Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 65 of 77
Found at i:12988700 original size:26 final size:29
Alignment explanation
Indices: 12988633--12988701 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 29
12988623 TTTTTATTAT
*
12988633 TTATTTTTTTTTATTTATTTTCATTTTTA
1 TTATTTTTTTTTATTTATTATCATTTTTA
*
12988662 TTCTTTTTATTTTA-TT-TTATCA-TTTTA
1 TTATTTTT-TTTTATTTATTATCATTTTTA
12988689 TTATTTTTTTTTA
1 TTATTTTTTTTTA
12988702 ATAAAATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.14
27 12 0.33
28 5 0.14
29 9 0.25
30 5 0.14
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (29 bp):
TTATTTTTTTTTATTTATTATCATTTTTA
Found at i:12991465 original size:20 final size:20
Alignment explanation
Indices: 12991431--12991469 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12991421 CTATATTACC
12991431 TTATATTTATAATATTTTTA
1 TTATATTTATAATATTTTTA
12991451 TTAT-TTTATACATATTTTT
1 TTATATTTATA-ATATTTTT
12991470 TTTAGACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATTTATAATATTTTTA
Found at i:13000443 original size:21 final size:20
Alignment explanation
Indices: 13000386--13000443 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
13000376 ACTATTATTA
*
13000386 TTACTTTTATTTTTTTCTTGT
1 TTACTTTT-TTTTTTTCCTGT
* *
13000407 TTCCTTTTTCTATTTTCCTGTT
1 TTACTTTTT-TTTTTTCCTG-T
13000429 TTACTTTTTTTTTTT
1 TTACTTTTTTTTTTT
13000444 ATTTCAATCC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.03
21 20 0.67
22 9 0.30
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (20 bp):
TTACTTTTTTTTTTTCCTGT
Found at i:13000743 original size:20 final size:21
Alignment explanation
Indices: 13000708--13000747 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13000698 TAGGCAAAAA
13000708 GGGTTCTAACAGTTCAATTTT
1 GGGTTCTAACAGTTCAATTTT
*
13000729 GGGTTCT-AGAGTTCAATTT
1 GGGTTCTAACAGTTCAATTT
13000748 GGAATTGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (21 bp):
GGGTTCTAACAGTTCAATTTT
Found at i:13001288 original size:19 final size:19
Alignment explanation
Indices: 13001262--13001307 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
13001252 GCAGTTTTTC
13001262 TTTTTTTTCATTTTATTT-
1 TTTTTTTTCATTTTATTTA
*
13001280 TTATTTTTTGATTTTATTTA
1 TT-TTTTTTCATTTTATTTA
13001300 TTTTTTTT
1 TTTTTTTT
13001308 ACCTATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTTTCATTTTATTTA
Found at i:13001425 original size:23 final size:22
Alignment explanation
Indices: 13001399--13001456 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
13001389 AGAAAAAATT
13001399 AAAAAAGAAAAAATCAA-G-TAA
1 AAAAAAGAAAAAAT-AATGCTAA
13001420 AAAAAAGAAAAAAATAATGCTAA
1 AAAAAAG-AAAAAATAATGCTAA
13001443 AAAAAAGAAAAAAT
1 AAAAAAGAAAAAAT
13001457 GATACATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.26
22 15 0.44
23 10 0.29
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (22 bp):
AAAAAAGAAAAAATAATGCTAA
Found at i:13001466 original size:23 final size:22
Alignment explanation
Indices: 13001399--13001466 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
13001389 AGAAAAAATT
* *
13001399 AAAAAAGAAAAAATCA-AGTAA
1 AAAAAAGAAAAAATAATACTAA
*
13001420 AAAAAAGAAAAAAATAATGCTAA
1 AAAAAAG-AAAAAATAATACTAA
*
13001443 AAAAAAGAAAAAATGATACATAA
1 AAAAAAGAAAAAATAATAC-TAA
13001466 A
1 A
13001467 TAAATAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 7 0.18
22 18 0.46
23 14 0.36
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAAAAGAAAAAATAATACTAA
Found at i:13001516 original size:22 final size:21
Alignment explanation
Indices: 13001491--13001531 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
13001481 AAATCATTTC
13001491 AATAAA-AAAATATATATTTTTA
1 AATAAACAAAA-ATA-ATTTTTA
13001513 AATAAACAAAAATAATTTT
1 AATAAACAAAAATAATTTT
13001532 CATCATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 9 0.50
23 4 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAACAAAAATAATTTTTA
Found at i:13012900 original size:25 final size:25
Alignment explanation
Indices: 13012851--13012900 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13012841 CATTAGACTT
* * *
13012851 ACGACATCATCCCAGTCATTTGATC
1 ACGACATCATCCCAATCACTCGATC
*
13012876 ACGACATTATCCCAATCACTCGATC
1 ACGACATCATCCCAATCACTCGATC
13012901 TTAGCTCAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.34, G:0.10, T:0.26
Consensus pattern (25 bp):
ACGACATCATCCCAATCACTCGATC
Found at i:13013160 original size:6 final size:6
Alignment explanation
Indices: 13013149--13013189 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
13013139 GGATAGCTTA
* *
13013149 TTTTAT TTTTAT TATTAT TTTTTT ATTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTT
13013190 TCTCTTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:13013171 original size:14 final size:13
Alignment explanation
Indices: 13013146--13013183 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13013136 AGTGGATAGC
13013146 TTATTTTA--TTT
1 TTATTTTATTTTT
13013157 TTATTATTATTTTT
1 TTATT-TTATTTTT
13013171 TTATTTTATTTTT
1 TTATTTTATTTTT
13013184 ATTTTTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 3 0.12
13 8 0.33
14 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:13013177 original size:19 final size:20
Alignment explanation
Indices: 13013149--13013190 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
13013139 GGATAGCTTA
13013149 TTTTATTTTTATTATTATTT
1 TTTTATTTTTATTATTATTT
*
13013169 TTTTA-TTTTATTTTTATTT
1 TTTTATTTTTATTATTATTT
13013188 TTT
1 TTT
13013191 CTCTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTATTTTTATTATTATTT
Found at i:13013219 original size:22 final size:20
Alignment explanation
Indices: 13013166--13013235 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 20
13013156 TTTATTATTA
* *
13013166 TTTTTT-TATTTTATTTTTA
1 TTTTTTCTATTTTCTTTTTT
*
13013185 TTTTTTCTCTTTTCTTTTTT
1 TTTTTTCTATTTTCTTTTTT
13013205 TTGTTTTCCTATTTTACTATTTTT
1 TT-TTTT-CTATTTT-CT-TTTTT
13013229 CTTTTTT
1 -TTTTTT
13013236 TTTTTTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.15
20 12 0.29
21 4 0.10
22 6 0.15
23 2 0.05
24 9 0.22
25 2 0.05
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.80
Consensus pattern (20 bp):
TTTTTTCTATTTTCTTTTTT
Found at i:13014033 original size:5 final size:5
Alignment explanation
Indices: 13014027--13014063 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
13014017 ATCGCAAGTT
*
13014027 TTTTT TTTTA -TTT- TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
13014064 TTACCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
4 6 0.21
5 23 0.79
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTA
Found at i:13014166 original size:16 final size:16
Alignment explanation
Indices: 13014141--13014171 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13014131 TTTCCAAAAG
*
13014141 AAAAATAAAAAATAAA
1 AAAAAGAAAAAATAAA
13014157 AAAAAGAAAAAATAA
1 AAAAAGAAAAAATAA
13014172 TAATGCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAGAAAAAATAAA
Found at i:13015142 original size:2 final size:2
Alignment explanation
Indices: 13015135--13015177 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13015125 ACATGCACAA
13015135 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13015177 A
1 A
13015178 ACGAACAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13018939 original size:25 final size:25
Alignment explanation
Indices: 13018910--13018959 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13018900 TATTAGGAAA
13018910 TATATCATACATGCATATACAATAT
1 TATATCATACATGCATATACAATAT
13018935 TATATCATACATGCATATACAATAT
1 TATATCATACATGCATATACAATAT
13018960 CCATATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (25 bp):
TATATCATACATGCATATACAATAT
Found at i:13020518 original size:18 final size:19
Alignment explanation
Indices: 13020488--13020546 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
13020478 CCGGATTTTC
*
13020488 CTCC-AAGTTCAAGTTCTG
1 CTCCAAAGTCCAAGTTCTG
13020506 C-CCAAAGTCCAAGTTCTG
1 CTCCAAAGTCCAAGTTCTG
*
13020524 CTCC-AAGTTCACA-TTCTG
1 CTCCAAAGTCCA-AGTTCTG
13020542 CTCCA
1 CTCCA
13020547 GGTTCAAGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 30 0.86
19 3 0.09
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (19 bp):
CTCCAAAGTCCAAGTTCTG
Found at i:13029546 original size:28 final size:25
Alignment explanation
Indices: 13029491--13029547 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
13029481 CTAATTAATC
* *
13029491 TAAAATAATAATTTATACTATTTAA
1 TAAAAAAATAATTTATACTATATAA
*
13029516 TAAAAAAATTATTTACTAACTATATATA
1 TAAAAAAATAATTTA-T-ACTATATA-A
13029544 TAAA
1 TAAA
13029548 TATTGATAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 13 0.50
26 1 0.04
27 7 0.27
28 5 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAAAAATAATTTATACTATATAA
Found at i:13032536 original size:34 final size:34
Alignment explanation
Indices: 13032484--13032623 Score: 140
Period size: 34 Copynumber: 4.0 Consensus size: 34
13032474 AATTTTTAAA
* *
13032484 TTTTCAAAAATA-ATTTTTTAAAAATTTATATGATT
1 TTTTCAAAAATAGA-TTTTTAAAAAATTATA-AATT
*
13032519 TTTT-AGAAATAGATTTTTAAAAAATTATAAATT
1 TTTTCAAAAATAGATTTTTAAAAAATTATAAATT
* * *
13032552 TTTTCAAAAATAGATTTTTGAAAAGTTATAAAAT
1 TTTTCAAAAATAGATTTTTAAAAAATTATAAATT
** *
13032586 TTTTCAAAAATTTATTTTCAAACAAATTTATAATATT
1 TTTTCAAAAATAGATTTTTAAA-AAA-TTATAA-ATT
13032623 T
1 T
13032624 AGAAAATTCA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
33 7 0.08
34 64 0.74
35 7 0.08
36 6 0.07
37 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (34 bp):
TTTTCAAAAATAGATTTTTAAAAAATTATAAATT
Found at i:13032560 original size:19 final size:18
Alignment explanation
Indices: 13032531--13032597 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
13032521 TTAGAAATAG
*
13032531 ATTTTTAAAAAATTATAA
1 ATTTTTCAAAAATTATAA
*
13032549 ATTTTTTC-AAAA--ATAG
1 A-TTTTTCAAAAATTATAA
* *
13032565 ATTTTTGAAAAGTTATAAA
1 ATTTTTCAAAAATTAT-AA
13032584 ATTTTTCAAAAATT
1 ATTTTTCAAAAATT
13032598 TATTTTCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
18 7 0.19
19 18 0.49
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (18 bp):
ATTTTTCAAAAATTATAA
Found at i:13032603 original size:68 final size:71
Alignment explanation
Indices: 13032484--13032623 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 71
13032474 AATTTTTAAA
* ** * * *
13032484 TTTTCAAAAATAATTTTTTAAAAATTTATATGATTTTTTAGAAATAGATTTTTAAA-AAA-TTAT
1 TTTTCAAAAATAATTTTTTAAAAAGTTATAAAATTTTTCAAAAATAGATTTTCAAACAAATTTAT
13032547 AA-ATT
66 AATATT
* **
