CCCGATCAATTCTATAAT-TTT-GACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCT-CGGG
*
12976940 CATGATTCTGTAAGACCTCCGAGCA
128 CATGATT-T-TAAGACCTTCGAGCA
12976965 TGATTTCTAA
Statistics
Matches: 315, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
195 4 0.01
196 250 0.79
197 47 0.15
198 1 0.00
199 13 0.04
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (195 bp):
ATTCTATAAGACCTTCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTAT
CCCGATCAATTCTATAATTTTGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTCGGGCAT
GATTTTAAGACCTTCGAGCAATTTTGTAAGACCTCCGGACATGATGTCTAAGACCTCCAGACATG
Found at i:12976800 original size:22 final size:21
Alignment explanation
Indices: 12976772--12976848 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 21
12976762 AGCAATTTTG
*
12976772 TAAGACCTCCGGATATGATGTC
1 TAAGACCTCCGGACATGAT-TC
*
12976794 TAAGACCTCCAGACATGATTC
1 TAAGACCTCCGGACATGATTC
*
12976815 TATAAGACCTTCGGACATGATTTC
1 --TAAGACCTCCGGACATGA-TTC
12976839 TAAGACCTCC
1 TAAGACCTCC
12976849 AAGCATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.04
22 26 0.55
23 16 0.34
24 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (21 bp):
TAAGACCTCCGGACATGATTC
Found at i:12976951 original size:23 final size:23
Alignment explanation
Indices: 12976921--12976987 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
12976911 ATTCCAATCA
12976921 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGGCATG
*
12976944 ATTCTGTAAGACCTCCGAGCATG
1 ATTCTGTAAGACCTCCGGGCATG
* *
12976967 ATT-TCTAAGACCTTCGGGCAT
1 ATTCTGTAAGACCTCCGGGCAT
12976988 AATTTTGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 15 0.38
23 25 0.62
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGGGCATG
Found at i:12976987 original size:22 final size:22
Alignment explanation
Indices: 12976927--12976992 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
12976917 ATCAATTCTG
*
12976927 TAAGACCTCCGGGCATGATTCTG
1 TAAGACCTCCGGGCATGATT-TC
*
12976950 TAAGACCTCCGAGCATGATTTC
1 TAAGACCTCCGGGCATGATTTC
* *
12976972 TAAGACCTTCGGGCATAATTT
1 TAAGACCTCCGGGCATGATTT
12976993 TGATTCGCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 19 0.50
23 19 0.50
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTC
Found at i:12978009 original size:47 final size:47
Alignment explanation
Indices: 12977935--12978343 Score: 475
Period size: 47 Copynumber: 8.6 Consensus size: 47
12977925 AAATTTGAAA
*
12977935 AAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTT
1 AAGATGA-AATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
* * * * *
12977983 AAAAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGATAGGAGCTTTTCC
1 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTT-T
* *
12978031 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTC
1 AAGATGA-AATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-CTTTTT
* ** * *
12978080 AAGA-G-AATTTTAAAGTTATTGAGCCTCTACTAAGAGGAGCTTTTCC
1 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTT-T
* * * * *
12978126 AAGATGAGATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCCTTTTC
1 AAGATGA-AATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-CTTTTT
*
12978175 AAGA-G-AATTTTAAAGTTGTTGAGCCTCTGTTGAGAAGAGCTTTTT
1 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
*
12978220 GAAGATGAAATTTTAAAGTTGTTGAACCTCTGTTGAGAGGAGCTTTTT
1 -AAGATGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
* * * *
12978268 CAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC
1 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
* *
12978315 CAGATGAGATTTTTAAAGTTGTTGAGCCT
1 AAGATGA-AATTTTAAAGTTGTTGAGCCT
12978344 TTGCTGAAAG
Statistics
Matches: 314, Mismatches: 35, Indels: 24
0.84 0.09 0.06
Matches are distributed among these distances:
45 10 0.03
46 67 0.21
47 87 0.28
48 69 0.22
49 71 0.23
50 10 0.03
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (47 bp):
AAGATGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
Found at i:12978122 original size:95 final size:95
Alignment explanation
Indices: 12977935--12978469 Score: 612
Period size: 95 Copynumber: 5.5 Consensus size: 95
12977925 AAATTTGAAA
* * * * *
12977935 AAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTAAAAAGAAATTTTAAAG
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCAAGAG-AATTTTAAAG
*
12978000 TTGTTGAGCCTCTGCTGATAGGAGCTTTTCC
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
12978031 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCAAGAGAATTTTAAAGT
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCAAGAGAATTTTAAAGT
* * *
12978096 TATTGAGCCTCTACTAAGAGGAGCTTTTCC
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
* * *
12978126 AAGATGAGATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCCTTTTCAAGAGAATTTTAAAGT
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCAAGAGAATTTTAAAGT
* * **
12978191 TGTTGAGCCTCTGTTGAGAAGAGCTTTTTG
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
* * *
12978221 AAGATGA-AATTTTAAAGTTGTTGAACCTCTGTTGAGAGGAGCTTTTTC-AGATGAGATTTTAAA
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCAAGA-GA-ATTTTAAA
12978284 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
64 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
* * * * * *
12978316 -AGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAAAGAAACTTTTTCAGATAAGATTTTCAGA
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTC----AAG------AG-
* * *
12978380 TAAAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCTTTTTC
55 ---AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
12978424 -AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTCTTT
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGC-CTTT
12978470 CAAAAATAAA
Statistics
Matches: 376, Mismatches: 44, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
93 3 0.01
94 43 0.11
95 199 0.53
96 49 0.13
100 2 0.01
105 1 0.00
106 1 0.00
107 29 0.08
108 48 0.13
109 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (95 bp):
AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTCAAGAGAATTTTAAAGT
TGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
Found at i:12978377 original size:13 final size:13
Alignment explanation
Indices: 12978359--12978388 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12978349 GAAAGAAACT
*
12978359 TTTTCAGATAAGA
1 TTTTCAGATAAAA
12978372 TTTTCAGATAAAA
1 TTTTCAGATAAAA
12978385 TTTT
1 TTTT
12978389 AAAGTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (13 bp):
TTTTCAGATAAAA
Found at i:12978441 original size:47 final size:47
Alignment explanation
Indices: 12978372--12978471 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
12978362 TCAGATAAGA
*
12978372 TTTTCAGATAAAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCT
1 TTTTCAGATAAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCT
* * *
12978419 TTTTCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCT
1 TTTTCAGATAAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCT
*
12978466 CTTTCA
1 TTTTCA
12978472 AAAATAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (47 bp):
TTTTCAGATAAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCT
Found at i:12978491 original size:108 final size:108
Alignment explanation
Indices: 12978276--12978473 Score: 281
Period size: 108 Copynumber: 1.8 Consensus size: 108
12978266 TTCAGATGAG
*
12978276 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAGATGAGATTTTTAAAGTTGTTGAG
1 ATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAGATGAGATTTTTAAAGTTGTTGAG
* * * ** *
12978341 CCTTTGCTGAAAGAAACTTTTTCAGATAAGATTTTCAGATAAA
66 CCTCTGCTGAAAGAAACTCTTTCAAATAAGATAATCAAATAAA
* *
12978384 ATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCAGATGAGA-TTTTAAAGTTGTTGAG
1 ATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAGATGAGATTTTTAAAGTTGTTGAG
* * *
12978448 CCTCTGCTGAGAGGAGCTCTTTCAAA
66 CCTCTGCTGAAAGAAACTCTTTCAAA
12978474 AATAAATAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
107 36 0.44
108 45 0.56
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (108 bp):
ATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAGATGAGATTTTTAAAGTTGTTGAG
CCTCTGCTGAAAGAAACTCTTTCAAATAAGATAATCAAATAAA
Found at i:12979611 original size:19 final size:19
Alignment explanation
Indices: 12979587--12979630 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12979577 TGGATAGAAT
*
12979587 CGAACCACCTAGACCGAAC
1 CGAACCACCCAGACCGAAC
*
12979606 CGAACCGCCCAGACCGAAC
1 CGAACCACCCAGACCGAAC
*
12979625 CAAACC
1 CGAACC
12979631 GATACTGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.45, G:0.16, T:0.02
Consensus pattern (19 bp):
CGAACCACCCAGACCGAAC
Found at i:12979793 original size:18 final size:18
Alignment explanation
Indices: 12979760--12979794 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12979750 TTATTTTATT
*
12979760 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
12979778 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
