Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 131 of 138
Found at i:18473117 original size:17 final size:17
Alignment explanation
Indices: 18473095--18473137 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18473085 CCTTAACCCT
* *
18473095 AACCTAGACCCTAAACC
1 AACCTAAACCCTAAACA
18473112 AACCTAAACCCTAAACA
1 AACCTAAACCCTAAACA
*
18473129 AACCCAAAC
1 AACCTAAAC
18473138 ATTAACCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.40, G:0.02, T:0.09
Consensus pattern (17 bp):
AACCTAAACCCTAAACA
Found at i:18474237 original size:24 final size:23
Alignment explanation
Indices: 18474210--18474297 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 23
18474200 TGTACAGAAC
18474210 TTCAAATTGTTTCATTTATACAAG
1 TTCAAATT-TTTCATTTATACAAG
*
18474234 TTCAAATTTTTTCATTTATACAAT
1 TTCAAA-TTTTTCATTTATACAAG
*
18474258 TTCAAAATTTATCATTTATACAAG
1 TTC-AAATTTTTCATTTATACAAG
* *
18474282 TGCAACTTTTGTCATT
1 TTCAAATTTT-TCATT
18474298 CATATCTGGC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.09
24 45 0.82
25 5 0.09
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.48
Consensus pattern (23 bp):
TTCAAATTTTTCATTTATACAAG
Found at i:18477137 original size:109 final size:109
Alignment explanation
Indices: 18477006--18477226 Score: 415
Period size: 109 Copynumber: 2.0 Consensus size: 109
18476996 TTTACTTCGT
*
18477006 TAATTTTGCTTGATTTTTAGCAAATTAATTTAATTACCCACCTCATTATATTAATTAACTATTGA
1 TAATTTTGCTTGATTTTTAGCAAATTAATTTAATTACCCACCTAATTATATTAATTAACTATTGA
*
18477071 GTAGGAAATTAATTCAAGTCATGTAATAAGCCATTAGAGAGCCA
66 ATAGGAAATTAATTCAAGTCATGTAATAAGCCATTAGAGAGCCA
*
18477115 TAATTTTGCTTGATTTTTAGCAAATTAATTTAATTACCCACCTAATTATATTAATTATCTATTGA
1 TAATTTTGCTTGATTTTTAGCAAATTAATTTAATTACCCACCTAATTATATTAATTAACTATTGA
18477180 ATAGGAAATTAATTCAAGTCATGTAATAAGCCATTAGAGAGCCA
66 ATAGGAAATTAATTCAAGTCATGTAATAAGCCATTAGAGAGCCA
18477224 TAA
1 TAA
18477227 AAAACTACAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (109 bp):
TAATTTTGCTTGATTTTTAGCAAATTAATTTAATTACCCACCTAATTATATTAATTAACTATTGA
ATAGGAAATTAATTCAAGTCATGTAATAAGCCATTAGAGAGCCA
Found at i:18484578 original size:125 final size:124
Alignment explanation
Indices: 18484333--18484582 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 124
18484323 TCATCGTTGA
18484333 TGCCTATAGGCTAACCTCCCCTGAAGTAATAAATAAGATAAAATACTGGGGTAGGTTTAAGTAGC
1 TGCCTATAGGCTAACCTCCCCTGAAGTAATAAATAAGATAAAATACTGGGGTAGGTTTAAGTAGC
18484398 TTCATAGGATTTTATTTTAACCTAATTTTATCTAACTGCTAGCTTAGTTTTACAAAAAT
66 TTCATAGGATTTTATTTTAACCTAATTTTATCTAACTGCTAGCTTAGTTTTACAAAAAT
18484457 TGCCTATAGGCTAACCTCCCCTGAAGTAATAAATAAGATAAAATACTGGGGTAGGTTTAAGGTAG
1 TGCCTATAGGCTAACCTCCCCTGAAGTAATAAATAAGATAAAATACTGGGGTAGGTTTAA-GTAG
18484522 CTTCATAGGATTTTATTTTAACCTAATTTTATCTAACTGCTAGCTTAGTTTTACAAAAAT
65 CTTCATAGGATTTTATTTTAACCTAATTTTATCTAACTGCTAGCTTAGTTTTACAAAAAT