13032552 TTTTCAAAAATAGA-TTTTTGAAAAGTTATAAAATTTTTCAAAAATTTATTTTCAAACAAATTTA
1 TTTTCAAAAATA-ATTTTTTAAAAAGTTATAAAATTTTTCAAAAATAGATTTTCAAACAAATTTA
13032616 TAATATT
65 TAATATT
13032623 T
1 T
13032624 AGAAAATTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
68 45 0.76
69 4 0.07
70 6 0.10
71 4 0.07
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (71 bp):
TTTTCAAAAATAATTTTTTAAAAAGTTATAAAATTTTTCAAAAATAGATTTTCAAACAAATTTAT
AATATT
Found at i:13032630 original size:34 final size:33
Alignment explanation
Indices: 13032583--13032710 Score: 125
Period size: 34 Copynumber: 3.8 Consensus size: 33
13032573 AAAGTTATAA
* *
13032583 AATTTTTCAAAAATTTATTTTCAAACAAATTTAT
1 AATTTTT-GAAAATTTATTTTCAAAAAAATTTAT
* *
13032617 AATATTTAGAAAATTCATTTT-AAAAAAATTATAT
1 AAT-TTTTGAAAATTTATTTTCAAAAAAATT-TAT
* * *
13032651 GATTTTTG-AATTTTATTTTTGAAAAAAATTTAT
1 AATTTTTGAAAATTTA-TTTTCAAAAAAATTTAT
13032684 AATTTTTTTGAAAATTTATTTTCAAAA
1 AA--TTTTTGAAAATTTATTTTCAAAA
13032711 TTTTGTGTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
32 5 0.07
33 20 0.26
34 28 0.37
35 17 0.22
36 6 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (33 bp):
AATTTTTGAAAATTTATTTTCAAAAAAATTTAT
Found at i:13032649 original size:68 final size:68
Alignment explanation
Indices: 13032572--13032710 Score: 147
Period size: 68 Copynumber: 2.0 Consensus size: 68
13032562 TAGATTTTTG
* *
13032572 AAAAGTTATAAAATTTTTCAAAAATTTA-TTTTCAAACAAATTTATAA-TATTTAGAAAATTCAT
1 AAAAATTATAAAATTTTT--AAAATTTATTTTTCAAAAAAATTTATAATTATTTAGAAAATTCAT
13032635 TTTAA
64 TTTAA
** * * * * * *
13032640 AAAAATTATATGATTTTTGAATTTTATTTTTGAAAAAAATTTATAATTTTTTTGAAAATTTATTT
1 AAAAATTATAAAATTTTTAAAATTTATTTTTCAAAAAAATTTATAATTATTTAGAAAATTCATTT
*
13032705 TCA
66 TAA
13032708 AAA
1 AAA
13032711 TTTTGTGTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
66 6 0.10
67 17 0.29
68 35 0.60
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (68 bp):
AAAAATTATAAAATTTTTAAAATTTATTTTTCAAAAAAATTTATAATTATTTAGAAAATTCATTT
TAA
Found at i:13034300 original size:30 final size:30
Alignment explanation
Indices: 13034258--13034369 Score: 122
Period size: 30 Copynumber: 3.8 Consensus size: 30
13034248 ATTATTTATA
* *
13034258 TTAAAAATTTATTTAGATATAAATTAAAAT
1 TTAAGAATTTATTTAAATATAAATTAAAAT
* *
13034288 TTAAG-ATATTATTCAAATAT-AATTAAAAA
1 TTAAGAAT-TTATTTAAATATAAATTAAAAT
* * * *
13034317 TAAAAAATTTATTTAAACACAAATTAAAAT
1 TTAAGAATTTATTTAAATATAAATTAAAAT
13034347 TTAAGAATTTATTTAAATA-AAAT
1 TTAAGAATTTATTTAAATATAAAT
13034370 GAATAGTTGA
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
29 26 0.39
30 40 0.61
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
TTAAGAATTTATTTAAATATAAATTAAAAT
Found at i:13036066 original size:24 final size:24
Alignment explanation
Indices: 13036038--13036085 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13036028 TTCTTTCGTG
* *
13036038 TGGTAGTTAATGGTGGAGGAAACT
1 TGGTAGTTAATGGTGAACGAAACT
13036062 TGGTAGTTAATGGTGAACGAAACT
1 TGGTAGTTAATGGTGAACGAAACT
13036086 GGAAAGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.33, T:0.29
Consensus pattern (24 bp):
TGGTAGTTAATGGTGAACGAAACT
Found at i:13043339 original size:13 final size:13
Alignment explanation
Indices: 13043321--13043345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13043311 TGAATGGAAT
13043321 TTTTTATTTTTTA
1 TTTTTATTTTTTA
13043334 TTTTTATTTTTT
1 TTTTTATTTTTT
13043346 GGGTTTTACT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:13048071 original size:13 final size:13
Alignment explanation
Indices: 13048053--13048082 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13048043 GAGGGGGGTG
13048053 TGAGGTTGAAGTA
1 TGAGGTTGAAGTA
*
13048066 TGAGGTTGAAGTC
1 TGAGGTTGAAGTA
13048079 TGAG
1 TGAG
13048083 TTTGGGACTG
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:0.27, C:0.03, G:0.40, T:0.30
Consensus pattern (13 bp):
TGAGGTTGAAGTA
Found at i:13057287 original size:50 final size:50
Alignment explanation
Indices: 13057155--13057375 Score: 155
Period size: 50 Copynumber: 4.4 Consensus size: 50
13057145 GGTCTGGATA
* * * **
13057155 ACTTGTTC-TAGAATTGAAAAAATATGAACTTTTGCTTC-AAGGATCTTCGGTG
1 ACTTGTTCTTA-AATTGAAGAAATATGGAC-TTCGCTTCAAAGG-TCTT-AATG
* * * * *
13057207 ATTTGTTCTTGAATAGGAA-AAGTATGGACTTCG-TATCAAAGGTCTTAATA
1 ACTTGTTCTTAAAT-TGAAGAAATATGGACTTCGCT-TCAAAGGTCTTAATG
* * * *
13057257 ACTTATTCTTAAATTGAAGAAATATGGACTTTGCTTCAAAAGTCTTTGATG
1 ACTTGTTCTTAAATTGAAGAAATATGGACTTCGCTTCAAAGGTC-TTAATG
* ** * *
13057308 ATTTGTTCTTAAATTGAAGAGGTATAGATTTCGCTTC-AAGTGTCTTAATG
1 ACTTGTTCTTAAATTGAAGAAATATGGACTTCGCTTCAAAG-GTCTTAATG
*
13057358 ACTTGTTCTTTAATTGAA
1 ACTTGTTCTTAAATTGAA
13057376 TAAGTTTGGA
Statistics
Matches: 132, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
49 3 0.02
50 56 0.42
51 47 0.36
52 22 0.17
53 4 0.03
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (50 bp):
ACTTGTTCTTAAATTGAAGAAATATGGACTTCGCTTCAAAGGTCTTAATG
Found at i:13057344 original size:51 final size:50
Alignment explanation
Indices: 13057242--13057375 Score: 144
Period size: 51 Copynumber: 2.7 Consensus size: 50
13057232 GGACTTCGTA
* * * *
13057242 TCAAAGGTCTTAATAACTTATTCTTAAATTGAAGAAATATGGACTTTGCT
1 TCAAAAGTCTTAATGACTTGTTCTTAAATTGAAGAAATATAGACTTTGCT
* * **
13057292 TCAAAAGTCTTTGATGATTTGTTCTTAAATTGAAGAGGTATAGA-TTTCGCT
1 TCAAAAGTC-TTAATGACTTGTTCTTAAATTGAAGAAATATAGACTTT-GCT
** *
13057343 TCAAGTGTCTTAATGACTTGTTCTTTAATTGAA
1 TCAAAAGTCTTAATGACTTGTTCTTAAATTGAA
13057376 TAAGTTTGGA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 32 0.46
51 37 0.54
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (50 bp):
TCAAAAGTCTTAATGACTTGTTCTTAAATTGAAGAAATATAGACTTTGCT
Found at i:13057353 original size:101 final size:100
Alignment explanation
Indices: 13057099--13057375 Score: 283
Period size: 101 Copynumber: 2.7 Consensus size: 100
13057089 CGCTTTAAAT
* * ** **
13057099 TTTGATGATTTGATCTTGAATTAAAGAAGTATGGACTTTATTTCAAGGTCTGGATAACTTGTTC-
1 TTTGATGATTTGTTCTTGAATTGAAGAAGTATGGA-TTTCGTTCAAGGTCTTAATAACTTGTTCT
*
13057163 TAGAATTGAAAAAATATGAACTTTTGCTTCAAGGATC
65 TA-AATTGAAAAAATATGAACTTTTGCTTCAAAGATC
* * * * *
13057200 TTCGGTGATTTGTTCTTGAATAGGAA-AAGTATGGACTTCGTATCAAAGGTCTTAATAACTTATT
1 TTTGATGATTTGTTCTTGAAT-TGAAGAAGTATGGATTTCGT-TC-AAGGTCTTAATAACTTGTT
* *
13057264 CTTAAATTGAAGAAATATGGAC-TTTGCTTCAAA-AGTC
63 CTTAAATTGAAAAAATATGAACTTTTGCTTCAAAGA-TC
* * * *
13057301 TTTGATGATTTGTTCTTAAATTGAAGAGGTATAGATTTCGCTTCAAGTGTCTTAATGACTTGTTC
1 TTTGATGATTTGTTCTTGAATTGAAGAAGTATGGATTTCG-TTCAAG-GTCTTAATAACTTGTTC
*
13057366 TTTAATTGAA
64 TTAAATTGAA
13057376 TAAGTTTGGA
Statistics
Matches: 144, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
100 10 0.07
101 96 0.67
102 36 0.25
103 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (100 bp):
TTTGATGATTTGTTCTTGAATTGAAGAAGTATGGATTTCGTTCAAGGTCTTAATAACTTGTTCTT
AAATTGAAAAAATATGAACTTTTGCTTCAAAGATC
Found at i:13059998 original size:27 final size:25
Alignment explanation
Indices: 13059959--13060027 Score: 104
Period size: 27 Copynumber: 2.7 Consensus size: 25
13059949 GAGATTGAAA
*
13059959 ATAA-TAATAAAAATTATTATAATT
1 ATAATTAAAAAAAATTATTATAATT
13059983 ATAATTGAAAGAAAAATTATTATAATT
1 ATAATT-AAA-AAAAATTATTATAATT
13060010 ATAATTAAAAAAAATTAT
1 ATAATTAAAAAAAATTAT
13060028 AAAATAATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 4 0.10
25 10 0.24
26 5 0.12
27 22 0.54
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
ATAATTAAAAAAAATTATTATAATT
Found at i:13082265 original size:2 final size:2
Alignment explanation
Indices: 13082258--13082284 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13082248 CTGCTTGCAA
13082258 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13082285 GAAGGTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13085068 original size:20 final size:21
Alignment explanation
Indices: 13085021--13085073 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
13085011 ATGAAATGTT
*
13085021 AATTTTTTAA-TTTAATAATT
1 AATTTTTTAATTTTAATAATC
**
13085041 AAAATTTTAATTTTAATAA-C
1 AATTTTTTAATTTTAATAATC
*
13085061 AATTTTTTTATTT
1 AATTTTTTAATTT
13085074 ATTTTCAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTTTAATTTTAATAATC
Found at i:13085421 original size:15 final size:15
Alignment explanation
Indices: 13085386--13085415 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13085376 TCTTCATATG
13085386 ATAAA-ATAAAAATT
1 ATAAATATAAAAATT
13085400 ATAAATATAAAAATT
1 ATAAATATAAAAATT
13085415 A
1 A
13085416 CTAATACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATATAAAAATT
Found at i:13086329 original size:117 final size:118
Alignment explanation
Indices: 13086099--13086335 Score: 363
Period size: 117 Copynumber: 2.0 Consensus size: 118
13086089 TAAAAATCTT
**
13086099 AAAAAACCTCTTATTTAACTAAATTATTTGTCATTTTGTCCATAAGTGTGATAGCCATATATAGG
1 AAAAAACCTCACATTTAACTAAATTATTTGTCATTTTGTCCATAAGTGTGATAGCCATATATAGG
* *
13086164 TGACAAATATCACTCTGCTGCCAAATCTTGGGACGAAAAAATCATCAATGGTG
66 TGACAAATATCAATCCGCTGCCAAATCTTGGGACGAAAAAATCATCAATGGTG
*
13086217 AAAAAACCTCACATTTGACTAAATTATTTGTCATTTTGTCCAT-AGTTGTGATAGCCA-ATATAG
1 AAAAAACCTCACATTTAACTAAATTATTTGTCATTTTGTCCATAAG-TGTGATAGCCATATATAG
* * *
13086280 GTGACAAATATCAATCCGCTTCCCAATCTTGGGATC-AAAAAGTCATCAATGGTG
65 GTGACAAATATCAATCCGCTGCCAAATCTTGGGA-CGAAAAAATCATCAATGGTG
13086334 AA
1 AA
13086336 TTGATTTCTC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
117 57 0.52
118 52 0.48
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (118 bp):
AAAAAACCTCACATTTAACTAAATTATTTGTCATTTTGTCCATAAGTGTGATAGCCATATATAGG
TGACAAATATCAATCCGCTGCCAAATCTTGGGACGAAAAAATCATCAATGGTG
Found at i:13091635 original size:15 final size:15
Alignment explanation
Indices: 13091615--13091644 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13091605 CCATGTTATA
*
13091615 TTTAAATATGATAAT
1 TTTAAACATGATAAT
13091630 TTTAAACATGATAAT
1 TTTAAACATGATAAT
13091645 GTGACTGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
TTTAAACATGATAAT
Found at i:13092893 original size:115 final size:117
Alignment explanation
Indices: 13092665--13092899 Score: 348
Period size: 115 Copynumber: 2.0 Consensus size: 117
13092655 TAAAAATCTT
*
13092665 AAAAAACCTCATATTTAACTAAATTATTTGCCATTTTGTCCATAACTGTGATAGCCATATAAAGG
1 AAAAAACCTCATATTTAACTAAATTATTTGCCATTTTGTCCATAACTGTGA-ACCCATATAAAGG
* *
13092730 TGATAAATAGCAATCTGCTTCCGAATCTTGTGACCAAAAAATCATCAATGGTG
65 TGATAAATAGCAATCTACTTCCGAATCTTGGGACCAAAAAATCATCAATGGTG
* ** * *
13092783 AAAAAACCTCATATTTGACTAAATTATTTGTTATTTTGTCCATAATTGTG-ACCCA-ATATAGGT
1 AAAAAACCTCATATTTAACTAAATTATTTGCCATTTTGTCCATAACTGTGAACCCATATAAAGGT