12979795 GACTAATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:12989758 original size:19 final size:21
Alignment explanation
Indices: 12989714--12989758 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12989704 TACATAAACA
12989714 TATAAAAACTTCACCTAATCT
1 TATAAAAACTTCACCTAATCT
*
12989735 TATAAAGACTTCACCT-AT-T
1 TATAAAAACTTCACCTAATCT
12989754 TATAA
1 TATAA
12989759 CTATATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 15 0.65
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
TATAAAAACTTCACCTAATCT
Found at i:12994959 original size:12 final size:11
Alignment explanation
Indices: 12994926--12994994 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
12994916 TTAATATCCT
12994926 ATAAAATAAATA
1 ATAAAATAAA-A
*
12994938 ATAATA-AAAA
1 ATAAAATAAAA
12994948 ATCAAAATAAAA
1 AT-AAAATAAAA
**
12994960 ACCGAAATAAAA
1 A-TAAAATAAAA
* *
12994972 ATGAATTAAAA
1 ATAAAATAAAA
*
12994983 ATAAATTAAAA
1 ATAAAATAAAA
12994994 A
1 A
12994995 AATAAATAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 3 0.06
11 25 0.53
12 19 0.40
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:12994995 original size:35 final size:35
Alignment explanation
Indices: 12994929--12994994 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
12994919 ATATCCTATA
12994929 AAATAAATAATAATAAAAAATCAAAATAAAAACCG
1 AAATAAATAATAATAAAAAATCAAAATAAAAACCG
* *
12994964 AAATAAA-AATGAATTAAAAAT-AAATTAAAAA
1 AAATAAATAAT-AATAAAAAATCAAAATAAAAA
12994995 AATAAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.20
Consensus pattern (35 bp):
AAATAAATAATAATAAAAAATCAAAATAAAAACCG
Found at i:12995313 original size:42 final size:41
Alignment explanation
Indices: 12995236--12995695 Score: 434
Period size: 42 Copynumber: 11.1 Consensus size: 41
12995226 AGTAAGCAAA
*
12995236 GCTCCTCTAAATAGAGGC-TCAATGAA-TTTGAAAAAAATAAAT
1 GCTCCTCTAAATAGAGGCAACAA--AACTTTG-AAAAAATAAAT
* * * * *
12995278 GCTCCTCCAAACAAAGGCACCACAACTTT-AGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGA-AAAAATAAA-T
* * * *
12995320 GCTCCTCTAAATAGAGGCACCATAACTTTAGAATAAAT-TAT
1 GCTCCTCTAAATAGAGGCAACAAAACTTT-GAAAAAATAAAT
* **
12995361 --TCCTCTAAATAGAGGCAACACAACTTTGGTAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAA-T
* * * * *
12995401 GCTCTTCTGAATAGAGGCAACATAACTTT-TAAAAATAATT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAAT
* *
12995441 GCTCCTCTTAATAAAGGCAACAAAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAA-T
* * *
12995483 GCTCTTCTAAATAGAGGCAACAGAACTTTGGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAA-T
* * * *
12995525 GTTCCTTTAAATAGAGGCAACAGAACTTTGAAAAACTAAATT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAA-T
* *
12995567 ACTCATCTAAATAGAGGCAACAAAACTTT-AAAAAATAAAT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAAT
*
12995607 GCTCCTTTAAATAGAGGCAACAAAACTTTG-AAAAATAAAAT
1 GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAAT-AAAT
* * *
12995648 GCTCCTCTAAATAGAGGCACCCACATCTTTAGAAAAAATAAAT
1 GCTCCTCTAAATAGAGGCA-ACAAAACTTT-GAAAAAATAAAT
12995691 CGCTC
1 -GCTC
12995696 ATTGACAATC
Statistics
Matches: 348, Mismatches: 52, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
38 5 0.01
39 26 0.07
40 61 0.18
41 58 0.17
42 175 0.50
43 12 0.03
44 11 0.03
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAATAAAT
Found at i:12995603 original size:166 final size:163
Alignment explanation
Indices: 12995267--12995666 Score: 529
Period size: 166 Copynumber: 2.4 Consensus size: 163
12995257 ATGAATTTGA
** * * *
12995267 AAAAAATAAATGCTCCTCCAAACAAAGGCACCACAACTTT-AGAAAAATAAATTGCTCCTCTAAA
1 AAAAAATAAATGCTCCTCTTAATAAAGGCAACAAAACTTTGA-AAAAATAAATTGCTCCTCTAAA
* * * *
12995331 TAGAGGCACCATAACTTTAGAATAAATTATTCCTCTAAATAGAGGCAACACAACTTTGGTAAAAT
65 TAGAGGCAACAGAACTTTAAAATAAATTATTCCTCTAAATAGAGGCAACACAACTTTGGAAAAAT
* * * *
12995396 AAATTGCTCTTCTGAATAGAGGCAACATAACTTT
130 AAATTACTCATCTAAATAGAGGCAACAAAACTTT
* * *
12995430 TAAAAATAATTGCTCCTCTTAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCTTCTAAAT
1 AAAAAATAAATGCTCCTCTTAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAAT
* * *
12995495 AGAGGCAACAGAACTTTGGAAAAATAAATTGTTCCTTTAAATAGAGGCAACAGAACTTT-GAAAA
66 AGAGGCAACAGAACTTT---AAAATAAATTATTCCTCTAAATAGAGGCAACACAACTTTGGAAAA
12995559 ACTAAATTACTCATCTAAATAGAGGCAACAAAACTTT
128 A-TAAATTACTCATCTAAATAGAGGCAACAAAACTTT
* *
12995596 AAAAAATAAATGCTCCT-TTAAATAGAGGCAACAAAACTTTG-AAAAATAAAATGCTCCTCTAAA
1 AAAAAATAAATGCTCCTCTT-AATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAA
12995659 TAGAGGCA
65 TAGAGGCA
12995667 CCCACATCTT
Statistics
Matches: 207, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
163 70 0.34
164 1 0.00
165 35 0.17
166 101 0.49
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (163 bp):
AAAAAATAAATGCTCCTCTTAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAAT
AGAGGCAACAGAACTTTAAAATAAATTATTCCTCTAAATAGAGGCAACACAACTTTGGAAAAATA
AATTACTCATCTAAATAGAGGCAACAAAACTTT
Found at i:12995678 original size:82 final size:81
Alignment explanation
Indices: 12995236--12995666 Score: 469
Period size: 82 Copynumber: 5.2 Consensus size: 81
12995226 AGTAAGCAAA
* ** * * *
12995236 GCTCCTCTAAATAGAGGC-TCAATGAA-TTTGAAAAAAATAAATGCTCCTCCAAACAAAGGCACC
1 GCTCCTCTAAATAGAGGCAAC-AT-AACTTT--AAAAAATAAATGCTCCTTTAAATAGAGGCAAC
*
12995299 ACAACTTTAGAAAAATAAATT
62 AAAACTTT-GAAAAATAAATT
* * * *
12995320 GCTCCTCTAAATAGAGGCACCATAACTTTAGAATAAAT-TAT--TCCTCTAAATAGAGGCAACAC
1 GCTCCTCTAAATAGAGGCAACATAACTTTA-AA-AAATAAATGCTCCTTTAAATAGAGGCAACAA
*
12995382 AACTTTGGTAAAATAAATT
64 AACTTT-GAAAAATAAATT
* * * * *
12995401 GCTCTTCTGAATAGAGGCAACATAACTTTTAAAAATAATTGCTCCTCTT-AATAAAGGCAACAAA
1 GCTCCTCTAAATAGAGGCAACATAACTTTAAAAAATAAATGCTCCT-TTAAATAGAGGCAACAAA
12995465 ACTTTGAAAAAATAAATT
65 ACTTTG-AAAAATAAATT
* * * * *
12995483 GCTCTTCTAAATAGAGGCAACAGAACTTTGGAAAAATAAATTGTTCCTTTAAATAGAGGCAACAG
1 GCTCCTCTAAATAGAGGCAACATAACTTT-AAAAAATAAA-TGCTCCTTTAAATAGAGGCAACAA
12995548 AACTTTGAAAAACTAAATT
64 AACTTTGAAAAA-TAAATT
* * *
12995567 ACTCATCTAAATAGAGGCAACAAAACTTTAAAAAATAAATGCTCCTTTAAATAGAGGCAACAAAA
1 GCTCCTCTAAATAGAGGCAACATAACTTTAAAAAATAAATGCTCCTTTAAATAGAGGCAACAAAA
*
12995632 CTTTGAAAAATAAAAT
66 CTTTGAAAAATAAATT
12995648 GCTCCTCTAAATAGAGGCA
1 GCTCCTCTAAATAGAGGCA
12995667 CCCACATCTT
Statistics
Matches: 300, Mismatches: 34, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
79 4 0.01
80 3 0.01
81 83 0.28
82 94 0.31
83 31 0.10
84 84 0.28
85 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (81 bp):
GCTCCTCTAAATAGAGGCAACATAACTTTAAAAAATAAATGCTCCTTTAAATAGAGGCAACAAAA
CTTTGAAAAATAAATT
Found at i:12996148 original size:21 final size:21
Alignment explanation
Indices: 12996088--12996150 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
12996078 AACTTAAAAC
*
12996088 TTAAAACTCAAAGACTCTTC-T
1 TTAAAATTCAAAGACTC-TCAT
*
12996109 TTAAAATTCAAAGATTCTCAT
1 TTAAAATTCAAAGACTCTCAT
*
12996130 TTGAAATTCAAAGACTCTCAT
1 TTAAAATTCAAAGACTCTCAT
12996151 AAAAAAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (21 bp):
TTAAAATTCAAAGACTCTCAT
Found at i:12996507 original size:23 final size:23
Alignment explanation
Indices: 12996464--12996507 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
12996454 TTGGAATAAG
* *
12996464 TTTCATCAACTGATTATCATTAT
1 TTTCATCAACTGATCACCATTAT
12996487 TTTCATC-ACTTGATCACCATT
1 TTTCATCAAC-TGATCACCATT
12996508 CGAAGGCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTCATCAACTGATCACCATTAT
Found at i:13000242 original size:23 final size:23
Alignment explanation
Indices: 13000192--13000256 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
13000182 AATCATGAGC
* * * *
13000192 ATGAAAATGATGCATAGAATGAA
1 ATGATAATGATGTATAAAATAAA
13000215 ATGATAATGATGTATAAAATAAA
1 ATGATAATGATGTATAAAATAAA
*
13000238 ATGAT-ATGATAATATAAAA
1 ATGATAATGAT-GTATAAAA
13000257 ATGATACATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.55, C:0.02, G:0.15, T:0.28
Consensus pattern (23 bp):
ATGATAATGATGTATAAAATAAA
Found at i:13001767 original size:8 final size:8
Alignment explanation
Indices: 13001754--13001789 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
13001744 AATTCTAATT
13001754 TTTTTATA
1 TTTTTATA
*
13001762 TTTTTATG
1 TTTTTATA
13001770 TTTTTATA
1 TTTTTATA
13001778 -TTTTATA
1 TTTTTATA
13001785 TTTTT
1 TTTTT
13001790 TTGTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (8 bp):
TTTTTATA
Found at i:13002044 original size:14 final size:15
Alignment explanation
Indices: 13002025--13002056 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13002015 ACAAACACAT
13002025 AAAAA-TAAAATTAA
1 AAAAATTAAAATTAA
13002039 AAAAATTAAAATTAA
1 AAAAATTAAAATTAA
13002054 AAA
1 AAA
13002057 TACCAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAATTAAAATTAA
Found at i:13002793 original size:12 final size:12
Alignment explanation
Indices: 13002776--13002849 Score: 70
Period size: 12 Copynumber: 6.5 Consensus size: 12
13002766 TTTTTTAATT
*
13002776 AATAAATTATAA
1 AATAAATAATAA
13002788 AATAAATAATAA
1 AATAAATAATAA
13002800 TAA-AAA-AATAA