18484582 T
1 T
18484583 TCCTTTTCAG
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 60 0.48
125 65 0.52
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (124 bp):
TGCCTATAGGCTAACCTCCCCTGAAGTAATAAATAAGATAAAATACTGGGGTAGGTTTAAGTAGC
TTCATAGGATTTTATTTTAACCTAATTTTATCTAACTGCTAGCTTAGTTTTACAAAAAT
Found at i:18494367 original size:109 final size:109
Alignment explanation
Indices: 18494176--18494392 Score: 425
Period size: 109 Copynumber: 2.0 Consensus size: 109
18494166 TATAGTTTTT
18494176 TTATGGCTCTCTAATGGCTTATTACATGACTTGAATTAATTTCCTACTCAATAGATAATTAATAT
1 TTATGGCTCTCTAATGGCTTATTACATGACTTGAATTAATTTCCTACTCAATAGATAATTAATAT
18494241 AATTAGGTGGGTAATTAAATTAATTTGCTAAAAATCAAGCAAAA
66 AATTAGGTGGGTAATTAAATTAATTTGCTAAAAATCAAGCAAAA
*
18494285 TTATGGCTCTCTAATGGCTTATTACATGACTTGAATTAATTTCCTATTCAATAGATAATTAATAT
1 TTATGGCTCTCTAATGGCTTATTACATGACTTGAATTAATTTCCTACTCAATAGATAATTAATAT
18494350 AATTAGGTGGGTAATTAAATTAATTTGCTAAAAATCAAGCAAA
66 AATTAGGTGGGTAATTAAATTAATTTGCTAAAAATCAAGCAAA
18494393 TTAACCAAGT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (109 bp):
TTATGGCTCTCTAATGGCTTATTACATGACTTGAATTAATTTCCTACTCAATAGATAATTAATAT
AATTAGGTGGGTAATTAAATTAATTTGCTAAAAATCAAGCAAAA
Found at i:18497143 original size:24 final size:24
Alignment explanation
Indices: 18497116--18497186 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
18497106 AAAGTTGCAC
* *
18497116 TTGTATAAATGATAAATTTTGAAA
1 TTGTATAAATGAAAAAATTTGAAA
*
18497140 TTGTATAAATGAAAAAATTTGAAC
1 TTGTATAAATGAAAAAATTTGAAA
*
18497164 TTGTATAAATGAAACAATTTGAA
1 TTGTATAAATGAAAAAATTTGAA
18497187 GTTCTGTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.37
Consensus pattern (24 bp):
TTGTATAAATGAAAAAATTTGAAA
Found at i:18500232 original size:17 final size:17
Alignment explanation
Indices: 18500207--18500249 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18500197 CTAGGTTAAT
* *
18500207 GTTTGGGTTTGTTTAGG
1 GTTTAGGTTGGTTTAGG
18500224 GTTTAGGTTGGTTTAGG
1 GTTTAGGTTGGTTTAGG
*
18500241 GTCTAGGTT
1 GTTTAGGTT
18500250 AGGGTTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.09, C:0.02, G:0.40, T:0.49
Consensus pattern (17 bp):
GTTTAGGTTGGTTTAGG
Found at i:18500311 original size:19 final size:19
Alignment explanation
Indices: 18500233--18500312 Score: 56
Period size: 19 Copynumber: 4.3 Consensus size: 19
18500223 GGTTTAGGTT
* *
18500233 GGTTTAGGGTCTAGGTTAG
1 GGTTTAGGGTATAGTTTAG
* * *
18500252 GGTTAAGGCTATGGTTTA-
1 GGTTTAGGGTATAGTTTAG
* * * *
18500270 GGTTTAGGGTTTGGTTCAA
1 GGTTTAGGGTATAGTTTAG
18500289 GGTTTAAGGGT-TAGTTTAG
1 GGTTT-AGGGTATAGTTTAG
18500308 GGTTT
1 GGTTT
18500313 CATGGGTGGT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.30
19 28 0.60
20 5 0.11
ACGTcount: A:0.17, C:0.04, G:0.38, T:0.41
Consensus pattern (19 bp):
GGTTTAGGGTATAGTTTAG