* * *
13092846 GATAAATATCAATCTACTTCCGGATCTTGGGACCAAAAAGTCATCAATGGTG
66 GATAAATAGCAATCTACTTCCGAATCTTGGGACCAAAAAATCATCAATGGTG
13092898 AA
1 AA
13092900 TTGACTTCTC
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
115 56 0.53
116 4 0.04
118 46 0.43
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (117 bp):
AAAAAACCTCATATTTAACTAAATTATTTGCCATTTTGTCCATAACTGTGAACCCATATAAAGGT
GATAAATAGCAATCTACTTCCGAATCTTGGGACCAAAAAATCATCAATGGTG
Found at i:13096740 original size:100 final size:98
Alignment explanation
Indices: 13096536--13096721 Score: 223
Period size: 100 Copynumber: 1.9 Consensus size: 98
13096526 ATGAAAATTT
* * * *
13096536 TAAAATAAAATCTTAAATTCTATATAATTTAAATATCGATCAGCTTAGGGATCACATTAATAATT
1 TAAAATAAAATCTTAAATTATATACAATTTAAATATCGATCAGCTTAGGGACCACATTAATAATA
* *
13096601 ATTATTATATATCTTAAAATTAAAGTTCAAACTGA
66 ATTATTATATATCTT--AACTAAAGTACAAACTGA
* * * *
13096636 TAAAATGAAATCTTAAATTATATACCATTTAAATATCGATCCA-TTTGGGGACCACATTAATAAT
1 TAAAATAAAATCTTAAATTATATACAATTTAAATATCGAT-CAGCTTAGGGACCACATTAATAAT
* *
13096700 AATTGTTATATATGTT-ACTAAA
65 AATTATTATATATCTTAACTAAA
13096722 TACTAACCAC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
97 5 0.07
100 67 0.91
101 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (98 bp):
TAAAATAAAATCTTAAATTATATACAATTTAAATATCGATCAGCTTAGGGACCACATTAATAATA
ATTATTATATATCTTAACTAAAGTACAAACTGA
Found at i:13097014 original size:12 final size:12
Alignment explanation
Indices: 13096997--13097028 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
13096987 CTAGTGAAAA
13096997 TGGCATTGACAT
1 TGGCATTGACAT
13097009 TGGCATTGACAT
1 TGGCATTGACAT
13097021 TGGCATTG
1 TGGCATTG
13097029 CCAAGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (12 bp):
TGGCATTGACAT
Found at i:13101792 original size:7 final size:7
Alignment explanation
Indices: 13101782--13101811 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13101772 AAATATATAA
13101782 TAAATAT
1 TAAATAT
13101789 TAAATAT
1 TAAATAT
13101796 TAAATAT
1 TAAATAT
13101803 TAAATAT
1 TAAATAT
13101810 TA
1 TA
13101812 TCATCTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATAT
Found at i:13107376 original size:2 final size:2
Alignment explanation
Indices: 13107369--13107399 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13107359 CTCATTTTGA
13107369 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13107400 GTGTTTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13108941 original size:17 final size:18
Alignment explanation
Indices: 13108919--13108956 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13108909 TCTTAAATTG
13108919 ATTATA-ATTAACTTTTT
1 ATTATATATTAACTTTTT
**
13108936 ATTATATATTATTTTTTT
1 ATTATATATTAACTTTTT
13108954 ATT
1 ATT
13108957 CATTTCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTATATATTAACTTTTT
Found at i:13113009 original size:22 final size:21
Alignment explanation
Indices: 13112981--13113133 Score: 137
Period size: 22 Copynumber: 7.0 Consensus size: 21
13112971 GTAAAATAAT
*
13112981 ATAATTTAGTAGTAAATTATTG
1 ATAATTTAATA-TAAATTATTG
* *
13113003 ATAATTTAATAATTAATTAATG
1 ATAATTTAAT-ATAAATTATTG
* * *
13113025 ATAATTTAATAAAAATCATGG
1 ATAATTTAATATAAATTATTG
* *
13113046 ATAATTTAATATAAATCAATG
1 ATAATTTAATATAAATTATTG
*
13113067 ATAAATTAATTATAAATTA-TG
1 ATAATTTAA-TATAAATTATTG
*
13113088 AATAATTTAATATAAATATGTTG
1 -ATAATTTAATATAAAT-TATTG
* *
13113111 ATAATTTTATAATAAATAATTG
1 ATAATTTAAT-ATAAATTATTG
13113133 A
1 A
13113134 AAACTAAGTT
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
21 41 0.38
22 57 0.53
23 9 0.08
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (21 bp):
ATAATTTAATATAAATTATTG
Found at i:13113010 original size:43 final size:43
Alignment explanation
Indices: 13112936--13113117 Score: 126
Period size: 43 Copynumber: 4.2 Consensus size: 43
13112926 AGAATATCAT
* *
13112936 TGATAATTTAGTTGATAATTATTTA-ACATTTAA-AAGTAAAATAA
1 TGATAATTTAGTAGA-AATTATTGATA-ATTTAATAA-TAAAATAA
* *
13112980 T-ATAATTTAGTAGTAAATTATTGATAATTTAATAATTAATTAA
1 TGATAATTTAGTAG-AAATTATTGATAATTTAATAATAAAATAA
* * * *
13113023 TGATAATTTAATAAAAATCATGGATAATTTAAT-AT-AAATCAA
1 TGATAATTTAGTAGAAATTATTGATAATTTAATAATAAAAT-AA
* * * **
13113065 TGATAAATTAATTATAAATTA-TGAATAATTTAAT-ATAAATATGT
1 TGAT-AATTTAGTAGAAATTATTG-ATAATTTAATAATAAA-ATAA
13113109 TGATAATTT
1 TGATAATTT
13113118 TATAATAAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
41 3 0.03
42 9 0.08
43 77 0.69
44 21 0.19
45 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (43 bp):
TGATAATTTAGTAGAAATTATTGATAATTTAATAATAAAATAA
Found at i:13113223 original size:31 final size:31
Alignment explanation
Indices: 13113188--13113249 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13113178 TAACATATTA
13113188 GTAAATTATTGATAATTTAGTAATAGTAAAT
1 GTAAATTATTGATAATTTAGTAATAGTAAAT
13113219 GTAAATTATTGATAATTTAGTAATAGTAAAT
1 GTAAATTATTGATAATTTAGTAATAGTAAAT
13113250 CACTAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (31 bp):
GTAAATTATTGATAATTTAGTAATAGTAAAT
Found at i:13113343 original size:21 final size:21
Alignment explanation
Indices: 13113295--13113345 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
13113285 AATAATAAAT
* *
13113295 TAGTTAATTATTGATAACTTTA
1 TAGTAAATTATCGATAAC-TTA
13113317 TAGTAAATTATCGATAA-TTA
1 TAGTAAATTATCGATAACTTA
13113337 GTAGTAAAT
1 -TAGTAAAT
13113346 AAATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 15 0.58
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (21 bp):
TAGTAAATTATCGATAACTTA
Found at i:13113843 original size:21 final size:20
Alignment explanation
Indices: 13113817--13113861 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13113807 CTGATATAAA
*
13113817 AAAGTTATCAAAATTATATC
1 AAAGTTACCAAAATTATATC
* *
13113837 GAAAGTTACCCAAATTTTATC
1 -AAAGTTACCAAAATTATATC
13113858 AAAG
1 AAAG
13113862 GATATAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAGTTACCAAAATTATATC
Found at i:13116233 original size:20 final size:20
Alignment explanation
Indices: 13116181--13116244 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
13116171 ATTTGTCCAG
* *
13116181 AAAAAGATACAAAGTAT-GT
1 AAAAAGATACAAAATATAAT
* *
13116200 ATAAA-ATACGAAATATAAT
1 AAAAAGATACAAAATATAAT
* *
13116219 AAAAAGATACAAAATAAAAA
1 AAAAAGATACAAAATATAAT
13116239 AAAAAG
1 AAAAAG
13116245 TAGAACAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
20 17 0.49
ACGTcount: A:0.69, C:0.05, G:0.09, T:0.17
Consensus pattern (20 bp):
AAAAAGATACAAAATATAAT
Found at i:13116235 original size:18 final size:18
Alignment explanation
Indices: 13116181--13116240 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
13116171 ATTTGTCCAG
* *
13116181 AAAAAGATACAAAGTATGT
1 AAAAAGATACAAAATA-AT
*
13116200 ATAAA-ATACGAAATATAAT
1 AAAAAGATAC-AAA-ATAAT
13116219 AAAAAGATACAAAATAA-
1 AAAAAGATACAAAATAAT
13116236 AAAAA
1 AAAAA
13116241 AAAGTAGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.15
18 8 0.24
19 15 0.44
20 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.18
Consensus pattern (18 bp):
AAAAAGATACAAAATAAT
Found at i:13116370 original size:38 final size:39
Alignment explanation
Indices: 13116293--13116386 Score: 156
Period size: 38 Copynumber: 2.4 Consensus size: 39
13116283 TCCCCGGCAC
13116293 CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
1 CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
*
13116332 CACTGCCACCACCCGTGCCACCT-GA-CCACCATACCCTA
1 CACTGCCACCACCCGTGCCA-CTAGACCCACCAGACCCTA
13116370 CACTGCCACCACCCGTG
1 CACTGCCACCACCCGTG
13116387 ATTGCCAGAC
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
38 29 0.55
39 22 0.42
40 2 0.04
ACGTcount: A:0.23, C:0.52, G:0.13, T:0.12
Consensus pattern (39 bp):
CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
Found at i:13118654 original size:12 final size:11
Alignment explanation
Indices: 13118636--13118670 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
13118626 CATTTTTAGT
13118636 AAAAAAAACAA
1 AAAAAAAACAA
13118647 ACAAAAAAACAA
1 A-AAAAAAACAA
13118659 AAAAAAAACAA
1 AAAAAAAACAA
13118670 A
1 A
13118671 TCAACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:13118676 original size:19 final size:20
Alignment explanation
Indices: 13118637--13118696 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
13118627 ATTTTTAGTA
13118637 AAAAAAACAAACAAAAAAAC
1 AAAAAAACAAACAAAAAAAC
**
13118657 AAAAAAA-AAACAAATCAAC
1 AAAAAAACAAACAAAAAAAC
13118676 AATAAAAAGCAAACCAAAAAA
1 AA-AAAAA-CAAA-CAAAAAA
13118697 TTCACACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 12 0.38
20 12 0.38
22 3 0.09
23 5 0.16
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.03
Consensus pattern (20 bp):
AAAAAAACAAACAAAAAAAC
Found at i:13127491 original size:43 final size:44
Alignment explanation
Indices: 13127443--13127526 Score: 161
Period size: 43 Copynumber: 1.9 Consensus size: 44
13127433 AGAAGATGAG
13127443 ATTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCATAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATAA
13127486 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
13127527 AATGAGATTN
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 29 0.73
44 11 0.28
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (44 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATAA
Found at i:13129439 original size:7 final size:7
Alignment explanation
Indices: 13129429--13129458 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13129419 AAATATATAA
13129429 TAAATAT
1 TAAATAT
13129436 TAAATAT
1 TAAATAT
13129443 TAAATAT
1 TAAATAT
13129450 TAAATAT
1 TAAATAT
13129457 TA
1 TA
13129459 TCATCTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATAT
Found at i:13135029 original size:2 final size:2
Alignment explanation
Indices: 13135022--13135054 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13135012 CTCATTTTGA
13135022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13135055 GTGTTTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13140672 original size:22 final size:21
Alignment explanation
Indices: 13140597--13140795 Score: 138
Period size: 22 Copynumber: 9.2 Consensus size: 21
13140587 AAAGAATATC
*
13140597 ATTGATAATTTAGT-TGATAATT
1 ATTGATAATTTAATAT-A-AATT
* *
13140619 ATTGA-ACATTTAAAAGTAAAAT
1 ATTGATA-ATTTAATA-TAAATT
* *
13140641 AAT-ATAATTTAGTAGTAAATT
1 ATTGATAATTTAATA-TAAATT
*
13140662 ATTGATAATTTAATAATTAATT
1 ATTGATAATTTAAT-ATAAATT
* * *
13140684 AATGATAATTTAATAAAAATC
1 ATTGATAATTTAATATAAATT
* *
13140705 ATGGATAATTTAATATAAATC