1 -AATAAATAATAA
*
13002811 AATAAA-AACCAA
1 AATAAATAA-TAA
13002823 AATAAA-AATAA
1 AATAAATAATAA
13002834 AATAAA-AAT-A
1 AATAAATAATAA
13002844 AATAAA
1 AATAAA
13002850 AAAATAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
10 9 0.16
11 21 0.38
12 24 0.43
13 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:13002810 original size:23 final size:22
Alignment explanation
Indices: 13002784--13002857 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 22
13002774 TTAATAAATT
13002784 ATAAAATAAATAATAATAAAAAA
1 ATAAAATAAA-AATAATAAAAAA
*
13002807 ATAAAATAAAAACCAA-AATAAAA
1 ATAAAATAAAAA-TAATAA-AAAA
13002830 ATAAAATAAAAATAAATAAAAAA
1 ATAAAATAAAAAT-AATAAAAAA
13002853 ATAAA
1 ATAAA
13002858 CAGTTGGACC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
22 4 0.09
23 39 0.87
24 2 0.04
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.18
Consensus pattern (22 bp):
ATAAAATAAAAATAATAAAAAA
Found at i:13002817 original size:11 final size:11
Alignment explanation
Indices: 13002784--13002857 Score: 87
Period size: 12 Copynumber: 6.5 Consensus size: 11
13002774 TTAATAAATT
13002784 ATAAAATAAATA
1 ATAAAATAAA-A
13002796 ATAATAA-AAAA
1 ATAA-AATAAAA
13002807 ATAAAATAAAA
1 ATAAAATAAAA
*
13002818 ACCAAAATAAAA
1 A-TAAAATAAAA
13002830 ATAAAATAAAA
1 ATAAAATAAAA
*
13002841 ATAAATAAAAAA
1 ATAAA-ATAAAA
13002853 ATAAA
1 ATAAA
13002858 CAGTTGGACC
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
10 2 0.04
11 24 0.44
12 27 0.49
13 2 0.04
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:13004599 original size:16 final size:15
Alignment explanation
Indices: 13004548--13004603 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
13004538 GGGTTTGGTC
13004548 TTAGGGTTTAAAGAATT
1 TTAGGGTTT-AA-AATT
*
13004565 TTAGGGCTT-AAATT
1 TTAGGGTTTAAAATT
*
13004579 TTAGGGTTTGAAAAGT
1 TTAGGGTTT-AAAATT
13004595 TTAGGGTTT
1 TTAGGGTTT
13004604 TGATTTAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 12 0.35
15 1 0.03
16 13 0.38
17 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (15 bp):
TTAGGGTTTAAAATT
Found at i:13004668 original size:30 final size:30
Alignment explanation
Indices: 13004628--13004704 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
13004618 AGGATTAGGT
* *
13004628 TTTTAATTTTAAGGTTTAAAGGGTTTAAGG
1 TTTTAGTTTTAAGGTTTAAAGGATTTAAGG
* * **
13004658 TTTTAGTTTTACGATTTGGAGGATTTAAGG
1 TTTTAGTTTTAAGGTTTAAAGGATTTAAGG
*
13004688 TTTT-GATTTTAGGGTTT
1 TTTTAG-TTTTAAGGTTT
13004705 TGGGTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (30 bp):
TTTTAGTTTTAAGGTTTAAAGGATTTAAGG
Found at i:13004752 original size:29 final size:29
Alignment explanation
Indices: 13004713--13004783 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
13004703 TTTGGGTTTA
*
13004713 ATTTTAAGGTTTAGAGG-TTAGAGGTTTTG
1 ATTTTAGGGTTTAGAGGTTTAGA-GTTTTG
*
13004742 ATTTTAGGGTTTGGAGGTTTAGAGTTTTG
1 ATTTTAGGGTTTAGAGGTTTAGAGTTTTG
13004771 ATTTTAGGGTTTA
1 ATTTTAGGGTTTA
13004784 AAAGGGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 33 0.87
30 5 0.13
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (29 bp):
ATTTTAGGGTTTAGAGGTTTAGAGTTTTG
Found at i:13004782 original size:14 final size:14
Alignment explanation
Indices: 13004730--13004782 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
13004720 GGTTTAGAGG
13004730 TTAGAGGTTTTGATT
1 TTAG-GGTTTTGATT
* *
13004745 TTAGGGTTTGGAGGT
1 TTAGGGTTTTGA-TT
*
13004760 TTAGAGTTTTGATT
1 TTAGGGTTTTGATT
13004774 TTAGGGTTT
1 TTAGGGTTT
13004783 AAAAGGGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (14 bp):
TTAGGGTTTTGATT
Found at i:13005174 original size:4 final size:4
Alignment explanation
Indices: 13005160--13005189 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
13005150 ATCATGTATG
*
13005160 AATA TATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
13005190 AATAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:13006434 original size:16 final size:18
Alignment explanation
Indices: 13006405--13006454 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 18
13006395 TATTATTTTT
*
13006405 TAATTTTTATTATTAATA
1 TAATTTTAATTATTAATA
13006423 T-A-TTTAATTATTAAT-
1 TAATTTTAATTATTAATA
13006438 TAATTTTAA-TATTAATA
1 TAATTTTAATTATTAATA
13006455 AACAAAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 20 0.71
17 6 0.21
18 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTTTAATTATTAATA
Found at i:13006861 original size:22 final size:22
Alignment explanation
Indices: 13006833--13006880 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13006823 TCGTAAATCG
13006833 AAATTATGCCT-GAAGGTCTTAA
1 AAATTATGCCTAG-AGGTCTTAA
*
13006855 AAATTATGCCTAGAGGTCTTAG
1 AAATTATGCCTAGAGGTCTTAA
13006877 AAAT
1 AAAT
13006881 CATGTTCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (22 bp):
AAATTATGCCTAGAGGTCTTAA
Found at i:13007211 original size:132 final size:131
Alignment explanation
Indices: 13006968--13007514 Score: 487
Period size: 132 Copynumber: 4.1 Consensus size: 131
13006958 GTGAATCAAA
* * * * * * **
13006968 ATTATACCCGAAGGTCTTA-AAGATTATGCTTGAAGGTTTTACAAAATCGA-CTGGGACAACAAT
1 ATTATGCCCGAAGGTCTTAGAA-ATCATGCTAGAA-GTTTTATAGAATCGATC-AGGACAACACC
* * * ** * **
13007031 GTAAATGAAAAAATAAAGAATCGATTGGGATAACA-CTGCGAATCGAAATTATGCTTAGAAATCT
63 GCAAGTCAAAAAATAAAGAATCGATCAGGATAACATC-GCGAATCGAAATTATGCCTAGAGGTCT
13007095 TAAAG
127 TAAAG
* * * * * **
13007100 ATTATGCCCGAAGGTCTTAGAAATCATGTCTTGAAGTCTTGTAGAATCAATCGGGATC-ACATTG
1 ATTATGCCCGAAGGTCTTAGAAATCATG-CTAGAAGTTTTATAGAATCGATCAGGA-CAACACCG
* * *
13007164 CAAGTCAAAAAATAAAGAATCGATCAGGATAACATCACGAAAT-GAAATTATACCTGGAGGTCTT
64 CAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCG-AATCGAAATTATGCCTAGAGGTCTT
13007228 AAAG
128 AAAG
* * * * *
13007232 ATTATGCCC-AGAGGTCTTAAAAATCATGCTCGGAAGTTTTACAGAATTGATCAGGACAACACCA
1 ATTATGCCCGA-AGGTCTTAGAAATCATGCT-AGAAGTTTTATAGAATCGATCAGGACAACACCG
* ** * * * * *
13007296 TAAGTTGAAAAATAAAAAATTGATCAGGATAACATCGTGAATCAAAATTATGCCTGGAGGTCTTA
64 CAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATCGAAATTATGCCTAGAGGTCTTA
13007361 AAG
129 AAG
* ** * * *
13007364 ATTATACTTGGAGGTCTTAGAAATCATGCCCAGAGGTTTTATAGAATCGA-CTAGGACAACACCG
1 ATTATGCCCGAAGGTCTTAGAAATCATG-CTAGAAGTTTTATAGAATCGATC-AGGACAACACCG
** * *
13007428 CAAGTCAAAAAATAAAGAATCGATTGGGACAACATTGCGAATCGAAATTATGCCTAGAGGTCTTA
64 CAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATCGAAATTATGCCTAGAGGTCTTA
13007493 AAG
129 AAG
* *
13007496 ATTATGCCTGGAGGTCTTA
1 ATTATGCCCGAAGGTCTTA
13007515 CAAAATTGAC
Statistics
Matches: 338, Mismatches: 64, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
131 8 0.02
132 315 0.93
133 15 0.04
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (131 bp):
ATTATGCCCGAAGGTCTTAGAAATCATGCTAGAAGTTTTATAGAATCGATCAGGACAACACCGCA
AGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATCGAAATTATGCCTAGAGGTCTTAAA
G
Found at i:13007346 original size:264 final size:265
Alignment explanation
Indices: 13007039--13007520 Score: 596
Period size: 264 Copynumber: 1.8 Consensus size: 265
13007029 ATGTAAATGA
* ** * *
13007039 AAAAATAAAGAATCGATTGGGATAACACTGCGAATCGAAATTATGCTTAGAAATCTTAAAGATTA
1 AAAAATAAAAAATCGATCAGGATAACACTGCGAATCAAAATTATGCCTAGAAATCTTAAAGATTA
* * ** * * **
13007104 TGCCCGAAGGTCTTAGAAATCATGTCTTGAAGTCTTGTAGAATCAA-TCGGGATC-ACATTGCAA
66 TACCCGAAGGTCTTAGAAATCATGCCCAGAAGTCTTATAGAATCAACT-AGGA-CAACACCGCAA
* *
13007167 GTCAAAAAATAAAGAATCGATCAGGATAACATCACGAAAT-GAAATTATACCTGGAGGTCTTAAA
129 GTCAAAAAATAAAGAATCGATCAGGACAACATCACG-AATCGAAATTATACCTAGAGGTCTTAAA
13007231 GATTATGCCCAGAGGTCTTA-AAAATCATGCTCGGAAGTTTTACAGAATTGATCAGGACAACACC
193 GATTATGCCCAGAGGTCTTACAAAATCATGCTCGGAAGTTTTACAGAATTGATCAGGACAACACC
13007295 ATAAGTTG
258 ATAAGTTG
* * * **
13007303 AAAAATAAAAAATTGATCAGGATAACA-TCGTGAATCAAAATTATGCCTGGAGGTCTTAAAGATT
1 AAAAATAAAAAATCGATCAGGATAACACT-GCGAATCAAAATTATGCCTAGAAATCTTAAAGATT
** * * * *
13007367 ATACTTGGAGGTCTTAGAAATCATGCCCAGAGGTTTTATAGAATCGACTAGGACAACACCGCAAG
65 ATACCCGAAGGTCTTAGAAATCATGCCCAGAAGTCTTATAGAATCAACTAGGACAACACCGCAAG
** ** *
13007432 TCAAAAAATAAAGAATCGATTGGGACAACATTGCGAATCGAAATTATGCCTAGAGGTCTTAAAGA
130 TCAAAAAATAAAGAATCGATCAGGACAACATCACGAATCGAAATTATACCTAGAGGTCTTAAAGA
**
13007497 TTATGCCTGGAGGTCTTACAAAAT
195 TTATGCCCAGAGGTCTTACAAAAT
13007521 TGACTGAGAT
Statistics
Matches: 180, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
263 5 0.03
264 169 0.94
265 6 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (265 bp):
AAAAATAAAAAATCGATCAGGATAACACTGCGAATCAAAATTATGCCTAGAAATCTTAAAGATTA
TACCCGAAGGTCTTAGAAATCATGCCCAGAAGTCTTATAGAATCAACTAGGACAACACCGCAAGT
CAAAAAATAAAGAATCGATCAGGACAACATCACGAATCGAAATTATACCTAGAGGTCTTAAAGAT
TATGCCCAGAGGTCTTACAAAATCATGCTCGGAAGTTTTACAGAATTGATCAGGACAACACCATA
AGTTG
Found at i:13008011 original size:41 final size:41
Alignment explanation
Indices: 13007954--13008055 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
13007944 CTTATACAAG
* * * * *
13007954 TGCAAATACAATTGATGTAAATGCGAATGT-CTTTCTTATGA
1 TGCAAATGCAAGTGATGCAAATGCAAATGTCCTTT-TAATGA