Found at i:18500324 original size:19 final size:19
Alignment explanation
Indices: 18500302--18500399 Score: 105
Period size: 19 Copynumber: 5.3 Consensus size: 19
18500292 TTAAGGGTTA
18500302 GTTTAGGGTTTCATGGGTG
1 GTTTAGGGTTTCATGGGTG
18500321 GTTT-GGTGTTT-ATGGGTG
1 GTTTAGG-GTTTCATGGGTG
* * *
18500339 ATTTAGGGTTTCATAGGTA
1 GTTTAGGGTTTCATGGGTG
18500358 GTTT-GGGTCTT-ATGGGTG
1 GTTTAGGGT-TTCATGGGTG
* *
18500376 GTTTAGGATTTCATGGGTA
1 GTTTAGGGTTTCATGGGTG
18500395 GTTTA
1 GTTTA
18500400 AAGTTTGGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
18 31 0.48
19 34 0.52
ACGTcount: A:0.14, C:0.04, G:0.37, T:0.45
Consensus pattern (19 bp):
GTTTAGGGTTTCATGGGTG
Found at i:18500344 original size:37 final size:37
Alignment explanation
Indices: 18500303--18500398 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
18500293 TAAGGGTTAG
*
18500303 TTTAGGGTTTCATGGGTGGTTTGGTGT-TTATGGGTGA
1 TTTAGGGTTTCATGGGTAGTTTGG-GTCTTATGGGTGA
* *
18500340 TTTAGGGTTTCATAGGTAGTTTGGGTCTTATGGGTGG
1 TTTAGGGTTTCATGGGTAGTTTGGGTCTTATGGGTGA
*
18500377 TTTAGGATTTCATGGGTAGTTT
1 TTTAGGGTTTCATGGGTAGTTT
18500399 AAAGTTTGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
36 2 0.04
37 51 0.96
ACGTcount: A:0.14, C:0.04, G:0.36, T:0.46
Consensus pattern (37 bp):
TTTAGGGTTTCATGGGTAGTTTGGGTCTTATGGGTGA
Found at i:18503266 original size:18 final size:20
Alignment explanation
Indices: 18503231--18503267 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
18503221 GCATGAATGG
18503231 TTAAGGGTTGGTTTTAGGGC
1 TTAAGGGTTGGTTTTAGGGC
18503251 TTAA-GGTTGG-TTTAGGG
1 TTAAGGGTTGGTTTTAGGG
18503268 TCTAGGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.16, C:0.03, G:0.41, T:0.41
Consensus pattern (20 bp):
TTAAGGGTTGGTTTTAGGGC
Found at i:18503268 original size:30 final size:30
Alignment explanation
Indices: 18503228--18503300 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
18503218 AATGCATGAA
* *
18503228 TGGTTAAGGGTT-GGTTTTAGGGCTTAAGG-T
1 TGGTTTAGGGTTAGG-TTAAGGGCTT-AGGTT
*
18503258 TGGTTTAGGGTCTAGGTTAAGGTCTTAGGTT
1 TGGTTTAGGGT-TAGGTTAAGGGCTTAGGTT
18503289 TGGTTTAGGGTT
1 TGGTTTAGGGTT
18503301 TTGGATTGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 14 0.38
31 21 0.57
32 2 0.05
ACGTcount: A:0.15, C:0.04, G:0.38, T:0.42
Consensus pattern (30 bp):
TGGTTTAGGGTTAGGTTAAGGGCTTAGGTT
Found at i:18503368 original size:19 final size:19
Alignment explanation
Indices: 18503344--18503394 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
18503334 TTTTGGGGTT
18503344 TGGTTTAGGGTTTCATGGG
1 TGGTTTAGGGTTTCATGGG
18503363 TGGTTTAGGGTTTCATGGG
1 TGGTTTAGGGTTTCATGGG
*
18503382 TAGTTTAGGGTTT
1 TGGTTTAGGGTTT
18503395 AGAATTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.12, C:0.04, G:0.39, T:0.45
Consensus pattern (19 bp):
TGGTTTAGGGTTTCATGGG
Found at i:18503404 original size:14 final size:14