1 ATTGATAATTTAATATAAATT
* *
13140726 AATGATAAATTAATTATAAATT
1 ATTGATAATTTAA-TATAAATT
13140748 A-TGAATAATTTAATATAAA-T
1 ATTG-ATAATTTAATATAAATT
* *
13140768 ATGTGATAATTTTATAATAAATA
1 AT-TGATAATTTAAT-ATAAATT
13140791 ATTGA
1 ATTGA
13140796 AAACTAAGTT
Statistics
Matches: 141, Mismatches: 24, Indels: 24
0.75 0.13 0.13
Matches are distributed among these distances:
20 2 0.01
21 65 0.46
22 69 0.49
23 4 0.03
24 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (21 bp):
ATTGATAATTTAATATAAATT
Found at i:13140713 original size:21 final size:21
Alignment explanation
Indices: 13140665--13140789 Score: 94
Period size: 21 Copynumber: 5.8 Consensus size: 21
13140655 GTAAATTATT
* *
13140665 GATAATTTAATAATTAATTAAT-
1 GATAATTTAATAA--AAATCATG
13140687 GATAATTTAATAAAAATCATG
1 GATAATTTAATAAAAATCATG
*
13140708 GATAATTTAATATAAATCAAT-
1 GATAATTTAATAAAAATC-ATG
* * *
13140729 GATAAATTAATTATAAATTATG
1 GATAATTTAA-TAAAAATCATG
* *
13140751 AATAATTTAATATAAAT-ATG
1 GATAATTTAATAAAAATCATG
*
13140771 TGATAATTTTATAATAAAT
1 -GATAATTTAATAA-AAAT
13140790 AATTGAAAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.09
21 45 0.52
22 34 0.39
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (21 bp):
GATAATTTAATAAAAATCATG
Found at i:13140789 original size:43 final size:42
Alignment explanation
Indices: 13140637--13140789 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
13140627 TTTAAAAGTA
* *
13140637 AAATA-AT-ATAATTTAGTAGTAAATTATTGATAATTTAATAAT
1 AAATATATGATAATTTAATAATAAATTA-TGATAATTTAAT-AT
* *
13140679 TAAT-TAATGATAATTTAATAA-AAATCATGGATAATTTAATAT
1 AAATAT-ATGATAATTTAATAATAAATTAT-GATAATTTAATAT
* *
13140721 AAATCA-ATGATAAATTAATTATAAATTATGAATAATTTAATAT
1 AAAT-ATATGATAATTTAATAATAAATTATG-ATAATTTAATAT
* *
13140764 AAATATGTGATAATTTTATAATAAAT
1 AAATATATGATAATTTAATAATAAAT
13140790 AATTGAAAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 24 0.27
43 56 0.62
44 10 0.11
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (42 bp):
AAATATATGATAATTTAATAATAAATTATGATAATTTAATAT
Found at i:13140885 original size:31 final size:31
Alignment explanation
Indices: 13140850--13140911 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13140840 TAACATATTA
13140850 GTAAATTATTGATAATTTAGTAATAGTAAAT
1 GTAAATTATTGATAATTTAGTAATAGTAAAT
13140881 GTAAATTATTGATAATTTAGTAATAGTAAAT
1 GTAAATTATTGATAATTTAGTAATAGTAAAT
13140912 CACTAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (31 bp):
GTAAATTATTGATAATTTAGTAATAGTAAAT
Found at i:13141004 original size:21 final size:21
Alignment explanation
Indices: 13140956--13141006 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
13140946 AATAATAAAT
* *
13140956 TAGTTAATTATTGATAACTTTA
1 TAGTAAATTATCGATAAC-TTA
13140978 TAGTAAATTATCGATAA-TTA
1 TAGTAAATTATCGATAACTTA
13140998 GTAGTAAAT
1 -TAGTAAAT
13141007 AAATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 15 0.58
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (21 bp):
TAGTAAATTATCGATAACTTA
Found at i:13141497 original size:21 final size:21
Alignment explanation
Indices: 13141355--13141506 Score: 58
Period size: 21 Copynumber: 7.1 Consensus size: 21
13141345 TTATCATAAA
13141355 TTATCAAAATTATATAAAAAG
1 TTATCAAAATTATATAAAAAG
* * * *
13141376 TTA-CTTAAATTACATTAAGATG
1 TTATC-AAAATTATA-TAAAAAG
* *
13141398 TTATCAAAATTTTATAAAAAAT
1 TTATCAAAATTATAT-AAAAAG
* **
13141420 TTAT-AAAATTAGTATCAACGG
1 TTATCAAAATTA-TATAAAAAG
** * *
13141441 TTAAAAAAAATATATCATAAA-
1 TTATCAAAATTATAT-AAAAAG
*** * *
13141462 TTATTGTACTGATATAAAAAG
1 TTATCAAAATTATATAAAAAG
**
13141483 TTATCAAAATTATATCGAAAG
1 TTATCAAAATTATATAAAAAG
13141504 TTA
1 TTA
13141507 CCCAAATTTT
Statistics
Matches: 87, Mismatches: 36, Indels: 16
0.63 0.26 0.12
Matches are distributed among these distances:
20 5 0.06
21 50 0.57
22 31 0.36
23 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (21 bp):
TTATCAAAATTATATAAAAAG
Found at i:13141513 original size:21 final size:20
Alignment explanation
Indices: 13141479--13141523 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13141469 ACTGATATAA
*
13141479 AAAGTTATCAAAATTATATC
1 AAAGTTACCAAAATTATATC
* *
13141499 GAAAGTTACCCAAATTTTATC
1 -AAAGTTACCAAAATTATATC
13141520 AAAG
1 AAAG
13141524 GATATAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAGTTACCAAAATTATATC
Found at i:13143887 original size:18 final size:18
Alignment explanation
Indices: 13143866--13143924 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
13143856 AAGTATGTAT
*
13143866 AAAATACGAAATATAATAA
1 AAAATACGAAATACAA-AA
*
13143885 AAAGATACAAAATAC-AAA
1 AAA-ATACGAAATACAAAA
*
13143903 AAAATACGAAACACAAAA
1 AAAATACGAAATACAAAA
13143921 AAAA
1 AAAA
13143925 AAGTAGAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.26
18 12 0.35
19 4 0.12
20 9 0.26
ACGTcount: A:0.73, C:0.10, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAATACGAAATACAAAA
Found at i:13143897 original size:20 final size:19
Alignment explanation
Indices: 13143845--13143898 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
13143835 ATTTGTCCAG
* *
13143845 AAAAAGATACAAAGTATGT
1 AAAAAGATACAAAATATAT
* *
13143864 ATAAA-ATACGAAATATAAT
1 AAAAAGATACAAAATAT-AT
13143883 AAAAAGATACAAAATA
1 AAAAAGATACAAAATA
13143899 CAAAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 9 0.33
19 9 0.33
20 9 0.33
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.20
Consensus pattern (19 bp):
AAAAAGATACAAAATATAT
Found at i:13143903 original size:17 final size:17
Alignment explanation
Indices: 13143883--13143923 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13143873 GAAATATAAT
* *
13143883 AAAAAGATACAAAATAC
1 AAAAAAATACAAAACAC
*
13143900 AAAAAAATACGAAACAC
1 AAAAAAATACAAAACAC
13143917 AAAAAAA
1 AAAAAAA
13143924 AAAGTAGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAATACAAAACAC
Found at i:13144053 original size:38 final size:39
Alignment explanation
Indices: 13143976--13144069 Score: 165
Period size: 38 Copynumber: 2.4 Consensus size: 39
13143966 TCCCCGGCAC
13143976 CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
1 CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
13144015 CACTGCCACCACCCGTGCCACCT-GA-CCACCAGACCCTA
1 CACTGCCACCACCCGTGCCA-CTAGACCCACCAGACCCTA
13144053 CACTGCCACCACCCGTG
1 CACTGCCACCACCCGTG
13144070 ATTGCCAGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
38 30 0.56
39 22 0.41
40 2 0.04
ACGTcount: A:0.23, C:0.52, G:0.14, T:0.11
Consensus pattern (39 bp):
CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
Found at i:13145590 original size:12 final size:12
Alignment explanation
Indices: 13145568--13145596 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13145558 TAATTAAAAT
13145568 TAAAA-AATTAA
1 TAAAATAATTAA
13145579 TAAAATAATTAA
1 TAAAATAATTAA
13145591 TAAAAT
1 TAAAAT
13145597 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:13146335 original size:12 final size:13
Alignment explanation
Indices: 13146318--13146362 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
13146308 TTTTAGTAAA
13146318 AAAAAAACAAA-C
1 AAAAAAACAAAGC
*
13146330 AAAAAAACAAATC
1 AAAAAAACAAAGC
13146343 AAAAATAA-AAAGC
1 AAAAA-AACAAAGC
13146356 AAAAAAA
1 AAAAAAA
13146363 TTCACACACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 13 0.43
13 15 0.50
14 2 0.07
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.04
Consensus pattern (13 bp):
AAAAAAACAAAGC
Found at i:13146335 original size:13 final size:13
Alignment explanation
Indices: 13146317--13146362 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
13146307 TTTTTAGTAA
13146317 AAAAAAAACAAAC
1 AAAAAAAACAAAC
13146330 -AAAAAAACAAATC
1 AAAAAAAACAAA-C
*
13146343 AAAAATAAA-AAGC
1 AAAAA-AAACAAAC
13146356 AAAAAAA
1 AAAAAAA
13146363 TTCACACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 13 0.45
13 7 0.24
14 6 0.21
15 3 0.10
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.04
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:13146950 original size:31 final size:28
Alignment explanation
Indices: 13146900--13146967 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 28
13146890 TCTTTTTCTT
13146900 TTTTTTTTTGCATTAATCATAT-CA-AA
1 TTTTTTTTTGCATTAATCATATGCATAA
*
13146926 TATTTTTTTTGCATTCATGCATCATTTGCATAA
1 T-TTTTTTTTGCATT-A---ATCATATGCATAA
13146959 TTTTTTTTT
1 TTTTTTTTT
13146968 AAAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 13 0.38
28 1 0.03
31 6 0.18
32 10 0.29
33 3 0.09
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (28 bp):
TTTTTTTTTGCATTAATCATATGCATAA
Found at i:13152626 original size:12 final size:12
Alignment explanation
Indices: 13152604--13152632 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13152594 TAATTAAAAT
13152604 TAAAA-AATTAA
1 TAAAATAATTAA
13152615 TAAAATAATTAA
1 TAAAATAATTAA
13152627 TAAAAT
1 TAAAAT
13152633 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:13155365 original size:2 final size:2
Alignment explanation
Indices: 13155316--13155352 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13155306 CACGTCATGG
13155316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13155353 AAAGCCATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13156544 original size:4 final size:5
Alignment explanation
Indices: 13156485--13156543 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
13156475 TAAAACCCAA
* * * *
13156485 AAAAT AAAAA AAAAA AAAACT AAAAAT AAAAT GAAGT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
13156537 -AAAT AAA
1 AAAAT AAA
13156544 TGAAAAAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
4 4 0.09
5 36 0.80
6 1 0.02
7 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:13156971 original size:20 final size:20
Alignment explanation
Indices: 13156948--13156985 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13156938 CTAAAATTAA
* *
13156948 ACCCAGAATCTTCAAATCTC
1 ACCCAAAATCCTCAAATCTC
13156968 ACCCAAAATCCTCAAATC
1 ACCCAAAATCCTCAAATC
13156986 GATCTAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.37, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCCAAAATCCTCAAATCTC
Found at i:13157293 original size:3 final size:3
Alignment explanation
Indices: 13157287--13157387 Score: 102
Period size: 3 Copynumber: 34.3 Consensus size: 3
13157277 GTTAGGAAAG
*
13157287 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
13157334 -AT GTAC AAT -AT CAT AAT AAT AAT AGT AAT AAT AAT ATAT AAT -AT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
*
13157378 AAC AAT AAT A
1 AAT AAT AAT A