13007995 TGCAAATGCAAGTGATGCAAATGCAAATGTCCTTTTAATGA
1 TGCAAATGCAAGTGATGCAAATGCAAATGTCCTTTTAATGA
13008036 TGCACAA-GCAAGTGATGCAA
1 TGCA-AATGCAAGTGATGCAA
13008056 CTACGAATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 48 0.89
42 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (41 bp):
TGCAAATGCAAGTGATGCAAATGCAAATGTCCTTTTAATGA
Found at i:13008012 original size:15 final size:15
Alignment explanation
Indices: 13007992--13008020 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13007982 GTCTTTCTTA
13007992 TGATGCAAATGCAAG
1 TGATGCAAATGCAAG
13008007 TGATGCAAATGCAA
1 TGATGCAAATGCAA
13008021 ATGTCCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (15 bp):
TGATGCAAATGCAAG
Found at i:13009061 original size:8 final size:8
Alignment explanation
Indices: 13009048--13009097 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
13009038 TTAAGGTACA
13009048 TGTTTTTT
1 TGTTTTTT
13009056 TGTTTTTT
1 TGTTTTTT
13009064 TGTTTTTT
1 TGTTTTTT
*
13009072 TTTTTCATTT
1 TGTTT--TTT
*
13009082 TTTTTTATT
1 TGTTTT-TT
13009091 TGTTTTT
1 TGTTTTT
13009098 GGATTCTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 22 0.59
9 7 0.19
10 8 0.22
ACGTcount: A:0.04, C:0.02, G:0.08, T:0.86
Consensus pattern (8 bp):
TGTTTTTT
Found at i:13009071 original size:10 final size:10
Alignment explanation
Indices: 13009050--13009097 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
13009040 AAGGTACATG
*
13009050 TTTTTTTGTT
1 TTTTTTTATT
13009060 TTTTTGTT-TT
1 TTTTT-TTATT
13009070 TTTTTTTCATT
1 TTTTTTT-ATT
13009081 TTTTTTTATT
1 TTTTTTTATT
13009091 TGTTTTT
1 T-TTTTT
13009098 GGATTCTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.06
10 16 0.47
11 16 0.47
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.88
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:13009532 original size:8 final size:8
Alignment explanation
Indices: 13009519--13009569 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
13009509 AAAGAGATCT
13009519 TTTTTTTA
1 TTTTTTTA
13009527 TTTTTTT-
1 TTTTTTTA
13009534 TTATCTTTTA
1 TT-T-TTTTA
*
13009544 CTTTTTTA
1 TTTTTTTA
*
13009552 CTTGTTTTA
1 -TTTTTTTA
13009561 TTTTTTTA
1 TTTTTTTA
13009569 T
1 T
13009570 GCCCCATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
7 2 0.06
8 21 0.60
9 11 0.31
10 1 0.03
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTTTA
Found at i:13010155 original size:10 final size:10
Alignment explanation
Indices: 13010140--13010168 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13010130 AAAGAAAACC
13010140 CTTTTTTTTT
1 CTTTTTTTTT
13010150 CTTTTTTTTT
1 CTTTTTTTTT
13010160 -TTTTTTTTT
1 CTTTTTTTTT
13010169 GTAAGTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:13016310 original size:87 final size:87
Alignment explanation
Indices: 13016218--13016403 Score: 209
Period size: 87 Copynumber: 2.1 Consensus size: 87
13016208 TAGGGCTTGA
*
13016218 ATTTTAGGGTTTGGAA-AGTTTAGAGTTTTGA-TTT-AGGGTTCGAGGATTAGGTTTTTAATTTT
1 ATTTTAGGGTTTGGAAGA-TTTAGAGTTTTGATTTTAAGGGTTCGAGGATTAGG-GTTTAATTTT
*
13016280 AGGGTTTAAAGGGTTTAAGGTTTT-
64 AAGGTTTAAA-GGTTTAAGGTTTTG
* * * * * *
13016304 AGTTTTATGATTTGGAAGATTTAGGGTTTTGATTTTAAGGGTTTGGGGTTTAGGGTTTAATTTTA
1 A-TTTTAGGGTTTGGAAGATTTAGAGTTTTGATTTTAAGGGTTCGAGGATTAGGGTTTAATTTTA
* **
13016369 AGGTTTAGAGGTTTGGGGTTTTG
65 AGGTTTAAAGGTTTAAGGTTTTG
13016392 ATTTTAGGGTTT
1 ATTTTAGGGTTT
13016404 AAAGGGTTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
86 1 0.01
87 45 0.55
88 22 0.27
89 14 0.17
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.48
Consensus pattern (87 bp):
ATTTTAGGGTTTGGAAGATTTAGAGTTTTGATTTTAAGGGTTCGAGGATTAGGGTTTAATTTTAA
GGTTTAAAGGTTTAAGGTTTTG
Found at i:13016354 original size:7 final size:7
Alignment explanation
Indices: 13016341--13016444 Score: 50
Period size: 7 Copynumber: 14.4 Consensus size: 7
13016331 TTTGATTTTA
13016341 AGGGTTT
1 AGGGTTT
*
13016348 GGGGTTT
1 AGGGTTT
13016355 AGGGTTT
1 AGGGTTT
**
13016362 A-ATTTT
1 AGGGTTT
*
13016368 AAGGTTT
1 AGGGTTT
13016375 AGAGGTTT
1 AG-GGTTT
*
13016383 GGGGTTT
1 AGGGTTT
* **
13016390 TGATTTT
1 AGGGTTT
13016397 AGGGTTT
1 AGGGTTT
13016404 AAAGGGTTT
1 --AGGGTTT
*
13016413 ATGGTTT
1 AGGGTTT
**
13016420 -GATTTT
1 AGGGTTT
13016426 AGGGTTT
1 AGGGTTT
13016433 GAAGGGTTT
1 --AGGGTTT
13016442 AGG
1 AGG
13016445 ATTTTAGTTT
Statistics
Matches: 70, Mismatches: 20, Indels: 14
0.67 0.19 0.13
Matches are distributed among these distances:
6 7 0.10
7 43 0.61
8 6 0.09
9 14 0.20
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:13016403 original size:14 final size:14
Alignment explanation
Indices: 13016323--13016403 Score: 65
Period size: 15 Copynumber: 5.7 Consensus size: 14
13016313 ATTTGGAAGA
13016323 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* **
13016337 TTTAAGGGTTTGGGG
1 TTT-AGGGTTTTGAT
*
13016352 TTTAGGG-TTTAAT
1 TTTAGGGTTTTGAT
* * *
13016365 TTTAAGGTTTAGAGG
1 TTTAGGGTTTTGA-T
*
13016380 TTTGGGGTTTTGAT
1 TTTAGGGTTTTGAT
13016394 TTTAGGGTTT
1 TTTAGGGTTT
13016404 AAAGGGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
13 8 0.17
14 19 0.40
15 21 0.44
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:13016403 original size:29 final size:29
Alignment explanation
Indices: 13016218--13016449 Score: 163
Period size: 29 Copynumber: 8.0 Consensus size: 29
13016208 TAGGGCTTGA
* * *
13016218 ATTTTAGGGTTTGGAAAGTTTAGAGTTTTG
1 ATTTTAGGGTTTAG-AGGTTTAGGGTTTTG
* * * *
13016248 A-TTTAGGG-TTCGAGGATTAGGTTTTTA
1 ATTTTAGGGTTTAGAGGTTTAGGGTTTTG
* *
13016275 ATTTTAGGGTTTAAAGGGTTTAAGGTTTT-
1 ATTTTAGGGTTTAGA-GGTTTAGGGTTTTG
* * * *
13016304 AGTTTTATGATTTGGAAGATTTAGGGTTTTG
1 A-TTTTAGGGTTTAG-AGGTTTAGGGTTTTG
* *
13016335 ATTTTAAGGGTTT-GGGGTTTAGGG-TTTA
1 ATTTT-AGGGTTTAGAGGTTTAGGGTTTTG
* *
13016363 ATTTTAAGGTTTAGAGGTTTGGGGTTTTG
1 ATTTTAGGGTTTAGAGGTTTAGGGTTTTG
* *
13016392 ATTTTAGGGTTTAAAGGGTTTATGG-TTTG
1 ATTTTAGGGTTTAGA-GGTTTAGGGTTTTG
*
13016421 ATTTTAGGGTTT-GAAGGGTTTAGGATTTT
1 ATTTTAGGGTTTAG-A-GGTTTAGGGTTTT
13016450 AGTTTTTAAT
Statistics
Matches: 157, Mismatches: 33, Indels: 24
0.73 0.15 0.11
Matches are distributed among these distances:
27 17 0.11
28 27 0.17
29 60 0.38
30 46 0.29
31 7 0.04
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.47
Consensus pattern (29 bp):
ATTTTAGGGTTTAGAGGTTTAGGGTTTTG
Found at i:13016444 original size:16 final size:16
Alignment explanation
Indices: 13016394--13016444 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
13016384 GGGTTTTGAT
*
13016394 TTTAGGGTTTAAAGGG
1 TTTAGGGTTTGAAGGG
* *
13016410 TTTATGGTTTG-A--T
1 TTTAGGGTTTGAAGGG
13016423 TTTAGGGTTTGAAGGG
1 TTTAGGGTTTGAAGGG
13016439 TTTAGG
1 TTTAGG
13016445 ATTTTAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
13 10 0.37
14 1 0.04
15 1 0.04
16 15 0.56
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
TTTAGGGTTTGAAGGG
Found at i:13016801 original size:17 final size:17
Alignment explanation
Indices: 13016779--13016830 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
13016769 CCACATATGA
*
13016779 ATATAAAATAAATAAAT
1 ATATAAAATAAAAAAAT
13016796 ATATAAAATAAAAAAAT
1 ATATAAAATAAAAAAAT
*
13016813 AAATAAAAATAATAAAAA
1 ATAT-AAAATAA-AAAAA
13016831 CGCTGGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 19 0.61
18 7 0.23
19 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
ATATAAAATAAAAAAAT
Found at i:13016806 original size:13 final size:13
Alignment explanation
Indices: 13016788--13016829 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13016778 AATATAAAAT
*
13016788 AAATAAATATATA
1 AAATAAAAATATA
*
13016801 AAATAAAAAAAT-
1 AAATAAAAATATA
13016813 AAATAAAAATAATA
1 AAATAAAAAT-ATA
13016827 AAA
1 AAA
13016830 ACGCTGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 9 0.38
13 12 0.50
14 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAATATA
Found at i:13016812 original size:21 final size:21
Alignment explanation
Indices: 13016781--13016830 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
13016771 ACATATGAAT
*
13016781 ATAAAATAAATAAATATATAA-A
1 ATAAAA-AAATAAATA-AAAATA
13016803 ATAAAAAAATAAATAAAAATA
1 ATAAAAAAATAAATAAAAATA
13016824 ATAAAAA
1 ATAAAAA
13016831 CGCTGGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
ATAAAAAAATAAATAAAAATA
Found at i:13017901 original size:27 final size:27
Alignment explanation
Indices: 13017863--13017917 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13017853 TGAGTCATGA
13017863 AATATATACTTATAATTAATGCAACAT
1 AATATATACTTATAATTAATGCAACAT
13017890 AATATATACTTATAATTAATGCAACAT
1 AATATATACTTATAATTAATGCAACAT
13017917 A
1 A
13017918 CTTTTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (27 bp):
AATATATACTTATAATTAATGCAACAT
Found at i:13018182 original size:18 final size:19
Alignment explanation
Indices: 13018156--13018197 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
13018146 TGCGAAAGAT
*
13018156 GAAACAAAA-TATGAAAAA
1 GAAAAAAAATTATGAAAAA
* *
13018174 GAAAAAAAATTTTGAGAAA
1 GAAAAAAAATTATGAAAAA
13018193 GAAAA
1 GAAAA