Alignment explanation
Indices: 18503385--18503429 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
18503375 TCATGGGTAG
*
18503385 TTTAGGGTTTAGAA
1 TTTAGGGTTTGGAA
18503399 TTTAGGGTTTGGAA
1 TTTAGGGTTTGGAA
18503413 TTT-GAGGTTTGGAA
1 TTTAG-GGTTTGGAA
18503427 TTT
1 TTT
18503430 TGGATTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 1 0.03
14 28 0.97
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTGGAA
Found at i:18507280 original size:163 final size:164
Alignment explanation
Indices: 18506970--18507301 Score: 465
Period size: 163 Copynumber: 2.0 Consensus size: 164
18506960 TATGCACCTT
* * *
18506970 CATGGCTAAGTAAAAGAATCATTCTTAAAGTAAATCTTTTTGGCTTAATACAAGAGAGAGTCTAT
1 CATGGCTAAGTAAAAGAATCACTCTTAAAGTAAATCTTTTAGGCTGAATACAAGAGAGAGTCTAT
* * * * *
18507035 TTGGAAGGAAAACTCTTCTTTTGTTGCATGGTTGAAGGGATTGTATCAATGAGGTTTAGCCTACC
66 TTGCAAGGAAAACTCTTCTTTTGTTGCATGGTTGAAGGGATTGTATCAACGAGGCTCAGCCCACC
18507100 CTTAATCTTAGATGGCTGAATATGCCTTTGCATG
131 CTTAATCTTAGATGGCTGAATATGCCTTTGCATG
* * *
18507134 CATGGCTAAGTAAATGAATCACTCTTGAAGTAAATCTCTTTAGTC-GAATACAAG-GAAGAGTCT
1 CATGGCTAAGTAAAAGAATCACTCTTAAAGTAAATCT-TTTAGGCTGAATACAAGAG-AGAGTCT
* * *
18507197 ATTTGCAAGTAAAACT-TTTTTTTGTTGCATGGTTGAAGGGATTGTATCAACGAGGCTCGGCCCA
64 ATTTGCAAGGAAAACTCTTCTTTTGTTGCATGGTTGAAGGGATTGTATCAACGAGGCTCAGCCCA
* *
18507261 TCTTTAATCTT-GCATGGCTGAATATGCCTTTGCATG
129 CCCTTAATCTTAG-ATGGCTGAATATGCCTTTGCATG
18507297 CATGG
1 CATGG
18507302 ATTGCATGCT
Statistics
Matches: 149, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
162 1 0.01
163 80 0.54
164 63 0.42
165 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (164 bp):
CATGGCTAAGTAAAAGAATCACTCTTAAAGTAAATCTTTTAGGCTGAATACAAGAGAGAGTCTAT
TTGCAAGGAAAACTCTTCTTTTGTTGCATGGTTGAAGGGATTGTATCAACGAGGCTCAGCCCACC
CTTAATCTTAGATGGCTGAATATGCCTTTGCATG
Found at i:18507524 original size:19 final size:21
Alignment explanation
Indices: 18507494--18507535 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18507484 TAGGGTGTCA
18507494 GTTTTAAGTTTAGAGT-TAGG
1 GTTTTAAGTTTAGAGTCTAGG
*
18507514 GTTTT-AGTTTAGGGTCTAGG
1 GTTTTAAGTTTAGAGTCTAGG
18507534 GT
1 GT
18507536 CTAGGGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.45
Consensus pattern (21 bp):
GTTTTAAGTTTAGAGTCTAGG
Found at i:18507574 original size:33 final size:32
Alignment explanation
Indices: 18507498--18507574 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
18507488 GTGTCAGTTT
* *
18507498 TAAGTTTAGAGTTAGGGTTTTAGTTTAGGGTC
1 TAAGTTTAGGGTTAGGGTTTTAGTTTAAGGTC
* * *
18507530 TAGGGTCTAGGGTTATGGTTTTAGTTTAAGGTC
1 TA-AGTTTAGGGTTAGGGTTTTAGTTTAAGGTC
18507563 TAAGTTTTAGGG
1 TAAG-TTTAGGG
18507575 CTTTATGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
32 3 0.08
33 33 0.92
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (32 bp):