13157388 CTATAATATA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
2 6 0.07
3 72 0.88
4 4 0.05
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13161900 original size:52 final size:52
Alignment explanation
Indices: 13161796--13161900 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
13161786 TATAACCATA
*
13161796 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
13161848 CAAACTTGCCTATTAAGAAT-CCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCCATTAAGAATCCCTC-TCCTCTTAGAATTCTTCTCCTGCAAGT
13161900 C
1 C
13161901 TTCTTATCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (52 bp):
CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:13162149 original size:22 final size:21
Alignment explanation
Indices: 13162074--13162272 Score: 138
Period size: 22 Copynumber: 9.2 Consensus size: 21
13162064 AAAGAATATC
*
13162074 ATTGATAATTTAGT-TGATAATT
1 ATTGATAATTTAATAT-A-AATT
* *
13162096 ATTGA-ACATTTAAAAGTAAAAT
1 ATTGATA-ATTTAATA-TAAATT
* *
13162118 AAT-ATAATTTAGTAGTAAATT
1 ATTGATAATTTAATA-TAAATT
*
13162139 ATTGATAATTTAATAATTAATT
1 ATTGATAATTTAAT-ATAAATT
* * *
13162161 AATGATAATTTAATAAAAATC
1 ATTGATAATTTAATATAAATT
* *
13162182 ATGGATAATTTAATATAAATC
1 ATTGATAATTTAATATAAATT
* *
13162203 AATGATAAATTAATTATAAATT
1 ATTGATAATTTAA-TATAAATT
13162225 A-TGAATAATTTAATATAAA-T
1 ATTG-ATAATTTAATATAAATT
* *
13162245 ATGTGATAATTTTATAATAAATA
1 AT-TGATAATTTAAT-ATAAATT
13162268 ATTGA
1 ATTGA
13162273 AAACTAAGTT
Statistics
Matches: 141, Mismatches: 24, Indels: 24
0.75 0.13 0.13
Matches are distributed among these distances:
20 2 0.01
21 65 0.46
22 69 0.49
23 4 0.03
24 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (21 bp):
ATTGATAATTTAATATAAATT
Found at i:13162190 original size:21 final size:21
Alignment explanation
Indices: 13162142--13162266 Score: 94
Period size: 21 Copynumber: 5.8 Consensus size: 21
13162132 GTAAATTATT
* *
13162142 GATAATTTAATAATTAATTAAT-
1 GATAATTTAATAA--AAATCATG
13162164 GATAATTTAATAAAAATCATG
1 GATAATTTAATAAAAATCATG
*
13162185 GATAATTTAATATAAATCAAT-
1 GATAATTTAATAAAAATC-ATG
* * *
13162206 GATAAATTAATTATAAATTATG
1 GATAATTTAA-TAAAAATCATG
* *
13162228 AATAATTTAATATAAAT-ATG
1 GATAATTTAATAAAAATCATG
*
13162248 TGATAATTTTATAATAAAT
1 -GATAATTTAATAA-AAAT
13162267 AATTGAAAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.09
21 45 0.52
22 34 0.39
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (21 bp):
GATAATTTAATAAAAATCATG
Found at i:13162266 original size:43 final size:42
Alignment explanation
Indices: 13162114--13162266 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
13162104 TTTAAAAGTA
* *
13162114 AAATA-AT-ATAATTTAGTAGTAAATTATTGATAATTTAATAAT
1 AAATATATGATAATTTAATAATAAATTA-TGATAATTTAAT-AT
* *
13162156 TAAT-TAATGATAATTTAATAA-AAATCATGGATAATTTAATAT
1 AAATAT-ATGATAATTTAATAATAAATTAT-GATAATTTAATAT
* *
13162198 AAATCA-ATGATAAATTAATTATAAATTATGAATAATTTAATAT
1 AAAT-ATATGATAATTTAATAATAAATTATG-ATAATTTAATAT
* *
13162241 AAATATGTGATAATTTTATAATAAAT
1 AAATATATGATAATTTAATAATAAAT
13162267 AATTGAAAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 24 0.27
43 56 0.62
44 10 0.11
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (42 bp):
AAATATATGATAATTTAATAATAAATTATGATAATTTAATAT
Found at i:13162450 original size:21 final size:21
Alignment explanation
Indices: 13162402--13162452 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
13162392 AATAATAAAT
* *
13162402 TAGTTAATTATTGATAACTTTA
1 TAGTAAATTATCGATAAC-TTA
13162424 TAGTAAATTATCGATAA-TTA
1 TAGTAAATTATCGATAACTTA
13162444 GTAGTAAAT
1 -TAGTAAAT
13162453 AAATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 15 0.58
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (21 bp):
TAGTAAATTATCGATAACTTA
Found at i:13162932 original size:21 final size:21
Alignment explanation
Indices: 13162792--13162942 Score: 67
Period size: 21 Copynumber: 7.1 Consensus size: 21
13162782 TTATCATAAA
13162792 TTATCAAAATTATATAAAAAG
1 TTATCAAAATTATATAAAAAG
* * * *
13162813 TTA-CTTAAATTACATTAAGATG
1 TTATC-AAAATTATA-TAAAAAG
* *
13162835 TTATCAAAATTTTATAAAAAAT
1 TTATCAAAATTATAT-AAAAAG
* *
13162857 TTAT-AAAATTAGTATCAACAG
1 TTATCAAAATTA-TATAAAAAG
** * *
13162878 TTAAAAAAAGTATATCATAAA-
1 TTATCAAAATTATAT-AAAAAG
*** *
13162899 TTAT-TGTACTATATAAAAAG
1 TTATCAAAATTATATAAAAAG
**
13162919 TTATCAAAATTATATCGAAAG
1 TTATCAAAATTATATAAAAAG
13162940 TTA
1 TTA
13162943 CCCAAATTTT
Statistics
Matches: 90, Mismatches: 31, Indels: 18
0.65 0.22 0.13
Matches are distributed among these distances:
19 4 0.04
20 11 0.12
21 42 0.47
22 32 0.36
23 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (21 bp):
TTATCAAAATTATATAAAAAG
Found at i:13162949 original size:21 final size:20
Alignment explanation
Indices: 13162915--13162959 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13162905 TACTATATAA
*
13162915 AAAGTTATCAAAATTATATC
1 AAAGTTACCAAAATTATATC
* *
13162935 GAAAGTTACCCAAATTTTATC
1 -AAAGTTACCAAAATTATATC
13162956 AAAG
1 AAAG
13162960 GATATATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAGTTACCAAAATTATATC
Found at i:13165331 original size:20 final size:19
Alignment explanation
Indices: 13165279--13165370 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
13165269 ATTTGTCCAG
* *
13165279 AAAAAGATACAAAGTACAT
1 AAAAAGATACAAAATAAAT
* *
13165298 ATAAA-ATACGAAATATAAT
1 AAAAAGATACAAAATA-AAT
*
13165317 AAAAAGATACAAAATACAAA
1 AAAAAGATACAAAATA-AAT
* *
13165337 AAAAAAATACAAAAAAAAGT
1 AAAAAGATACAAAATAAA-T
13165357 AGAAAAGA-ACAAAA
1 A-AAAAGATACAAAA
13165371 AATCAAGGAT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
18 8 0.14
19 12 0.21
20 32 0.56
21 5 0.09
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAAAGATACAAAATAAAT
Found at i:13165350 original size:12 final size:13
Alignment explanation
Indices: 13165327--13165354 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13165317 AAAAAGATAC
13165327 AAAATACAAAAAA
1 AAAATACAAAAAA
13165340 AAAATACAAAAAA
1 AAAATACAAAAAA
13165353 AA
1 AA
13165355 GTAGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAATACAAAAAA
Found at i:13166747 original size:19 final size:20
Alignment explanation
Indices: 13166725--13166762 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13166715 TTTTCTTCAA
13166725 TTTTTTTAAAATAA-AAATT
1 TTTTTTTAAAATAATAAATT
*
13166744 TTTTTTTATAATAATAAAT
1 TTTTTTTAAAATAATAAAT
13166763 AAAAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTTTAAAATAATAAATT
Found at i:13169728 original size:2 final size:2
Alignment explanation
Indices: 13169689--13169715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13169679 CACGTCATGG
13169689 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13169716 AAAGCCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13170898 original size:16 final size:15
Alignment explanation
Indices: 13170860--13170926 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 15
13170850 TAAATTTCTC
13170860 AAAAATAAAACCAAAA-
1 AAAAATAAAA--AAAAT
*
13170876 AATAATAAAAAAAACT
1 AAAAATAAAAAAAA-T
* *
13170892 AAAAATAAAATGAATT
1 AAAAATAAAA-AAAAT
13170908 AAAAATAAAATAAAAT
1 AAAAATAAAA-AAAAT
13170924 AAA
1 AAA
13170927 TAAATGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.10
16 36 0.86
17 2 0.05
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:13170927 original size:25 final size:24
Alignment explanation
Indices: 13170860--13170929 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
13170850 TAAATTTCTC
**
13170860 AAAAATAAAACCAAA-AAATAA-T
1 AAAAATAAAATAAAATAAATAATT
*
13170882 AAAAA-AAACTAAAAATAAAATGAATT
1 AAAAATAAAAT-AAAAT-AAAT-AATT
13170908 AAAAATAAAATAAAATAAATAA
1 AAAAATAAAATAAAATAAATAA
13170930 ATGAAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 3 0.08
22 8 0.21
24 6 0.16
25 6 0.16
26 11 0.29
27 4 0.11
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (24 bp):
AAAAATAAAATAAAATAAATAATT
Found at i:13170938 original size:21 final size:20
Alignment explanation
Indices: 13170892--13170930 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13170882 AAAAAAAACT
*
13170892 AAAAATAAAATGAATTAAAA
1 AAAAATAAAATGAAATAAAA
13170912 ATAAAATAAAAT-AAATAAA
1 A-AAAATAAAATGAAATAAA
13170931 TGAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAATAAAATGAAATAAAA
Found at i:13171352 original size:20 final size:20
Alignment explanation
Indices: 13171329--13171366 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13171319 CTAAAATTAA
* *
13171329 ACCCAGAATCTTCAAATCTC
1 ACCCAAAATCCTCAAATCTC
13171349 ACCCAAAATCCTCAAATC
1 ACCCAAAATCCTCAAATC
13171367 GATCCTAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.37, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCCAAAATCCTCAAATCTC
Found at i:13171677 original size:3 final size:3
Alignment explanation
Indices: 13171671--13171765 Score: 90
Period size: 3 Copynumber: 32.3 Consensus size: 3
13171661 GTTAGGAAAG
* * *
13171671 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ACT -AT GTAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * *
13171718 AAT -AT CAT AAT AAT AAT AGT AAT AAT AAT ATAT AAT -AT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
13171762 AAT A
1 AAT A
13171766 CTATAATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
2 6 0.08
3 66 0.87
4 4 0.05
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13172593 original size:20 final size:20
Alignment explanation
Indices: 13172568--13172607 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13172558 TGTAGACACC
13172568 CAATTGGGTCC-GGCCCAAAT
1 CAATTGGG-CCTGGCCCAAAT
13172588 CAATTGGGCCTGGCCCAAAT
1 CAATTGGGCCTGGCCCAAAT
13172608 AGGTAAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (20 bp):
CAATTGGGCCTGGCCCAAAT
Found at i:13172698 original size:16 final size:19
Alignment explanation
Indices: 13172677--13172725 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
13172667 TTTTATGTAT
13172677 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
13172694 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
13172712 TGTATATATTTATT
1 TGTAT-TATTTATT
13172726 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:13172791 original size:63 final size:60
Alignment explanation
Indices: 13172689--13172866 Score: 162
Period size: 63 Copynumber: 2.8 Consensus size: 60
13172679 TATTATTTAT
* * *
13172689 TATTATTATTATGTATTAATATATGTATATATTTATTTATTTATTTT-TTGTTAAT-ATTTATGT
1 TATT-TTATTATTTATT-ATATATATATATATTTTTTTATTT-TTTTATT-TTAATCATTT-T-T
13172752 G
60 G
*
13172753 TATTTTATTATTTATGTATATATATATATATTTTTTTATCTTTTTTATTTTATTCATTTTTG