13018198 GCAAATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (19 bp):
GAAAAAAAATTATGAAAAA
Found at i:13020201 original size:88 final size:87
Alignment explanation
Indices: 13020107--13020352 Score: 297
Period size: 87 Copynumber: 2.8 Consensus size: 87
13020097 TGGAAAGTTT
* * *
13020107 AGGGTTTTGA-TTTAGGGTTT-GGG-GATTAGGTTTTTTATTTTAGGGTTTAAAGGGTTTAA-GG
1 AGGGTTTTGATTTTAGGGTTTAGGGAGATTAGG-GTTTAATTTTAAGGTTTAAA-GG-TTAAGGG
* *
13020168 TTTT-AGTTTTACGATTTGGAGGATTTA
63 TTTTGA-TTTTAAGATTTAGAGG--TTA
* *
13020195 AGGG-TTTGATTTTAGGGTTTAGGGAGTTTAGGGTTTAATTTTAAGGTTTAGAGGTTAAGGGTTT
1 AGGGTTTTGATTTTAGGGTTTAGGGAGATTAGGGTTTAATTTTAAGGTTTAAAGGTTAAGGGTTT
*
13020259 TGATTTTAAGGTTTAGAGGTTA
66 TGATTTTAAGATTTAGAGGTTA
* * *
13020281 AGGGTTTTGATTTTAGGGTTTAGAGAGTTTAGGGTTTAATTTTAAGGTTTAGAGGTTAAGGGTTT
1 AGGGTTTTGATTTTAGGGTTTAGGGAGATTAGGGTTTAATTTTAAGGTTTAAAGGTTAAGGGTTT
13020346 TGATTTT
66 TGATTTT
13020353 TAATTTTTTT
Statistics
Matches: 143, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
86 7 0.05
87 75 0.52
88 35 0.24
89 20 0.14
90 6 0.04
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (87 bp):
AGGGTTTTGATTTTAGGGTTTAGGGAGATTAGGGTTTAATTTTAAGGTTTAAAGGTTAAGGGTTT
TGATTTTAAGATTTAGAGGTTA
Found at i:13020228 original size:29 final size:28
Alignment explanation
Indices: 13020103--13020352 Score: 191
Period size: 29 Copynumber: 8.6 Consensus size: 28
13020093 GGTTTGGAAA
13020103 GTTTAGGGTTTTGA-TTTAGGGTTT-GGG
1 GTTTAGGG-TTTGATTTTAGGGTTTAGGG
* * * *
13020130 GATTAGGTTTTTTATTTTAGGGTTTAAAGG
1 GTTTAGG-GTTTGATTTTAGGGTTT-AGGG
* * * *
13020160 GTTTAAGGTTTTAGTTTTACGATTT-GGAG
1 GTTTAGGGTTTGA-TTTTAGGGTTTAGG-G
13020189 GATTTAAGGGTTTGATTTTAGGGTTTAGGG
1 G-TTT-AGGGTTTGATTTTAGGGTTTAGGG
* * *
13020219 AGTTTAGGGTTTAATTTTAAGGTTTAGAG
1 -GTTTAGGGTTTGATTTTAGGGTTTAGGG
* * *
13020248 GTTAAGGGTTTTGATTTTAAGGTTTAGAG
1 GTTTAGGG-TTTGATTTTAGGGTTTAGGG
* *
13020277 GTTAAGGGTTTTGATTTTAGGGTTTAGAGA
1 GTTTAGGG-TTTGATTTTAGGGTTTAG-GG
* * *
13020307 GTTTAGGGTTTAATTTTAAGGTTTAGAG
1 GTTTAGGGTTTGATTTTAGGGTTTAGGG
*
13020335 GTTAAGGGTTTTGATTTT
1 GTTTAGGG-TTTGATTTT
13020353 TAATTTTTTT
Statistics
Matches: 181, Mismatches: 29, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
27 10 0.06
28 25 0.14
29 97 0.54
30 39 0.22
31 10 0.06
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (28 bp):
GTTTAGGGTTTGATTTTAGGGTTTAGGG
Found at i:13020254 original size:14 final size:14
Alignment explanation
Indices: 13020235--13020341 Score: 81
Period size: 14 Copynumber: 7.4 Consensus size: 14
13020225 GGGTTTAATT
13020235 TTAAGGTTTAGAGG
1 TTAAGGTTTAGAGG
* **
13020249 TTAAGGGTTTTGATT
1 TTAA-GGTTTAGAGG
13020264 TTAAGGTTTAGAGG
1 TTAAGGTTTAGAGG
* **
13020278 TTAAGGGTTTTGATT
1 TTAA-GGTTTAGAGG
*
13020293 TTAGGGTTTAGAGAG
1 TTAAGGTTTAGAG-G
* **
13020308 TTTAGGGTTTA-ATT
1 -TTAAGGTTTAGAGG
13020322 TTAAGGTTTAGAGG
1 TTAAGGTTTAGAGG
13020336 TTAAGG
1 TTAAGG
13020342 GTTTTGATTT
Statistics
Matches: 70, Mismatches: 18, Indels: 10
0.71 0.18 0.10
Matches are distributed among these distances:
13 9 0.13
14 29 0.41
15 22 0.31
16 10 0.14
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (14 bp):
TTAAGGTTTAGAGG
Found at i:13020294 original size:58 final size:58
Alignment explanation
Indices: 13020107--13020352 Score: 229
Period size: 58 Copynumber: 4.2 Consensus size: 58
13020097 TGGAAAGTTT
* * * * *
13020107 AGGGTTTTGA-TTTAGGGTTT-GGGGATT-AGGTTTTTTATTTTAGGGTTTAAAGGGTTTA
1 AGGGTTTTGATTTTAGGGTTTAGAGGATTAAGG-GTTTGATTTTAAGGTTTAGA-GG-TTA
* * * * * *
13020165 A-GGTTTT-AGTTTTACGATTTGGAGGATTTAAGGGTTTGATTTTAGGGTTTAGGGAGTTT
1 AGGGTTTTGA-TTTTAGGGTTTAGAGGA-TTAAGGGTTTGATTTTAAGGTTTAGAG-GTTA
* *
13020224 AGGG-TTTAATTTTAAGGTTTAGAGG-TTAAGGGTTTTGATTTTAAGGTTTAGAGGTTA
1 AGGGTTTTGATTTTAGGGTTTAGAGGATTAAGGG-TTTGATTTTAAGGTTTAGAGGTTA
* *
13020281 AGGGTTTTGATTTTAGGGTTTAGA-GAGTTTAGGGTTTAATTTTAAGGTTTAGAGGTTA
1 AGGGTTTTGATTTTAGGGTTTAGAGGA-TTAAGGGTTTGATTTTAAGGTTTAGAGGTTA
13020339 AGGGTTTTGATTTT
1 AGGGTTTTGATTTT
13020353 TAATTTTTTT
Statistics
Matches: 158, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
56 1 0.01
57 21 0.13
58 81 0.51
59 30 0.19
60 22 0.14
61 3 0.02
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (58 bp):
AGGGTTTTGATTTTAGGGTTTAGAGGATTAAGGGTTTGATTTTAAGGTTTAGAGGTTA
Found at i:13020666 original size:18 final size:18
Alignment explanation
Indices: 13020643--13020699 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
13020633 TATTCAATTC
13020643 TTATTATTTTTTAGATTA
1 TTATTATTTTTTAGATTA
*
13020661 TTATTATTATTTTTAGCATTT
1 TTATTA-T-TTTTTAG-ATTA
*
13020682 TTAATATTTTTTAG-TTA
1 TTATTATTTTTTAGATTA
13020699 T
1 T
13020700 CATCTTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 6 0.18
19 8 0.24
20 8 0.24
21 8 0.24
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (18 bp):
TTATTATTTTTTAGATTA
Found at i:13020689 original size:21 final size:20
Alignment explanation
Indices: 13020644--13020693 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
13020634 ATTCAATTCT
*
13020644 TATTATTTTTTAGATTATTAT
1 TATTA-TTTTTAGATTATTAA
*
13020665 TATTATTTTTAGCATTTTTAA
1 TATTATTTTTAG-ATTATTAA
13020686 TATT-TTTT
1 TATTATTTT
13020694 AGTTATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TATTATTTTTAGATTATTAA
Found at i:13021989 original size:16 final size:16
Alignment explanation
Indices: 13021968--13022009 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
13021958 ATCCCAACCT
* *
13021968 TTTTTTTTTGTTTTTA
1 TTTTTTTTTATTATTA
13021984 TTTTTTTTTATTATTA
1 TTTTTTTTTATTATTA
*
13022000 TTATTTTTTA
1 TTTTTTTTTA
13022010 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTATTATTA
Found at i:13021991 original size:19 final size:19
Alignment explanation
Indices: 13021967--13022008 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
13021957 CATCCCAACC
* *
13021967 TTTTTTTT-TTGTTTTTAT
1 TTTTTTTTATTATTATTAT
13021985 TTTTTTTTATTATTATTAT
1 TTTTTTTTATTATTATTAT
13022004 TTTTT
1 TTTTT
13022009 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTTTTTATTATTATTAT
Found at i:13022006 original size:25 final size:26
Alignment explanation
Indices: 13021978--13022055 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 26
13021968 TTTTTTTTTG
* * *
13021978 TTTTTAT-TTTTTTTTATTATTATTA
1 TTTTTATAATTTTTTAATTATTAATA
13022003 TTTTT-TAATTTTTTAATTATTAATA
1 TTTTTATAATTTTTTAATTATTAATA
* * **
13022028 TATTTAATTATTAATTAATT-TTAATA
1 T-TTTTATAATTTTTTAATTATTAATA
13022054 TT
1 TT
13022056 AATAAACAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 22 0.51
26 10 0.23
27 10 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTATAATTTTTTAATTATTAATA
Found at i:13022035 original size:16 final size:18
Alignment explanation
Indices: 13022013--13022059 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
13022003 TTTTTTAATT
13022013 TTTTAATTATTAATAT-A
1 TTTTAATTATTAATATAA
13022030 -TTTAATTATTAAT-TAA
1 TTTTAATTATTAATATAA
13022046 TTTTAA-TATTAATA
1 TTTTAATTATTAATA
13022060 AACAGAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 21 0.78
17 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATTATTAATATAA
Found at i:13025170 original size:36 final size:37
Alignment explanation
Indices: 13025096--13025177 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 37
13025086 ATCAACCAAG
* *
13025096 AAAAACATTCATAGGTGTGCCATTCAACCATTTGGAC
1 AAAAACATTAATAGGTGTGCCATTAAACCATTTGGAC
* * *
13025133 -AAAACATTAATAGGTGTGCCATTAAAGCGTTTTGAC
1 AAAAACATTAATAGGTGTGCCATTAAACCATTTGGAC
13025169 AAAAACATT
1 AAAAACATT
13025178 TTTTGTCGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 31 0.79
37 8 0.21
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (37 bp):
AAAAACATTAATAGGTGTGCCATTAAACCATTTGGAC
Found at i:13026674 original size:2 final size:2
Alignment explanation
Indices: 13026667--13026696 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13026657 TTATTTCTAA
*
13026667 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13026697 GCTGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13032383 original size:13 final size:13
Alignment explanation
Indices: 13032365--13032390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13032355 TTGAAAATGG
13032365 GTTTTTTTTTTTT
1 GTTTTTTTTTTTT
13032378 GTTTTTTTTTTTT
1 GTTTTTTTTTTTT
13032391 TTTGATGATT
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
GTTTTTTTTTTTT
Found at i:13032443 original size:18 final size:18
Alignment explanation
Indices: 13032422--13032456 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13032412 AATTTTAATT
*
13032422 TTGTTTAATGGAGTTTGA
1 TTGTTGAATGGAGTTTGA
13032440 TTGTTGAATGGAGTTTG
1 TTGTTGAATGGAGTTTG
13032457 TGTTATGTGG
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:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (18 bp):
TTGTTGAATGGAGTTTGA
Found at i:13035707 original size:25 final size:24
Alignment explanation
Indices: 13035651--13035718 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
13035641 ACCCCTTGCC
* *
13035651 CAATTGATGCTATTGCCGACAAAT
1 CAATTGATGCTATTGCCAAAAAAT