TAAGTTTAGGGTTAGGGTTTTAGTTTAAGGTC
Found at i:18507634 original size:13 final size:13
Alignment explanation
Indices: 18507568--18507715 Score: 124
Period size: 13 Copynumber: 11.2 Consensus size: 13
18507558 AGGTCTAAGT
*
18507568 TTTAGGGCTTTATG
1 TTTAGGG-TTTAGG
*
18507582 TTTAGGGTTTTGG
1 TTTAGGGTTTAGG
* *
18507595 ATTAAGGTTTAGG
1 TTTAGGGTTTAGG
18507608 TCTT-GGG-TTAGGG
1 T-TTAGGGTTTA-GG
* *
18507621 TTTAGGTTTTGGG
1 TTTAGGGTTTAGG
*
18507634 TTTTGGGTTTTAGG
1 TTTAGGG-TTTAGG
*
18507648 TTTAAGGTTTAGG
1 TTTAGGGTTTAGG
18507661 TTTAGGGTTT-GG
1 TTTAGGGTTTAGG
*
18507673 GTTAGGGTTTAAGG
1 TTTAGGGTTT-AGG
*
18507687 TTTAGGACTTT-GG
1 TTTAGG-GTTTAGG
18507700 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
18507713 TTT
1 TTT
18507716 TGGGCTTAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
12 19 0.18
13 56 0.53
14 28 0.26
15 3 0.03
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:18507688 original size:19 final size:18
Alignment explanation
Indices: 18507590--18507689 Score: 85
Period size: 19 Copynumber: 5.2 Consensus size: 18
18507580 TGTTTAGGGT
* *
18507590 TTTGGATTAAGGTTTAGG
1 TTTGGGTTAGGGTTTAGG
18507608 TCTTGGGTTAGGGTTTAGG
1 T-TTGGGTTAGGGTTTAGG
*
18507627 TTTTGGGTTTTGGGTTTTAGG
1 -TTTGGG-TTAGGG-TTTAGG
*
18507648 TTTAAGGTTTA-GGTTTAGGG
1 TTT--GGGTTAGGGTTTA-GG
18507668 TTTGGGTTAGGGTTTAAGG
1 TTTGGGTTAGGGTTT-AGG
18507687 TTT
1 TTT
18507690 AGGACTTTGG
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
18 6 0.09
19 34 0.51
20 17 0.25
21 8 0.12
22 2 0.03
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.48
Consensus pattern (18 bp):
TTTGGGTTAGGGTTTAGG
Found at i:18507708 original size:7 final size:7
Alignment explanation
Indices: 18507520--18507712 Score: 92
Period size: 7 Copynumber: 29.0 Consensus size: 7
18507510 TAGGGTTTTA
18507520 GTTTAGG
1 GTTTAGG
*
18507527 GTCTAGG
1 GTTTAGG
*
18507534 GTCTAGG
1 GTTTAGG
18507541 G-TTATGG
1 GTTTA-GG
*
18507548 TTTTA--
1 GTTTAGG
*
18507553 GTTTAAG
1 GTTTAGG
* *
18507560 GTCTAAG
1 GTTTAGG
*
18507567 TTTTAGG
1 GTTTAGG
*
18507574 GCTTTA-T
1 G-TTTAGG
18507581 GTTTAGG
1 GTTTAGG
*
18507588 GTTT-TG
1 GTTTAGG
* *
18507594 GATTAAG
1 GTTTAGG
18507601 GTTTA-G
1 GTTTAGG
18507607 GTCTT-GG
1 GT-TTAGG
18507614 G-TTAGG
1 GTTTAGG
18507620 GTTTA-G
1 GTTTAGG
*
18507626 GTTTTGG
1 GTTTAGG
*
18507633 GTTTTGG
1 GTTTAGG
18507640 GTTTTA-G
1 G-TTTAGG
*
18507647 GTTTAAG
1 GTTTAGG
18507654 GTTTA-G
1 GTTTAGG
18507660 GTTTAGG
1 GTTTAGG
18507667 GTTT-GG
1 GTTTAGG
18507673 G-TTAGG
1 GTTTAGG
*
18507679 GTTTAAG
1 GTTTAGG
18507686 GTTTAGG
1 GTTTAGG
*
18507693 ACTTT--G
1 -GTTTAGG
18507699 GTTTAGG
1 GTTTAGG
18507706 GTTTAGG
1 GTTTAGG
18507713 TTTTGGGCTT
Statistics
Matches: 145, Mismatches: 21, Indels: 40
0.70 0.10 0.19
Matches are distributed among these distances:
5 11 0.08
6 38 0.26