1 TATTTTATTATTTAT-TATATATATATATATTTTTTTAT-TTTTTTATTTTAATCATTTTTG
* *
13172815 TATTTTTACTTATCTAATTATATATCTGATATATTTTTTTATTATTATTTAT
1 TA-TTTTA-TTAT-TTATTATATATAT-ATATATTTTTTTATT-TT-TTTAT
13172867 CCTATAATAT
Statistics
Matches: 98, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
62 4 0.04
63 44 0.45
64 26 0.27
65 19 0.19
66 5 0.05
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (60 bp):
TATTTTATTATTTATTATATATATATATATTTTTTTATTTTTTTATTTTAATCATTTTTG
Found at i:13173393 original size:19 final size:19
Alignment explanation
Indices: 13173369--13173414 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13173359 TCCGGCCAAC
13173369 TTCCGGCAAAATTTCCAGA
1 TTCCGGCAAAATTTCCAGA
* *
13173388 TTCCGGCGAATTTTCCAGA
1 TTCCGGCAAAATTTCCAGA
*
13173407 ATCCGGCA
1 TTCCGGCA
13173415 CTGGTGTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (19 bp):
TTCCGGCAAAATTTCCAGA
Found at i:13173772 original size:29 final size:27
Alignment explanation
Indices: 13173740--13173872 Score: 83
Period size: 28 Copynumber: 4.5 Consensus size: 27
13173730 TTTTTTTTGG
13173740 ATTTTTTTTATTTGTTTTATTTATTTATT
1 ATTTTTTTTATTT-TTTTATTTATTT-TT
*
13173769 A-TTTTTTTATTTATTAGATTAGATTTATTTAAT
1 ATTTTTTTTATTT-TT---TT--ATTTATTT-TT
* *
13173802 ATTTTTTCTTTATCTTATT-TTTATTTTT
1 A-TTTTT-TTTATTTTTTTATTTATTTTT
*
13173830 ATTTTTTTTACTTTTCTTTAATT-TTTTT
1 ATTTTTTTTA-TTTT-TTTATTTATTTTT
13173858 ATTTTTATTTATTTT
1 ATTTTT-TTTATTTT
13173873 CACTTTTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
26 4 0.05
27 8 0.10
28 32 0.38
29 14 0.17
31 2 0.02
32 2 0.02
33 11 0.13
35 5 0.06
36 6 0.07
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (27 bp):
ATTTTTTTTATTTTTTTATTTATTTTT
Found at i:13173844 original size:10 final size:9
Alignment explanation
Indices: 13173825--13173872 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
13173815 CTTATTTTTA
13173825 TTTTTATTT
1 TTTTTATTT
13173834 TTTTTACTTT
1 TTTTTA-TTT
* *
13173844 TCTTTAATT
1 TTTTTATTT
13173853 TTTTTATTT
1 TTTTTATTT
13173862 TTATTTATTT
1 TT-TTTATTT
13173872 T
1 T
13173873 CACTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:13173854 original size:19 final size:19
Alignment explanation
Indices: 13173827--13173902 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
13173817 TATTTTTATT
*
13173827 TTTATTTTTTTTACTTTTC
1 TTTAATTTTTTTACTTTTC
* *
13173846 TTTAATTTTTTTATTTTTA
1 TTTAATTTTTTTACTTTTC
*
13173865 TTT-A--TTTTCACTTTT-
1 TTTAATTTTTTTACTTTTC
* *
13173880 TTTTATTATTTTA-TTTTC
1 TTTAATTTTTTTACTTTTC
13173898 TTTAA
1 TTTAA
13173903 AGAAAAATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
15 3 0.07
16 10 0.22
17 4 0.09
18 9 0.20
19 19 0.42
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTAATTTTTTTACTTTTC
Found at i:13173856 original size:28 final size:27
Alignment explanation
Indices: 13173825--13173902 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
13173815 CTTATTTTTA
13173825 TTTTTATTTTTTTTACTTTTCTTTAATT
1 TTTTTATTTTTTTTA-TTTTCTTTAATT
**
13173853 TTTTTATTTTTATTTATTTTCACT--TT
1 TTTTTATTTTT-TTTATTTTCTTTAATT
*
13173879 TTTTTA-TTATTTTATTTTCTTTAA
1 TTTTTATTTTTTTTATTTTCTTTAA
13173903 AGAAAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 10 0.24
25 3 0.07
26 8 0.19
28 17 0.40
29 4 0.10
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTATTTTTTTTATTTTCTTTAATT
Found at i:13173861 original size:34 final size:35
Alignment explanation
Indices: 13173805--13173896 Score: 116
Period size: 34 Copynumber: 2.6 Consensus size: 35
13173795 ATTTAATATT
* *
13173805 TTTTCTTTATCTTATTTTTATTTTTATTT-TTTTTAC
1 TTTTCTTTA-ATT-TTTTTATTTTTATTTATTTTCAC
13173841 TTTTCTTTAATTTTTTTATTTTTATTTATTTTCAC
1 TTTTCTTTAATTTTTTTATTTTTATTTATTTTCAC
* *
13173876 TTTT-TTTTATTATTTTATTTT
1 TTTTCTTTAATTTTTTTATTTT
13173897 CTTTAAAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 30 0.59
35 12 0.24
36 9 0.18
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTTCTTTAATTTTTTTATTTTTATTTATTTTCAC
Found at i:13174004 original size:59 final size:59
Alignment explanation
Indices: 13173905--13174323 Score: 479
Period size: 59 Copynumber: 7.0 Consensus size: 59
13173895 TTCTTTAAAG
*
13173905 AAAAATCAAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAATTT-CAAAAAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
* ** *
13173967 AAAAATAAAATTTCAAAAAAGAGGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAATAAAATTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
13174026 AAAAATAAATTTTCAAAAAAAAGGGT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAAATTTCAAAAAAAA--ATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
13174086 GAAAATCAAAATTTC--CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAATTTCAAAAAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
13174145 GAAAATCAAAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATCTTCCTT
1 AAAAAT-AAAA-TTTCAAAAAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
* * * * *
13174207 AGAAATAAATTTTCAAAGAAAATAA-ATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTC
1 AAAAATAAAATTTCAAA-AAAA-AATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * * *
13174268 GAAATTAAAATTTCAAGAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAATAAAATTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
13174324 CTGAACAAAA
Statistics
Matches: 312, Mismatches: 33, Indels: 28
0.84 0.09 0.08
Matches are distributed among these distances:
57 1 0.00
58 34 0.11
59 92 0.29
60 67 0.21
61 59 0.19
62 59 0.19
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (59 bp):
AAAAATAAAATTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:13174044 original size:119 final size:117
Alignment explanation
Indices: 13173913--13174323 Score: 513
Period size: 119 Copynumber: 3.4 Consensus size: 117
13173903 AGAAAAATCA
*
13173913 AAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAT
1 AAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAT
* * *
13173978 TTCAAAAAAGAGGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
66 TTCAAAAAA-A-AATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
*** *
13174032 AAATTTTCAAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA
1 AAATTTTCAAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
* * *
13174096 ATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
64 ATTTCAAAAAAAAATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
13174151 CAAAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATCTTCCTTAGAAATAAA
1 --AAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * * * *
13174216 TTTTCAAAGAAAATAAATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTCGAAATT
64 ATTTC-AA-AAAA-AAA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* * *
13174274 AAAATTTC--AAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
13174324 CTGAACAAAA
Statistics
Matches: 254, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
118 7 0.03
119 125 0.49
120 20 0.08
121 60 0.24
122 5 0.02
123 32 0.13
124 5 0.02
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (117 bp):
AAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAT
TTCAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:13174215 original size:181 final size:179
Alignment explanation
Indices: 13173906--13174328 Score: 602
Period size: 181 Copynumber: 2.3 Consensus size: 179
13173896 TCTTTAAAGA
*
13173906 AAAATCAAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 AAAATCAAAATTTCC---AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
* * * *
13173971 ATAAAATTTCAAAAAAGAGGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT
63 ATAAAATTTCAAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATCTTCCTTAAAAATAAAT
** * * *
13174036 TTTCAAA-AAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
128 TTTCAAAGAAAATA-AATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTCG
13174087 AAAATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
1 AAAATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-
* * *
13174152 AAAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATCTTCCTTAGAAATAAAT
65 AAAA-TTTCAAAAAAAAAGATTTTGA-GGAAAAGTTGAAAGTATCAATCTTCCTTAAAAATAAAT
13174217 TTTCAAAGAAAATAAATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTCG
128 TTTCAAAGAAAATAAATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTCG
* * *
13174269 -AAATTAAAATTT-CAAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTGAA
1 AAAATCAAAATTTCCAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
13174329 CAAAAAAAAT
Statistics
Matches: 220, Mismatches: 16, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
178 48 0.22
179 4 0.02
180 20 0.09
181 110 0.50
182 37 0.17
183 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (179 bp):
AAAATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
AAATTTCAAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATCTTCCTTAAAAATAAATTTT
CAAAGAAAATAAATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTCG
Found at i:13175805 original size:25 final size:25
Alignment explanation
Indices: 13175769--13175822 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
13175759 ATTAAATAAC
*
13175769 AATTAGAATGTATAGATAATTTTTA
1 AATTAGAATGTATAAATAATTTTTA
13175794 AATTA-AAGTGTATAAATAATTTTTA
1 AATTAGAA-TGTATAAATAATTTTTA
13175819 AATT
1 AATT
13175823 GATAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.44
Consensus pattern (25 bp):
AATTAGAATGTATAAATAATTTTTA
Found at i:13176751 original size:3 final size:3
Alignment explanation
Indices: 13176745--13176792 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
13176735 TGATTGAGTT
13176745 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13176793 TTTTTGTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13177639 original size:2 final size:2
Alignment explanation
Indices: 13177632--13177663 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13177622 TTTGGTGGAA
13177632 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
13177664 CAGTTGGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13188591 original size:35 final size:35
Alignment explanation
Indices: 13188545--13188614 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
13188535 TGTATATGTC
*
13188545 AAGTCAGTTGTAGGTTTACGCCCAAAAAATATTTG
1 AAGTCAGTTGTAGATTTACGCCCAAAAAATATTTG
* * *
13188580 AAGTCAGTTGTATATTTATGCCCAGAAAATATTTG
1 AAGTCAGTTGTAGATTTACGCCCAAAAAATATTTG
13188615 GTTTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (35 bp):
AAGTCAGTTGTAGATTTACGCCCAAAAAATATTTG
Found at i:13189389 original size:20 final size:21