* *
13035675 CTAGTTGATGTTATTGCCAAAAAATT
1 C-AATTGATGCTATTGCCAAAAAA-T
13035701 CAATTGATGCTA-TGCCAA
1 CAATTGATGCTATTGCCAA
13035719 GTCAGTGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 7 0.19
25 27 0.75
26 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (24 bp):
CAATTGATGCTATTGCCAAAAAAT
Found at i:13038306 original size:21 final size:21
Alignment explanation
Indices: 13038280--13038323 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13038270 CTACCTATAC
13038280 CAACGAATTACAATAAAAGGT
1 CAACGAATTACAATAAAAGGT
13038301 CAACGAATTACAATAAAAGGT
1 CAACGAATTACAATAAAAGGT
13038322 CA
1 CA
13038324 TCAGAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (21 bp):
CAACGAATTACAATAAAAGGT
Found at i:13048955 original size:28 final size:29
Alignment explanation
Indices: 13048902--13048959 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
13048892 AAGTAAAAAA
* *
13048902 AAAAAAAAAGAAAGGCAACAGTGAAAGGG
1 AAAAAAAAAGAAAAGCAACAGAGAAAGGG
13048931 AAAAAAAAAGAAAAG-AA-ATGAGAAAGGG
1 AAAAAAAAAGAAAAGCAACA-GAGAAAGGG
13048959 A
1 A
13048960 TATGGGTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 1 0.04
28 11 0.42
29 14 0.54
ACGTcount: A:0.67, C:0.03, G:0.26, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAGAAAAGCAACAGAGAAAGGG
Found at i:13049342 original size:20 final size:20
Alignment explanation
Indices: 13049319--13049368 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
13049309 AAAACTAGGT
13049319 AAAACTAGAAAA-CAATAAAA
1 AAAACTAGAAAAGCAA-AAAA
*
13049339 AAAAGTAGAAAAGCAAAAAA
1 AAAACTAGAAAAGCAAAAAA
13049359 AAAACTAGAA
1 AAAACTAGAA
13049369 GAAAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.74, C:0.08, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAACTAGAAAAGCAAAAAA
Found at i:13050243 original size:16 final size:16
Alignment explanation
Indices: 13050193--13050287 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 16
13050183 ATGCATATTT
*
13050193 TTTTATGCAGTTTAAA
1 TTTTATGCAATTTAAA
*
13050209 TTTCATTGCAATTTAAA
1 TTTTA-TGCAATTTAAA
* *
13050226 TTTTATGCATTTTTAA
1 TTTTATGCAATTTAAA
****
13050242 TTTTCATGTTGGTTAAA
1 TTTT-ATGCAATTTAAA
*
13050259 TTTCTATGCTTAATTTAAT
1 TTT-TATGC--AATTTAAA
13050278 TTTTATGCAA
1 TTTTATGCAA
13050288 ATTTCATGCT
Statistics
Matches: 59, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
16 19 0.32
17 27 0.46
18 6 0.10
19 7 0.12
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.54
Consensus pattern (16 bp):
TTTTATGCAATTTAAA
Found at i:13050290 original size:30 final size:30
Alignment explanation
Indices: 13050256--13050313 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
13050246 CATGTTGGTT
13050256 AAATTTCTATGC-TTAATTTAATTTTTATGC
1 AAATTTC-ATGCTTTAATTTAATTTTTATGC
*
13050286 AAATTTCATGCTTTAATTTACTTTTTAT
1 AAATTTCATGCTTTAATTTAATTTTTAT
13050314 ACAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
AAATTTCATGCTTTAATTTAATTTTTATGC
Found at i:13050721 original size:26 final size:26
Alignment explanation
Indices: 13050692--13050771 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
13050682 AAACTTTAAG
* * *
13050692 CCCTAAAATGAAACCTTAAAGTGAAA
1 CCCTAAACTAAAACCTTAAAATGAAA
*
13050718 CCCTAAACTAAAACCCTAAAATGAAA
1 CCCTAAACTAAAACCTTAAAATGAAA
*
13050744 CCCTAAACTAAAACCTTAAAATAAAA
1 CCCTAAACTAAAACCTTAAAATGAAA
13050770 CC
1 CC
13050772 TTTGGTGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (26 bp):
CCCTAAACTAAAACCTTAAAATGAAA
Found at i:13050740 original size:39 final size:39
Alignment explanation
Indices: 13050692--13050771 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
13050682 AAACTTTAAG
* * * *
13050692 CCCTAAAATGAAACCTTAAAGTGAAACCCTAAACTAAAA
1 CCCTAAAATGAAACCCTAAACTAAAACCCTAAAATAAAA
*
13050731 CCCTAAAATGAAACCCTAAACTAAAACCTTAAAATAAAA
1 CCCTAAAATGAAACCCTAAACTAAAACCCTAAAATAAAA
13050770 CC
1 CC
13050772 TTTGGTGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (39 bp):
CCCTAAAATGAAACCCTAAACTAAAACCCTAAAATAAAA
Found at i:13050773 original size:13 final size:13
Alignment explanation
Indices: 13050692--13050771 Score: 88
Period size: 13 Copynumber: 6.2 Consensus size: 13
13050682 AAACTTTAAG
*
13050692 CCCTAAAATGAAA
1 CCCTAAAATAAAA
* * *
13050705 CCTTAAAGTGAAA
1 CCCTAAAATAAAA
*
13050718 CCCTAAACTAAAA
1 CCCTAAAATAAAA
*
13050731 CCCTAAAATGAAA
1 CCCTAAAATAAAA
*
13050744 CCCTAAACTAAAA
1 CCCTAAAATAAAA
*
13050757 CCTTAAAATAAAA
1 CCCTAAAATAAAA
13050770 CC
1 CC
13050772 TTTGGTGAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 56 1.00
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (13 bp):
CCCTAAAATAAAA
Found at i:13053764 original size:3 final size:3
Alignment explanation
Indices: 13053756--13053785 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13053746 TTAAACAAAT
*
13053756 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13053786 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:13054644 original size:22 final size:21
Alignment explanation
Indices: 13054619--13054659 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13054609 CCAACAATTA
13054619 TCATTTATAAAGAATGTTGTTT
1 TCATTT-TAAAGAATGTTGTTT
* *
13054641 TCATTTTGAGGAATGTTGT
1 TCATTTTAAAGAATGTTGT
13054660 AGTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.49
Consensus pattern (21 bp):
TCATTTTAAAGAATGTTGTTT
Found at i:13061346 original size:18 final size:17
Alignment explanation
Indices: 13061307--13061354 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13061297 AGTATGAAAG
* *
13061307 TTTTAATTTTGGTTTTA
1 TTTTGATTTTAGTTTTA
*
13061324 GTTTGATTTTAGTTTTAA
1 TTTTGATTTTAGTTTT-A
13061342 TTTTGATTTTAGT
1 TTTTGATTTTAGT
13061355 GTTTTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTTGATTTTAGTTTTA
Found at i:13061925 original size:13 final size:12
Alignment explanation
Indices: 13061901--13061938 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
13061891 TTCTAGATTC
13061901 TGAAAA-TTTTT
1 TGAAAATTTTTT
13061912 TGATAAATTTTTT
1 TGA-AAATTTTTT
13061925 TGAAAATTTATTT
1 TGAAAATTT-TTT
13061938 T
1 T
13061939 CTAGAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 9 0.38
13 12 0.50
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
TGAAAATTTTTT
Found at i:13062507 original size:19 final size:18
Alignment explanation
Indices: 13062480--13062517 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
13062470 TACTTACATA
13062480 ATTAATTGCATGATTGTTT
1 ATTAATTGCATGATT-TTT
*
13062499 ATTAGTTGCATGATTTTT
1 ATTAATTGCATGATTTTT
13062517 A
1 A
13062518 ATATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (18 bp):
ATTAATTGCATGATTTTT
Found at i:13062547 original size:22 final size:22
Alignment explanation
Indices: 13062521--13062579 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 22
13062511 ATTTTTAATA
13062521 TATTAATTATTATTTGCATGAT
1 TATTAATTATTATTTGCATGAT
13062543 TATTAA-TATTATATTATTGCATGAT
1 TATTAATTA-T-TA-T-TTGCATGAT
13062568 TA-T-ATTATTATT
1 TATTAATTATTATT
13062580 GCTTGATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 9 0.28
23 4 0.12
24 4 0.12
25 11 0.34
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (22 bp):
TATTAATTATTATTTGCATGAT
Found at i:13062595 original size:19 final size:18
Alignment explanation
Indices: 13062551--13062603 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
13062541 ATTATTAATA
13062551 TTATATTATTGCATGATT
1 TTATATTATTGCATGATT
* *
13062569 ATATTATTATTGCTTGATAT
1 TTA-TATTATTGCATGAT-T
*
13062589 TTATATTATTACATG
1 TTATATTATTGCATG
13062604 GTATTATTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 2 0.07
19 23 0.82
20 3 0.11
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (18 bp):
TTATATTATTGCATGATT
Found at i:13065470 original size:47 final size:47
Alignment explanation
Indices: 13065419--13065518 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
13065409 GAGTTGGGGT
*
13065419 TAAAATTGGAATACAAATAAGGGCTATAAATGGAGAATGTCAGTAAA
1 TAAAATTGGAATACAAATAAGGGCTATAAATGAAGAATGTCAGTAAA
*
13065466 TAAAATTGGAATACAAATAGGGGCTATAAATGAAGAATGTCAGTAAA
1 TAAAATTGGAATACAAATAAGGGCTATAAATGAAGAATGTCAGTAAA
13065513 TAAAAT
1 TAAAAT
13065519 AGGCATAAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.24
Consensus pattern (47 bp):
TAAAATTGGAATACAAATAAGGGCTATAAATGAAGAATGTCAGTAAA
Found at i:13069832 original size:91 final size:91
Alignment explanation
Indices: 13069731--13070043 Score: 303
Period size: 91 Copynumber: 3.4 Consensus size: 91
13069721 CATAATCACC
** *
13069731 AAAGTTTTTTTAATAAGAATCTTTGAAATTTTGGATATGAATTCCTAAAATTTTTCAAATGAGAT
1 AAAG-TTTTTTAATAAGAATCTTTGAAATTTTGGATATGAATTCCTAAAATTTTTTGAATGAGAA
13069796 TTTTTGAAATTTTAGATGTGAAACTAT
65 TTTTTGAAATTTTAGATGTGAAACTAT
* * * * **
13069823 AAAGTTTTTTAATGATAATCTTT-AAAGGTTTGGATGT-AAGACCTTAAAATTTTTTGAATGAGA
1 AAAGTTTTTTAATAAGAATCTTTGAAA-TTTTGGATATGAATTCC-TAAAATTTTTTGAATGAGA
*
13069886 ACTTTTGAAATTTTAGATGTGAAA-TACT
64 ATTTTTGAAATTTTAGATGTGAAACTA-T
* ** * * * * *
13069914 AAAGTTTTTCAAGTGTGGATCTTTGAAATTTTGAATGTGAATTCCTAAATTTTTTTGAATGAAAA
1 AAAGTTTTTTAA-TAAGAATCTTTGAAATTTTGGATATGAATTCCTAAAATTTTTTGAATGAGAA
* * * * *
13069979 TCTTT-AACTTTTAAATGTGAATCTTT
65 TTTTTGAAATTTTAGATGTGAAACTAT
* * *
13070005 AAATTTTTTTGACAGAGAATCTTTG-AATTTTGGATATGA
1 AAAGTTTTTTAATA-AGAATCTTTGAAATTTTGGATATGA
13070044 GCCTTGAAAT
Statistics
Matches: 178, Mismatches: 35, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
90 21 0.12
91 108 0.61
92 42 0.24
93 7 0.04
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (91 bp):
AAAGTTTTTTAATAAGAATCTTTGAAATTTTGGATATGAATTCCTAAAATTTTTTGAATGAGAAT
TTTTGAAATTTTAGATGTGAAACTAT
Found at i:13069898 original size:137 final size:138
Alignment explanation
Indices: 13069735--13069985 Score: 305
Period size: 137 Copynumber: 1.8 Consensus size: 138
13069725 ATCACCAAAG
* * * * *
13069735 TTTTTTTAATAAGAATCTTTGAAATTTTGGATATGAATTCCTAAAATTTTTCAAATG-AGATTTT
1 TTTTTTGAATAAGAATCTTTGAAATTTTAGATATGAAATACTAAAATTTTTCAAATGTAGA-TCT
*
13069799 TTGAAATTTT-AGATGTGAAACT-ATAAAGTTTTTT-AATGATAATCTTTAAAGGTTTGGATGTA
65 TTGAAATTTTGA-ATGTG-AACTCATAAAGTTTTTTGAATGAAAATCTTTAAAGGTTTGGATGTA
13069861 AGACCTTAAAA
128 AGACCTTAAAA
* * * * *
13069872 TTTTTTGAATGAGAA-CTTTTGAAATTTTAGATGTGAAATACTAAAGTTTTTCAAGTGTGGATCT
1 TTTTTTGAATAAGAATC-TTTGAAATTTTAGATATGAAATACTAAAATTTTTCAAATGTAGATCT
* * *
13069936 TTGAAATTTTGAATGTGAATTCCTAAATTTTTTTGAATGAAAATCTTTAA
65 TTGAAATTTTGAATGTGAACTCATAAAGTTTTTTGAATGAAAATCTTTAA
13069986 CTTTTAAATG
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
136 4 0.04
137 74 0.78
138 17 0.18
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (138 bp):
TTTTTTGAATAAGAATCTTTGAAATTTTAGATATGAAATACTAAAATTTTTCAAATGTAGATCTT
TGAAATTTTGAATGTGAACTCATAAAGTTTTTTGAATGAAAATCTTTAAAGGTTTGGATGTAAGA
CCTTAAAA
Found at i:13069982 original size:46 final size:45
Alignment explanation
Indices: 13069735--13070036 Score: 185
Period size: 46 Copynumber: 6.7 Consensus size: 45
13069725 ATCACCAAAG
* * *
13069735 TTTTTTT-AATAAGAATCTTTGAAATTTTGGATATGAATTCCTAAA
1 TTTTTTTGAATGAGAATCTTTGAAATTTTGAATGTGAA-TCCTAAA
* ** * * * *
13069780 ATTTTTCAAATGAGATTTTTTGAAATTTT-AGATGTGAAACTATAAA
1 TTTTTTTGAATGAGAATCTTTGAAATTTTGA-ATGTGAATC-CTAAA
* * * * *
13069826 GTTTTTT-AATGATAATCTTT-AAAGGTTTGGATGT-AAGACCTTAAA
1 TTTTTTTGAATGAGAATCTTTGAAA-TTTTGAATGTGAA-TCC-TAAA
* *
13069871 ATTTTTTGAATGAGAA-CTTTTGAAATTTT-AGATGTGAAATACTAAA
1 TTTTTTTGAATGAGAATC-TTTGAAATTTTGA-ATGTG-AATCCTAAA
* * * *
13069917 -GTTTTTCAAGTGTGGATCTTTGAAATTTTGAATGTGAATTCCTAAA
1 TTTTTTTGAA-TGAGAATCTTTGAAATTTTGAATGTGAA-TCCTAAA
* * * *
13069963 TTTTTTTGAATGAAAATCTTT-AACTTTTAAATGTGAATCTTTAAA
1 TTTTTTTGAATGAGAATCTTTGAAATTTTGAATGTGAATC-CTAAA
13070008 TTTTTTTGACA-GAGAATCTTTG-AATTTTG
1 TTTTTTTGA-ATGAGAATCTTTGAAATTTTG
13070037 GATATGAGCC
Statistics
Matches: 197, Mismatches: 39, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
44 7 0.04
45 86 0.44
46 89 0.45
47 13 0.07
48 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (45 bp):
TTTTTTTGAATGAGAATCTTTGAAATTTTGAATGTGAATCCTAAA
Found at i:13069995 original size:21 final size:21
Alignment explanation
Indices: 13069966--13070011 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13069956 TCCTAAATTT
* *
13069966 TTTTGAATGAAAATCTTTAAC
1 TTTTAAATGAAAATCTTTAAA
**
13069987 TTTTAAATGTGAATCTTTAAA
1 TTTTAAATGAAAATCTTTAAA
13070008 TTTT
1 TTTT
13070012 TTTGACAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (21 bp):
TTTTAAATGAAAATCTTTAAA
Found at i:13070243 original size:16 final size:16
Alignment explanation
Indices: 13070169--13070249 Score: 56
Period size: 17 Copynumber: 4.9 Consensus size: 16
13070159 CTAATGTTCA
* *
13070169 AATTCTTACGAATATG
1 AATTCTTACAAATCTG
* *
13070185 AAATTCTTGCAAATCTA
1 -AATTCTTACAAATCTG
* *
13070202 AAGTTTTTGCAAA-CTTG
1 AA-TTCTTACAAATC-TG
13070219 AATTTCTTACAAATCTG
1 AA-TTCTTACAAATCTG
*
13070236 AATTCTTACGAATC
1 AATTCTTACAAATC
13070250 AGAGTTCTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
16 14 0.27
17 36 0.71
18 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (16 bp):
AATTCTTACAAATCTG
Found at i:13070416 original size:16 final size:17
Alignment explanation
Indices: 13070358--13070416 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
13070348 TTCTTGCAAA
* *
13070358 CTTATAATTCCTGTGAAC
1 CTTA-AATTCTTGTGAAT
*
13070376 CTTAAGTTCTTGTGAAT
1 CTTAAATTCTTGTGAAT
13070393 CTTAAATTCTTGTGAAT
1 CTTAAATTCTTGTGAAT
13070410 C-TAAATT
1 CTTAAATT
13070417 ATTACGAGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.16
17 27 0.73
18 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (17 bp):
CTTAAATTCTTGTGAAT
Found at i:13070504 original size:33 final size:34
Alignment explanation
Indices: 13070451--13070515 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
13070441 ATATGAAAAC
* *
13070451 CTTGCGAATCTTCCATTTTTTGTGATTCTGAATT
1 CTTGCAAATCTTCCATTTTTTGTGAATCTGAATT
*
13070485 CTTGCAAATCTTTCA-TTTTTGTGAATCTGAA
1 CTTGCAAATCTTCCATTTTTTGTGAATCTGAA
13070516 AGTCTTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (34 bp):
CTTGCAAATCTTCCATTTTTTGTGAATCTGAATT
Found at i:13070527 original size:34 final size:34
Alignment explanation
Indices: 13070457--13070527 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
13070447 AAACCTTGCG
* * *
13070457 AATCTTCCATTTTTTGTGATTCTGAATTCTTGCA
1 AATCTTCCATTTTTTGTGAATCTGAAGTCTTACA
*
13070491 AATCTTTCA-TTTTTGTGAATCTGAAAGTCTTACA
1 AATCTTCCATTTTTTGTGAATCTG-AAGTCTTACA
13070525 AAT
1 AAT
13070528 ATTTTAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.46
Consensus pattern (34 bp):
AATCTTCCATTTTTTGTGAATCTGAAGTCTTACA
Found at i:13071189 original size:18 final size:19
Alignment explanation
Indices: 13071166--13071208 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
13071156 AAACCCAAAA
*
13071166 TTTTAATTTTGATTTTA-G
1 TTTTAATTTTGATTTAATG
13071184 TTTTAA-TTTGATTTAATG
1 TTTTAATTTTGATTTAATG
13071202 TTTTAAT
1 TTTTAAT
13071209 AGTAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTTAATTTTGATTTAATG
Found at i:13071995 original size:13 final size:13
Alignment explanation
Indices: 13071979--13072022 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
13071969 TTTAATTACA
13071979 GTTTTTATTTAAT
1 GTTTTTATTTAAT
*
13071992 GTTTTTGTTTAACT
1 GTTTTTATTTAA-T
* *
13072006 ATTTTTATTTAAA
1 GTTTTTATTTAAT
13072019 GTTT
1 GTTT
13072023 CCGTTTAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (13 bp):
GTTTTTATTTAAT
Found at i:13072011 original size:27 final size:27
Alignment explanation
Indices: 13071980--13072031 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13071970 TTAATTACAG
* **
13071980 TTTTTATTTAATGTTTTTGTTTAACTA
1 TTTTTATTTAAAGTTTCCGTTTAACTA
13072007 TTTTTATTTAAAGTTTCCGTTTAAC
1 TTTTTATTTAAAGTTTCCGTTTAAC
13072032 AATTAACGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (27 bp):
TTTTTATTTAAAGTTTCCGTTTAACTA
Found at i:13078657 original size:18 final size:18
Alignment explanation
Indices: 13078634--13078676 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13078624 ATGGTATGTA
13078634 CTGGGCTGAAAGGATATG
1 CTGGGCTGAAAGGATATG
**
13078652 CTGGGCTGGGAGGATATG
1 CTGGGCTGAAAGGATATG
*
13078670 CAGGGCT
1 CTGGGCT
13078677 ACTGGCATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.21
Consensus pattern (18 bp):
CTGGGCTGAAAGGATATG
Found at i:13079836 original size:13 final size:13
Alignment explanation
Indices: 13079818--13079842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13079808 GCCTATGAAA
13079818 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
13079831 TCTTTTTTTTTT
1 TCTTTTTTTTTT
13079843 TTTTTGGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:13084990 original size:17 final size:16
Alignment explanation
Indices: 13084951--13084988 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
13084941 TTATAACTAC
13084951 TTTTTTAGATTAATAA
1 TTTTTTAGATTAATAA
*
13084967 TTTTTTATATTAATAA
1 TTTTTTAGATTAATAA
13084983 TTTTTT
1 TTTTTT
13084989 TACCTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTTTAGATTAATAA
Found at i:13085262 original size:9 final size:8
Alignment explanation
Indices: 13085263--13085368 Score: 54
Period size: 9 Copynumber: 12.5 Consensus size: 8
13085253 AAATTCTAAA
*
13085263 AAAAATCT
1 AAAAATTT
*
13085271 AAAAA-TG
1 AAAAATTT
*
13085278 AAATATTTT
1 AAAAAT-TT
*
13085287 AAAATTTAT
1 AAAAATT-T
13085296 AAAAATTT
1 AAAAATTT
*
13085304 AAAAAATAT
1 -AAAAATTT
13085313 AAAATATTTTT
1 AAAA-A--TTT
*
13085324 AGAAATTAT
1 AAAAATT-T
13085333 AAAAATTT
1 AAAAATTT
13085341 AAAAATTAT
1 AAAAATT-T
* *
13085350 TAAAACTT
1 AAAAATTT
13085358 AAAAA-TT
1 AAAAATTT
13085365 AAAA
1 AAAA
13085369 GAAAACTCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
7 10 0.13
8 26 0.35
9 33 0.44
10 1 0.01
11 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (8 bp):
AAAAATTT
Found at i:13085306 original size:17 final size:17
Alignment explanation
Indices: 13085284--13085365 Score: 92
Period size: 17 Copynumber: 4.6 Consensus size: 17
13085274 AATGAAATAT
*
13085284 TTTAAAATTTATAAAAA
1 TTTAAAAATTATAAAAA
*
13085301 TTTAAAAAATATAAAATA
1 TTTAAAAATTATAAAA-A
*