Alignment explanation
Indices: 13189339--13189393 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
13189329 TTACCCTAAT
*
13189339 TGAAAAGAAAAAAATTACTTAA
1 TGAAAA-AATAAAATTACTTAA
13189361 T-ACAAAAATAAAATTACTT-A
1 TGA-AAAAATAAAATTACTTAA
13189381 TGAAAAAATAAAA
1 TGAAAAAATAAAA
13189394 GATATATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 12 0.40
21 14 0.47
22 4 0.13
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
TGAAAAAATAAAATTACTTAA
Found at i:13192613 original size:186 final size:187
Alignment explanation
Indices: 13192400--13194824 Score: 2674
Period size: 187 Copynumber: 13.0 Consensus size: 187
13192390 GTAGACAAGC
* * * *
13192400 ACCTTCAATAGTTATGTACGTAAATTAGAAGGAATTAGTAAAGGTA-TTTTTCT-GAAATAAACG
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAG-AATAAACG
* ** * * *
13192463 CATTCACTAAGTGTCTCAAAATTTGAGTTCTAAAATATTGAAGGCATTTTTCGTTGGAAAATGCC
65 CCTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCC
* *
13192528 TTTAATAATC-CTAAAAAATTTAAGAAAAAATTATTAAAGGCGTTTGTTCTCAAAAAAT
130 TTTAATAATCTC-AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* ** *
13192586 ACCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAATCATTTTTTCTAGAATAAATGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * ** * *
13192651 CTTTA-TAAAGCATCTCAAATTTTGAGTTGTAAAATATTGAAGGTGTTTTTCACTT-AAAGATAC
66 CTTCACT-AAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCA-TTGGAAGATGC
* * * *
13192714 TTTTAATAATCTCAAAAATTTTAAGAGAAAATTCTTGAAGGCGTTTGTTCTAAAAAAAAT
129 CTTTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCT-CAAAAAAT
* * * *
13192774 ACCTTCAATAATTATGCACGTAAATTAGAATGAATTAGTGAAAGTATTTTTTTCTAAAATAAACG
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCA-TTTTTTCTAGAATAAACG
* * * * * * **
13192839 CCTTCACAAAGCATATCAAATTTTGAGTTATAAAATATTGAAGGCGTTTTTTACTT-GAAGACAC
65 CCTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCA-TTGGAAGATGC
* * * *
13192903 TTTTAATAATCTCCAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTCTAAAAAAAT
129 CTTTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* * ** *
13192962 ACCTTCAAAAATTATGCACATAAATTAGAAAAAATTAGTGAAGGCATTTTTTCTAGAATAAACAC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * ** *
13193027 CTTCACTAAACATCTCAAATTTTGAGTTGTAAAATATTGAAGGCATTTTTCACTT-GAAGACACT
66 CTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCA-TTGGAAGATGCC
* *
13193091 TTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
130 TTTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* * * * *
13193149 ACATTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAAGTATTTTTTTCTAGAATAAACA
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCA-TTTTTTCTAGAATAAACG
* * **
13193214 CCTTCACAAAGCATCTTAAAATTTGAGTTGTAAAATATTGAAGGCGCTTTTCACTT-GAAGATGC
65 CCTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCA-TTGGAAGATGC
* * * *
13193278 CTTTAATAATCTCAAAAAATTTT---TAAAAATTTTTGAAGGTGTTTGTTCTCAAGAAAT
129 CTTTAATAATCTC-AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* * * *
13193335 ACCTTCAAAAATTATGCACGTAAATTAGAAGGAATTAGTGAAGG-TTTTTTTTTAGAATAAATGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * * *
13193399 CTTCACTAAGCATCTCAAAATTTGAGTTCTAAAATATTGATGGCATTTTCCACTGGAAGATGCCT
66 CTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCCT
* * * * *
13193464 TTAATAATCCCAAAAATTTTTAA-AGAAAATTATTGAA-GCTATTTGTTCTCAAGAAAC
131 TTAATAATCTCAAAAA-TTTTAAGAAAAAATTATTGAAGGC-GTTTGTTCTCAAAAAAT
*** *
13193521 ACCTTCAATAATTATGCAAAAAAATTAGAATGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * * * * *
13193586 ATTCACTAAGCTTCT-AAATATTTGAGTTCTAAAATATTGAAGGCGTATTTCACTGGAAGATGCC
66 CTTCACTAAGCATCTCAAA-ATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCC
* * * * *
13193650 TTTAATAATATCAAAAATTTTAAGAGAAAATTATTGAA-GTGTTTGTTTTTAAAAAAAT
130 TTTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTG-TTCTCAAAAAAT
* * * * * * * * * *
13193708 GCCTTAAAAAATTATGCATGTAAATTATAAGGAGTTAGTGAAAGCATTTTTCCTAAAAAAAAGCG
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAA-CG
* * * * * * *
13193773 CCTTGACTAGGTATCTCAAATTTTGAGTTGTGAACTATTGAAGGCATTTTTCACTT-GAAGACGC
65 CCTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCA-TTGGAAGATGC
* * * *
13193837 CTTTAATAATCTCAAAAATTTTTTA-AAAAAATTATTAAAGGCGTTTTTTGTCAAAAAAT
129 CTTTAATAATCTCAAAAA-TTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* ** * *
13193896 ACCTTCAATAATTACGCACGTAAATTAGAAGGAA--AGTGAAGGTGTTTTGT-TAGAATAAATGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * ** * * * **
13193958 CTTCACTAATCGTCGT-AAAATTTGAGTAATGAAATATTGAAGGCATTTTCCATTGGAAGACGAT
66 CTTCACTAAGCATC-TCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCC
* * * * *
13194022 TTTAATAATCTCAAAAATTTTAAGAGAAAATTATTAAAGACGTTTGTTCTAAAAAAAC
130 TTTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* * * * * *
13194080 GCCTTAAAAAATTATGCATGTAAATTAGAAAGAATTAGTGAAGGCA-TTTTGCTAGAATAAACGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * * * * * * *
13194144 CTTCACTAAGCATCCCAAAATTTGAGTAGTAGAATATTGAAGGTATTTTTCACTAGAAGACGCAT
66 CTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCCT
* *
13194209 TTAATAATGCT-AAAAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAAT
131 TTAATAAT-CTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
** * * * * *
13194266 GTCTTTAATAATTATTCACATAAATTAGAAGAAATTAGTGAAGACATTTTTTCTAGAATAAACGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * * * ** * ** *
13194331 ATTCACTAACCATCCCAAAATTTTAGTTGTGGAATATTGAATGTGTTTTTTATTGGAAGATGCCT
66 CTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCCT
* *
13194396 TTAATAATCTCAAAAATTTTAAGAAAAAATTTTTAAAGGCGTTTGTTCTCAAAAAAT
131 TTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* ** * *
13194453 GCCTTCAATAATTATGCATATAAATTAGAAGCAATTAGTGAAGGCATTTTTTCTAGAATAAATGC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * * ** **
13194518 CTTCACTAAGCGTCTCAAAATTTGAGTTTTGAAATATTGAAGGTGTTTTTCATTGGAAGACACCT
66 CTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCCT
* * *
13194583 TTAATAAT-TCTAAAAATTTTAAGAAGAAATTATTGAAGGCATTTATTCTCAAAAAAT
131 TTAATAATCTC-AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
* * * * * **
13194640 GCATTCAATAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCA-TTTTTCTTGAATAAATAC
1 ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
* * * *
13194704 C-TCAACTAACCGTCTAAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCC
66 CTTC-ACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCC
*
13194768 TTTAATAATC-CTAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAA
130 TTTAATAATCTC-AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAA
13194825 CACTTTCACT
Statistics
Matches: 1911, Mismatches: 291, Indels: 74
0.84 0.13 0.03
Matches are distributed among these distances:
183 13 0.01
184 207 0.11
185 14 0.01
186 479 0.25
187 756 0.40
188 299 0.16
189 143 0.07
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (187 bp):
ACCTTCAATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTAGAATAAACGC
CTTCACTAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCATTGGAAGATGCCT
TTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAT
Found at i:13192941 original size:61 final size:61
Alignment explanation
Indices: 13192870--13193160 Score: 166
Period size: 61 Copynumber: 4.7 Consensus size: 61
13192860 TTTGAGTTAT
* * * *
13192870 AAAA-TATTGAAGGCGTTTTTTACTTGAAGACACTTTTAATAATCTC-CAAAATTTTAAGAG
1 AAAATTATTGAAGGCGTTTTTT-CTAGAAAACACCTTCAATAATCTCACAAAATTTTAAGAG
* * * * * *
13192930 AAAATTATTGAAGGCGTTTGTTCTAAAAAAATACCTTCAAAAATTATGCACATAAA--TT-AGAA
1 AAAATTATTGAAGGCGTTTTTTCT-AGAAAACACCTTCAATAA-TCT-CACA-AAATTTTAAGAG
* * * * * * *
13192992 AAAATTAGTGAAGGCATTTTTTCTAGAATAAACACCTTCACTAAACATCTC-AAATTTTGAGTTG
1 AAAATTATTGAAGGCGTTTTTTCTAG-A-AAACACCTTCAATAATC-TCACAAAATTTTAAG-AG
* * * * * * *
13193056 TAAAA-TATTGAAGGCATTTTTCACTTGAAGACACTTTTAATAATCCCA-AAAATTTTAAGAG
1 -AAAATTATTGAAGGCGTTTTT-TCTAGAAAACACCTTCAATAATCTCACAAAATTTTAAGAG
* * * *
13193117 AAAATTATTGAAGGCGTTTGTTCTCAAAAAATACATTCAATAAT
1 AAAATTATTGAAGGCGTTTTTTCT-AGAAAACACCTTCAATAAT
13193161 TATGTACGTA
Statistics
Matches: 170, Mismatches: 43, Indels: 35
0.69 0.17 0.14
Matches are distributed among these distances:
60 15 0.09
61 56 0.33
62 41 0.24
63 30 0.18
64 18 0.11
65 10 0.06
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (61 bp):
AAAATTATTGAAGGCGTTTTTTCTAGAAAACACCTTCAATAATCTCACAAAATTTTAAGAG
Found at i:13193612 original size:559 final size:556
Alignment explanation
Indices: 13192399--13194824 Score: 2825
Period size: 559 Copynumber: 4.3 Consensus size: 556
13192389 AGTAGACAAG
* * * * * * *
13192399 CACCTTCAATAGTTATGTACGTAAATTAGAAGGAATTAGTAAAGGTATTTTTCT-GAAATAAACG
1 CACCTTCAAAAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCATTTTTCTAG-AATAAACG
* ** *
13192463 CATTCACTAAG-TGTCTCAAAATTTGAGTTCTAAAATATTGAAGGCATTTTTCGTTGGAAAATGC
65 CATTCACTAAGCT-TCT-AAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGC
* *
13192527 CTTTAATAATCCTAAAAAATTTAAGAAAAAATTATTAAAGGCGTTTGTTCTCAAAAAATACCTTC
128 CTTTAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTC
* *
13192592 AATAATTATGCACGTAAATTAGAAGAAATTAGTGAAA-TCATTTTTTCTAGAATAAATGCCTTTA
193 AATAATTATGCACGTAAATTAGAAGAAATTAGTGAAAGT-ATTTTTTCTAGAATAAACGCCTTCA
* * * * * *
13192656 TAAAGCATCTCAAATTTTGAGTTGTAAAATATTGAAGGTGTTTTTCACTTAAAGATACTTTTAAT
257 CAAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCGTTTTTCACTTGAAGATGCCTTTAAT
* * * *
13192721 AATCTCAAAAATTTTAAGAGAAAATTCTTGAAGGCGTTTGTTCTAAAAAAAATACCTTCAATAAT
322 AATCTCAAAAATTTT-ATA-AAAATTTTTAAAGGCGTTTGTTCT-CAAAAAATACCTTCAATAAT
* * * * *
13192786 TATGCACGTAAATTAGAATGAATTAGTGAAAGTATTTTTTTCTAAAATAAACGCCTTCACAAAGC
384 TATGCACGTAAATTAGAAGGAATTAGTGAAGGT-TTTTTTT-TAGAATAAATGCCTTCACTAAGC
* * * ** * *
13192851 ATATCAAATTTTGAGTTATAAAATATTGAAGGCGTTTTTTACTTGAAGACACTTTTAATAATCTC
447 ATCTCAAAATTTGAGTTATAAAATATTGAAGGCATTTTCCACTGGAAGACACCTTTAATAATC-C
*
13192916 C-AAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTCTAAAAAAA
511 CAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
* * *
13192961 TACCTTCAAAAATTATGCACATAAATTAGAAAAAATTAGTGAAGGCATTTTTTCTAGAATAAACA
1 CACCTTCAAAAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCA-TTTTTCTAGAATAAACG
* * * * * ** *
13193026 CCTTCACTAAACATCTCAAATTTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTGAAGACACT
65 CATTCACTAAGCTTCT-AAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCC
* * *
13193091 TTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTCTCAAAAAATACATTCA
129 TTTAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCA
* * *
13193156 ATAATTATGTACGTAAATTAGAAGGAATTAGTGAAAGTATTTTTTTCTAGAATAAACACCTTCAC
194 ATAATTATGCACGTAAATTAGAAGAAATTAGTGAAAGTA-TTTTTTCTAGAATAAACGCCTTCAC
* *
13193221 AAAGCATCTTAAAATTTGAGTTGTAAAATATTGAAGGCGCTTTTCACTTGAAGATGCCTTTAATA
258 AAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCGTTTTTCACTTGAAGATGCCTTTAATA
* * * *
13193286 ATCTCAAAAAATTTT-TAAAAATTTTTGAAGGTGTTTGTTCTCAAGAAATACCTTCAAAAATTAT
323 ATCTC-AAAAATTTTATAAAAATTTTTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTAT
13193350 GCACGTAAATTAGAAGGAATTAGTGAAGGTTTTTTTTTAGAATAAATGCCTTCACTAAGCATCTC
387 GCACGTAAATTAGAAGGAATTAGTGAAGGTTTTTTTTTAGAATAAATGCCTTCACTAAGCATCTC
* * **
13193415 AAAATTTGAGTTCTAAAATATTGATGGCATTTTCCACTGGAAGATGCCTTTAATAATCCCAAAAA
452 AAAATTTGAGTTATAAAATATTGAAGGCATTTTCCACTGGAAGACACCTTTAATAATCCCAAAAA
* *
13193480 TTTTTAA-AGAAAATTATTGAA-GCTATTTGTTCTCAAGAAA
517 -TTTTAAGAGAAAATTATTGAAGGC-ATTTGTTCTAAAAAAA
* * * *
13193520 CACCTTCAATAATTATGCAAAAAAATTAGAATGAATTAGTGAAGGCATTTTTTCTAGAATAAACG
1 CACCTTCAAAAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCA-TTTTTCTAGAATAAACG
* * *
13193585 CATTCACTAAGCTTCTAAATATTTGAGTTCTAAAATATTGAAGGCGTATTTCACTGGAAGATGCC
65 CATTCACTAAGCTTCTAAA-ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCC
* * * * * *
13193650 TTTAATAAT-ATCAAAAATTTTAAGAGAAAATTATTGAA-GTGTTTGTTTTTAAAAAAATGCCTT
129 TTTAATAATCCT-AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTG-TTCTCAAAAAATACCTT
* * * * * * * * * * *
13193713 AAAAAATTATGCATGTAAATTATAAGGAGTTAGTGAAAGCATTTTTCCTAAAAAAAAGCGCCTTG
192 CAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAAGTATTTTTTCTAGAATAAA-CGCCTTC
* * * * * * * *
13193778 ACTAGGTATCTCAAATTTTGAGTTGTGAACTATTGAAGGCATTTTTCACTTGAAGACGCCTTTAA
256 ACAAAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCGTTTTTCACTTGAAGATGCCTTTAA
* * * *
13193843 TAATCTCAAAAATTTTTTAAAAAAATTATTAAAGGCGTTTTTTGTCAAAAAATACCTTCAATAAT
321 TAATCTCAAAAA--TTTTATAAAAATTTTTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAAT
* * * * *
13193908 TACGCACGTAAATTAGAAGGAA--AGTGAAGGTGTTTTGTTAGAATAAATGCCTTCACTAATCGT
384 TATGCACGTAAATTAGAAGGAATTAGTGAAGGTTTTTTTTTAGAATAAATGCCTTCACTAAGCAT
* * * * *
13193971 CGT-AAAATTTGAGTAATGAAATATTGAAGGCATTTTCCATTGGAAGACGA-TTTTAATAATCTC
449 C-TCAAAATTTGAGTTATAAAATATTGAAGGCATTTTCCACTGGAAGAC-ACCTTTAATAATCCC
* * *
13194034 AAAAATTTTAAGAGAAAATTATTAAAGACGTTTGTTCTAAAAAAA
512 AAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
* * ** *
13194079 CGCCTTAAAAAATTATGCATGTAAATTAGAAAGAATTAGTGAAGGCATTTTGCTAGAATAAACGC
1 CACCTTCAAAAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGC
* * * * * * * * *
13194144 CTTCACTAAGCATCCCAAAATTTGAGTAGTAGAATATTGAAGGTATTTTTCACTAGAAGACGCAT
66 ATTCACTAAGC-TTCTAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCCT
* * * ** *
13194209 TTAATAATGCTAAAAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGTCTTTAA
130 TTAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAA
* * * * *
13194274 TAATTATTCACATAAATTAGAAGAAATTAGTG-AAGACATTTTTTCTAGAATAAACGCATTCACT
195 TAATTATGCACGTAAATTAGAAGAAATTAGTGAAAG-TATTTTTTCTAGAATAAACGCCTTCACA
* * * ** * * *
13194338 AACCATCCCAAAATTTTAGTTGTGGAATATTGAATGTGTTTTTTA-TTGGAAGATGCCTTTAATA
259 AAGCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCGTTTTTCACTT-GAAGATGCCTTTAATA
* *
13194402 ATCTCAAAAATTTTAAGAAAAAATTTTTAAAGGCGTTTGTTCTCAAAAAATGCCTTCAATAATTA
323 ATCTCAAAAATTTT-A-TAAAAATTTTTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTA
** * * * *
13194467 TGCATATAAATTAGAAGCAATTAGTGAAGGCATTTTTTCTAGAATAAATGCCTTCACTAAGCGTC
386 TGCACGTAAATTAGAAGGAATTAGTGAAGG-TTTTTTTTTAGAATAAATGCCTTCACTAAGCATC
* * ** * * * *
13194532 TCAAAATTTGAGTTTTGAAATATTGAAGGTGTTTTTCATTGGAAGACACCTTTAATAATTCTAAA
450 TCAAAATTTGAGTTATAAAATATTGAAGGCATTTTCCACTGGAAGACACCTTTAATAATCCCAAA
* *
13194597 AATTTTAAGA-AGAAATTATTGAAGGCATTTATTCTCAAAAAA
515 AATTTTAAGAGA-AAATTATTGAAGGCATTTGTTCTAAAAAAA
** * * * **
13194639 TGCATTCAATAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCATTTTTCTTGAATAAATAC
1 CACCTTCAAAAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGC
* * *
13194704 -CTCAACTAACCGTCTAAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCC
66 ATTC-ACTAAGCTTCT-AAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCC
*
13194768 TTTAATAATCCTAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAA
129 TTTAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAA
13194825 CACTTTCACT
Statistics
Matches: 1586, Mismatches: 243, Indels: 72
0.83 0.13 0.04
Matches are distributed among these distances:
555 4 0.00
556 3 0.00
557 129 0.08
558 191 0.12
559 544 0.34
560 291 0.18
561 107 0.07
562 60 0.04
563 162 0.10
564 86 0.05
565 9 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (556 bp):
CACCTTCAAAAATTATGCACATAAATTAGAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGC
ATTCACTAAGCTTCTAAAATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTGGAAGATGCCTT
TAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAAT
AATTATGCACGTAAATTAGAAGAAATTAGTGAAAGTATTTTTTCTAGAATAAACGCCTTCACAAA
GCATCTCAAAATTTGAGTTGTAAAATATTGAAGGCGTTTTTCACTTGAAGATGCCTTTAATAATC
TCAAAAATTTTATAAAAATTTTTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATGCAC
GTAAATTAGAAGGAATTAGTGAAGGTTTTTTTTTAGAATAAATGCCTTCACTAAGCATCTCAAAA
TTTGAGTTATAAAATATTGAAGGCATTTTCCACTGGAAGACACCTTTAATAATCCCAAAAATTTT
AAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
Found at i:13200003 original size:2 final size:2
Alignment explanation
Indices: 13199996--13200029 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13199986 CTCATTTTGA
13199996 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
13200030 TATGTGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13206355 original size:22 final size:21
Alignment explanation
Indices: 13206327--13206478 Score: 137
Period size: 22 Copynumber: 7.0 Consensus size: 21
13206317 GTAAAATAAT
*
13206327 ATAATTTAGTAGTAAATTATTG
1 ATAATTTAATA-TAAATTATTG
* *
13206349 ATAATTTAATAATTAATTAATG
1 ATAATTTAAT-ATAAATTATTG
* * *
13206371 ATAATTTAATAAAAATCATGG
1 ATAATTTAATATAAATTATTG
* *
13206392 ATAATTTAATATAAATCAATG
1 ATAATTTAATATAAATTATTG
*
13206413 ATAAATTAATTATAAATTA-TG
1 ATAATTTAA-TATAAATTATTG
13206434 AATAATTTAATATAAA-TATGTG
1 -ATAATTTAATATAAATTAT-TG
* *
13206456 ATAATTTTATAATAAATAATTG
1 ATAATTTAAT-ATAAATTATTG
13206478 A
1 A
13206479 AAACTAAGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.02
21 49 0.46
22 53 0.50
23 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (21 bp):
ATAATTTAATATAAATTATTG
Found at i:13206396 original size:21 final size:21
Alignment explanation
Indices: 13206348--13206472 Score: 94
Period size: 21 Copynumber: 5.8 Consensus size: 21
13206338 GTAAATTATT
* *
13206348 GATAATTTAATAATTAATTAAT-
1 GATAATTTAATAA--AAATCATG
13206370 GATAATTTAATAAAAATCATG
1 GATAATTTAATAAAAATCATG
*
13206391 GATAATTTAATATAAATCAAT-
1 GATAATTTAATAAAAATC-ATG
* * *
13206412 GATAAATTAATTATAAATTATG
1 GATAATTTAA-TAAAAATCATG
* *
13206434 AATAATTTAATATAAAT-ATG
1 GATAATTTAATAAAAATCATG
*
13206454 TGATAATTTTATAATAAAT
1 -GATAATTTAATAA-AAAT
13206473 AATTGAAAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.09
21 45 0.52
22 34 0.39
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (21 bp):
GATAATTTAATAAAAATCATG
Found at i:13206472 original size:43 final size:42
Alignment explanation
Indices: 13206320--13206472 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
13206310 TTTAAAAGTA
* *
13206320 AAATA-AT-ATAATTTAGTAGTAAATTATTGATAATTTAATAAT
1 AAATATATGATAATTTAATAATAAATTA-TGATAATTTAAT-AT
* *
13206362 TAAT-TAATGATAATTTAATAA-AAATCATGGATAATTTAATAT
1 AAATAT-ATGATAATTTAATAATAAATTAT-GATAATTTAATAT
* *
13206404 AAATCA-ATGATAAATTAATTATAAATTATGAATAATTTAATAT
1 AAAT-ATATGATAATTTAATAATAAATTATG-ATAATTTAATAT
* *
13206447 AAATATGTGATAATTTTATAATAAAT
1 AAATATATGATAATTTAATAATAAAT
13206473 AATTGAAAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 24 0.27
43 56 0.62
44 10 0.11
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (42 bp):
AAATATATGATAATTTAATAATAAATTATGATAATTTAATAT
Found at i:13206656 original size:21 final size:21
Alignment explanation
Indices: 13206608--13206658 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
13206598 AATAATAAAT
* *
13206608 TAGTTAATTATTGATAACTTTA
1 TAGTAAATTATCGATAAC-TTA
13206630 TAGTAAATTATCGATAA-TTA
1 TAGTAAATTATCGATAACTTA
13206650 GTAGTAAAT
1 -TAGTAAAT
13206659 AAATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 15 0.58
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (21 bp):
TAGTAAATTATCGATAACTTA
Found at i:13207146 original size:21 final size:21
Alignment explanation
Indices: 13207004--13207155 Score: 67
Period size: 21 Copynumber: 7.1 Consensus size: 21
13206994 TTATCATAAA
13207004 TTATCAAAATTATATAAAAAG
1 TTATCAAAATTATATAAAAAG
* * * *
13207025 TTA-CTTAAATTACATTAAGATG
1 TTATC-AAAATTATA-TAAAAAG
* *
13207047 TTATCAAAATTTTATAAAAAAT
1 TTATCAAAATTATAT-AAAAAG
* *
13207069 TTAT-AAAATTAGTATCAACAG
1 TTATCAAAATTA-TATAAAAAG
** * *
13207090 TTAAAAAAAGTATATCATAAA-
1 TTATCAAAATTATAT-AAAAAG
*** * *
13207111 TTATTGTACTAATATAAAAAG
1 TTATCAAAATTATATAAAAAG
**
13207132 TTATCAAAATTATATCGAAAG
1 TTATCAAAATTATATAAAAAG
13207153 TTA
1 TTA
13207156 CCCAAATTTT
Statistics
Matches: 89, Mismatches: 34, Indels: 16
0.64 0.24 0.12
Matches are distributed among these distances:
20 5 0.06
21 51 0.57
22 32 0.36
23 1 0.01
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (21 bp):
TTATCAAAATTATATAAAAAG
Found at i:13207162 original size:21 final size:20
Alignment explanation
Indices: 13207128--13207172 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13207118 ACTAATATAA
*
13207128 AAAGTTATCAAAATTATATC
1 AAAGTTACCAAAATTATATC
* *
13207148 GAAAGTTACCCAAATTTTATC
1 -AAAGTTACCAAAATTATATC
13207169 AAAG
1 AAAG
13207173 GATATAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAGTTACCAAAATTATATC
Found at i:13209545 original size:20 final size:19
Alignment explanation
Indices: 13209493--13209546 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
13209483 ATTTGTCCAG
* *
13209493 AAAAAGATACAAAGTATGT
1 AAAAAGATACAAAATATAT
* *
13209512 ATAAA-ATACGAAATATAAT
1 AAAAAGATACAAAATAT-AT
13209531 AAAAAGATACAAAATA
1 AAAAAGATACAAAATA
13209547 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 9 0.33
19 9 0.33
20 9 0.33
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.20
Consensus pattern (19 bp):
AAAAAGATACAAAATATAT
Done.