13085319 TTTTTAGAAATTATAAAAA
1 --TTTAAAAATTATAAAAA
*
13085338 TTTAAAAATTATTAAAA
1 TTTAAAAATTATAAAAA
*
13085355 CTTAAAAATTA
1 TTTAAAAATTA
13085366 AAAGAAAACT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
17 39 0.71
18 1 0.02
19 1 0.02
20 14 0.25
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
TTTAAAAATTATAAAAA
Found at i:13085333 original size:37 final size:37
Alignment explanation
Indices: 13085278--13085354 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
13085268 TCTAAAAATG
13085278 AAATATTTTAAAATTTATAAAAATTTAAAAAATA-TA
1 AAATATTTTAAAATTTATAAAAATTTAAAAAATATTA
*
13085314 AAATATTTTTAGAAA-TTATAAAAATTTAAAAATTATTA
1 AAATA-TTTTA-AAATTTATAAAAATTTAAAAAATATTA
13085352 AAA
1 AAA
13085355 CTTAAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 5 0.14
37 24 0.65
38 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (37 bp):
AAATATTTTAAAATTTATAAAAATTTAAAAAATATTA
Found at i:13085440 original size:20 final size:19
Alignment explanation
Indices: 13085407--13085445 Score: 69
Period size: 19 Copynumber: 2.0 Consensus size: 19
13085397 AAAAAATTCT
13085407 AAAATTTTCAAAAAATAAA
1 AAAATTTTCAAAAAATAAA
13085426 AAAATTTTCATAAAAATAAA
1 AAAATTTTCA-AAAAATAAA
13085446 TTTTTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATTTTCAAAAAATAAA
Found at i:13085456 original size:17 final size:17
Alignment explanation
Indices: 13085430--13085463 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13085420 AATAAAAAAA
13085430 TTTTCATAAAAATAAAT
1 TTTTCATAAAAATAAAT
* *
13085447 TTTTCTTAAAATTAAAT
1 TTTTCATAAAAATAAAT
13085464 AAAAGATTCA
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:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTCATAAAAATAAAT
Found at i:13085584 original size:10 final size:10
Alignment explanation
Indices: 13085499--13085611 Score: 51
Period size: 10 Copynumber: 11.9 Consensus size: 10
13085489 ATCTAAAATT
13085499 TTTTAAAAAA
1 TTTTAAAAAA
*
13085509 TTTT-TAAAA
1 TTTTAAAAAA
*
13085518 --TTAAAATA
1 TTTTAAAAAA
*
13085526 -TCTAAAAAA
1 TTTTAAAAAA
*
13085535 TTTTTAAAAA
1 TTTTAAAAAA
** *
13085545 TTCCAAAAAC
1 TTTTAAAAAA
**
13085555 TAATAAAAAA
1 TTTTAAAAAA
*
13085565 TTATT-TAAAA
1 TT-TTAAAAAA
13085575 TTTTAAAAAA
1 TTTTAAAAAA
*
13085585 TTCTAAAAAA
1 TTTTAAAAAA
*
13085595 --GTAAAAAA
1 TTTTAAAAAA
*
13085603 TTTCAAAAA
1 TTTTAAAAA
13085612 TCTAAAGTCA
Statistics
Matches: 73, Mismatches: 23, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
7 2 0.03
8 10 0.14
9 12 0.16
10 48 0.66
11 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:13085592 original size:30 final size:29
Alignment explanation
Indices: 13085502--13085594 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
13085492 TAAAATTTTT
*
13085502 TAAAAAATTTTTAAAA--TTAAAATA-TC
1 TAAAAAATTTTTAAAATTTTAAAAAATTC
** * **
13085528 TAAAAAATTTTTAAAAATTCCAAAAACTAA
1 TAAAAAATTTTT-AAAATTTTAAAAAATTC
13085558 TAAAAAATTATTTAAAATTTTAAAAAATTC
1 TAAAAAATT-TTTAAAATTTTAAAAAATTC
13085588 TAAAAAA
1 TAAAAAA
13085595 GTAAAAAATT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 12 0.24
27 4 0.08
29 4 0.08
30 28 0.55
31 3 0.06
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAAAAATTTTTAAAATTTTAAAAAATTC
Found at i:13087192 original size:20 final size:21
Alignment explanation
Indices: 13087153--13087200 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13087143 TACAACAATT
*
13087153 TTTAAAAATAATTGTTTAAAA
1 TTTAAAAATAATTATTTAAAA
* *
13087174 TTTAATAAT-ATTATTTAAAT
1 TTTAAAAATAATTATTTAAAA
13087194 TTTAAAA
1 TTTAAAA
13087201 CTATTTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTAAAAATAATTATTTAAAA
Found at i:13087277 original size:226 final size:224
Alignment explanation
Indices: 13086864--13087316 Score: 708
Period size: 226 Copynumber: 2.0 Consensus size: 224
13086854 TTTACCTTTG
* * *
13086864 AAATTGATTATAAAATCCTTTGAATGAGAATTGACATTTTTTCATTGAACCCTTTGACAACAATT
1 AAATTGATTATAAAATCCTGTGAATGAGAATTGACATTTTCTCATTAAACCCTTTGACAACAATT
* * *
13086929 TTTTAAAATAATTATTTAAATTTAAATTTTTATTTAAATTTTAAAACTATTTCATTTCAACTTTA
66 TTTAAAAATAATTATTTAAATTTAAAATATTATTTAAATTTTAAAACTATTTCATTTCAACTTTA
*** * * *
13086994 TTGTAACACAATTTTGTATCAAATCTAAAGCTTAAAACAAGTATAAAAATTAATTTGTCAAATCT
131 CAATAACACAATTTTATATCAAATATAAAGCTTAAAACAAGTATAAAAATTAATTTGTCAAATCC
13087059 TATAGATATTGAAAATCAAGATATTATTA
196 TATAGATATTGAAAATCAAGATATTATTA
*
13087088 AAATTGATTATAAAATCCTGTGAATGAGAATTGACATTTTCTCATTAAACCCTTTTACAACAATT
1 AAATTGATTATAAAATCCTGTGAATGAGAATTGACATTTTCTCATTAAACCCTTTGACAACAATT
*
13087153 TTTAAAAATAATTGTTTAAAATTTAATAATATTATTTAAATTTTAAAACTATTTCATTTCAACTT
66 TTTAAAAATAATTATTT-AAATTTAA-AATATTATTTAAATTTTAAAACTATTTCATTTCAACTT
* * * * *
13087218 TACAATAACTCAATTTTATATCAATTATAAAGCTTAAAATAAGTATGAAAATTAATTTGTTAAAT
129 TACAATAACACAATTTTATATCAAATATAAAGCTTAAAACAAGTATAAAAATTAATTTGTCAAAT
*
13087283 CCTATAGATGTTGAAAATCAAGATATTATTA
194 CCTATAGATATTGAAAATCAAGATATTATTA
13087314 AAA
1 AAA
13087317 CTCATGCAAA
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
224 76 0.37
225 8 0.04
226 123 0.59
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (224 bp):
AAATTGATTATAAAATCCTGTGAATGAGAATTGACATTTTCTCATTAAACCCTTTGACAACAATT
TTTAAAAATAATTATTTAAATTTAAAATATTATTTAAATTTTAAAACTATTTCATTTCAACTTTA
CAATAACACAATTTTATATCAAATATAAAGCTTAAAACAAGTATAAAAATTAATTTGTCAAATCC
TATAGATATTGAAAATCAAGATATTATTA
Found at i:13088194 original size:36 final size:36
Alignment explanation
Indices: 13088147--13088217 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
13088137 TAATTTTTTA
13088147 AGTTTTCAAAATTTTTAAAAT-TGTTAAAAATATTTC
1 AGTTTTCAAAATTTTTAAAATCT-TTAAAAATATTTC
* * *
13088183 AGTTTTTAAAATTTTTATAATCTTTTAAAATATTT
1 AGTTTTCAAAATTTTTAAAATCTTTAAAAATATTT
13088218 TAAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (36 bp):
AGTTTTCAAAATTTTTAAAATCTTTAAAAATATTTC
Found at i:13088199 original size:9 final size:9
Alignment explanation
Indices: 13088138--13088234 Score: 79
Period size: 9 Copynumber: 10.6 Consensus size: 9
13088128 TGATTTTTTT
*
13088138 AATTTTTTA
1 AATTTTTAA
* *
13088147 AGTTTTCAA
1 AATTTTTAA
13088156 AATTTTTAA
1 AATTTTTAA
*
13088165 AATTGTTAAA
1 AATT-TTTAA
* *
13088175 AATATTT-C
1 AATTTTTAA
*
13088183 AGTTTTTAA
1 AATTTTTAA
*
13088192 AATTTTTAT
1 AATTTTTAA
13088201 AATCTTTTAA
1 AAT-TTTTAA
13088211 AATATTTTAA
1 AAT-TTTTAA
*
13088221 ATTTTTTAA
1 AATTTTTAA
13088230 AATTT
1 AATTT
13088235 AAAAAAAAAT
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
8 5 0.07
9 39 0.58
10 23 0.34
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (9 bp):
AATTTTTAA
Found at i:13088210 original size:19 final size:18
Alignment explanation
Indices: 13088186--13088234 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
13088176 ATATTTCAGT
13088186 TTTTAAAATTTTTATAATC
1 TTTTAAAATTTTTA-AATC
*
13088205 TTTTAAAATATTTTAAATT
1 TTTTAAAAT-TTTTAAATC
13088224 TTTTAAAATTT
1 TTTTAAAATTT
13088235 AAAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 21 0.75
20 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAAATTTTTAAATC
Found at i:13090114 original size:8 final size:9
Alignment explanation
Indices: 13090089--13090113 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13090079 TATGATTAAG
13090089 AAATTTTTA
1 AAATTTTTA
13090098 AAATTTTTA
1 AAATTTTTA
13090107 AAATTTT
1 AAATTTT
13090114 AGGATTAAGA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:13092768 original size:50 final size:50
Alignment explanation
Indices: 13092690--13092784 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
13092680 TCATCCACAT
*
13092690 ATTCAGTAATAGCCAATTCACGACCAACATCAGCTCCATCAATGTATTTA
1 ATTCAATAATAGCCAATTCACGACCAACATCAGCTCCATCAATGTATTTA
** *
13092740 ATTCAATAATAGCCAATTCATTATCAACATCAGCTCCATCAATGT
1 ATTCAATAATAGCCAATTCACGACCAACATCAGCTCCATCAATGT
13092785 CCTCAATGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.29
Consensus pattern (50 bp):
ATTCAATAATAGCCAATTCACGACCAACATCAGCTCCATCAATGTATTTA
Found at i:13093540 original size:16 final size:17
Alignment explanation
Indices: 13093509--13093541 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13093499 TAATCTTAAC
13093509 TTTTAAAATTTTAAATAT
1 TTTTAAAA-TTTAAATAT
13093527 TTTTAAAA-TTAAATA
1 TTTTAAAATTTAAATA
13093542 ATTAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAAAATTTAAATAT
Found at i:13097835 original size:67 final size:67
Alignment explanation
Indices: 13097689--13097812 Score: 173
Period size: 67 Copynumber: 1.9 Consensus size: 67
13097679 AACAATCTAG
* * *
13097689 ATCATG-TTTTTTTTTTTATTCGCAGTTTGATCCCAATCACCCATTTTTTATCTTAACTCAGTCC
1 ATCATGTTTTTTTTTTTTACTCACAGTTTGATCCCAATCACCCATTTTTTATCTCAACTCAGTCC
13097753 AA
66 AA
* *
13097755 ATCATGTTTTTTTTTTTTACTCAC-GATTTGATCCCGATCATCC-TTTTTTATCTCAACT
1 ATCATGTTTTTTTTTTTTACTCACAG-TTTGATCCCAATCACCCATTTTTTATCTCAACT
13097813 TGATCTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
66 21 0.41
67 30 0.59
ACGTcount: A:0.21, C:0.23, G:0.07, T:0.49
Consensus pattern (67 bp):
ATCATGTTTTTTTTTTTTACTCACAGTTTGATCCCAATCACCCATTTTTTATCTCAACTCAGTCC
AA
Done.