7 83 0.57
8 13 0.09
ACGTcount: A:0.16, C:0.03, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:18510458 original size:25 final size:25
Alignment explanation
Indices: 18510423--18510480 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
18510413 TATGTTTTGC
18510423 AACAAACAATTTCAAAAACACATGA
1 AACAAACAATTTCAAAAACACATGA
* * * *
18510448 AACAAATAATTTTAATAACATATGA
1 AACAAACAATTTCAAAAACACATGA
18510473 AACAAACA
1 AACAAACA
18510481 TCCACCTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.60, C:0.16, G:0.03, T:0.21
Consensus pattern (25 bp):
AACAAACAATTTCAAAAACACATGA
Found at i:18511519 original size:21 final size:22
Alignment explanation
Indices: 18511477--18511520 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18511467 TTTGTTTTTA
* *
18511477 TTCATTATTTTTATTTACTATT
1 TTCATAATTTTTACTTACTATT
*
18511499 TTCATAATTTTT-CTTATTATT
1 TTCATAATTTTTACTTACTATT
18511520 T
1 T
18511521 AAATAATTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (22 bp):
TTCATAATTTTTACTTACTATT
Found at i:18511786 original size:13 final size:14
Alignment explanation
Indices: 18511768--18511804 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
18511758 TTCAGTTTTC
18511768 TTTAAA-AATTAAA
1 TTTAAACAATTAAA
18511781 TTTAAACAATT-AA
1 TTTAAACAATTAAA
*
18511794 CTTAAACAATT
1 TTTAAACAATT
18511805 CATTAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTAAACAATTAAA
Found at i:18513268 original size:3 final size:3
Alignment explanation
Indices: 18513260--18513286 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18513250 TAATCAGTAA
18513260 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
18513287 TTAAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18513928 original size:72 final size:72
Alignment explanation
Indices: 18513811--18513955 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 72
18513801 GATTAAATAT
* *
18513811 TGTGTTTATTGTCATAGAAACATAATGTTTATTACTAACACTATGTTTATATAACAAAAATGTAA
1 TGTGTTTATTGTCATAAAAACATAATGTTTATTACGAACACTATGTTTATATAACAAAAATGTAA
18513876 TGGTTGG
66 TGGTTGG
* * * *
18513883 TGTGTTTATTGTCATAAAAACATAGTGTTTGTTACGAACACTATGTTTATATAACAGAAATGTAG
1 TGTGTTTATTGTCATAAAAACATAATGTTTATTACGAACACTATGTTTATATAACAAAAATGTAA
18513948 TGGTTGG
66 TGGTTGG
18513955 T
1 T
18513956 TCAATGATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (72 bp):
TGTGTTTATTGTCATAAAAACATAATGTTTATTACGAACACTATGTTTATATAACAAAAATGTAA
TGGTTGG
Found at i:18514936 original size:14 final size:15
Alignment explanation
Indices: 18514902--18514939 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18514892 TGCTCTTTCA
* *
18514902 TTTCTCTCTCTATTG
1 TTTCTTTCTCAATTG
18514917 TTTCTTTCTCAATT-
1 TTTCTTTCTCAATTG
18514931 TTTCTTTCT
1 TTTCTTTCT
18514940 TGAACCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.08, C:0.24, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTCTTTCTCAATTG
Found at i:18515534 original size:62 final size:62
Alignment explanation
Indices: 18515461--18515584 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 62
18515451 AGGTACTTAA
* * *
18515461 ACTTAAAAATCCTTTTTTTTTTGTTTATTCTGTAATACTGCATCCCAATATCATATATCTTT
1 ACTTAAAAATCCTTTGTTTTTTCTTTATTCTGTAATACTACATCCCAATATCATATATCTTT
* * *
18515523 ACTTTAAAATCCTTTGTTTTTTCTTTATTTTGTAATATTACATCCCAATATCATATATCTTT
1 ACTTAAAAATCCTTTGTTTTTTCTTTATTCTGTAATACTACATCCCAATATCATATATCTTT
18515585 CCTCAGTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.52
Consensus pattern (62 bp):
ACTTAAAAATCCTTTGTTTTTTCTTTATTCTGTAATACTACATCCCAATATCATATATCTTT
Found at i:18522372 original size:16 final size:16
Alignment explanation
Indices: 18522351--18522381 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18522341 ACAGTGAATG
18522351 TCTTGATCAATCAACA
1 TCTTGATCAATCAACA
18522367 TCTTGATCAATCAAC
1 TCTTGATCAATCAAC
18522382 TCCTTAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TCTTGATCAATCAACA
Found at i:18527366 original size:17 final size:17
Alignment explanation
Indices: 18527329--18527366 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18527319 AAAATTCTAA
*
18527329 AATACTTAAAAATATTT
1 AATACTTAAAAATATTG
18527346 AATACTTAAAGAATA-TG
1 AATACTTAAA-AATATTG
18527363 AATA
1 AATA
18527367 TAAATAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (17 bp):
AATACTTAAAAATATTG
Found at i:18540154 original size:19 final size:19
Alignment explanation
Indices: 18540130--18540166 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18540120 CTTAGTGTGT
18540130 TGGAGTGTCCAATTTATAG
1 TGGAGTGTCCAATTTATAG
18540149 TGGAGTGTCCAATTTATA
1 TGGAGTGTCCAATTTATA
18540167 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (19 bp):
TGGAGTGTCCAATTTATAG
Found at i:18540569 original size:27 final size:27
Alignment explanation
Indices: 18540539--18540594 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18540529 CACTAATTTG
18540539 ATCATAACTTGAGTTATACAAATTCAA
1 ATCATAACTTGAGTTATACAAATTCAA
18540566 ATCATAACTTGAGTTATACAAATTCAA
1 ATCATAACTTGAGTTATACAAATTCAA
18540593 AT
1 AT
18540595 TCAAATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (27 bp):
ATCATAACTTGAGTTATACAAATTCAA
Found at i:18541786 original size:96 final size:95
Alignment explanation
Indices: 18541649--18542098 Score: 430
Period size: 96 Copynumber: 4.7 Consensus size: 95
18541639 CTCAACATCA
* * * * * ****
18541649 TTGAGTGCTCGTCATATCAAAGGTATT-AGAACTTTGAAAACTTCAAATGTTTTGCTTGGAGGTC
1 TTGAATGCTCCTCGTATCAAAGGCATTGA-AACTTTGAAAACTTAAAATGTTTTGCCCAAAGGTC
* *
18541713 TTACAAATTATACCTGGAAGTCTTAACAATCT
65 TTACAAATTATGCCT-GAAGTCTTAAAAATCT
* *
18541745 TTGAATGCTCCTCGTATCAAAGGCATTGAAACTTT-ATAAACTTAAAATATTTTGCTCAAAGGTC
1 TTGAATGCTCCTCGTATCAAAGGCATTGAAACTTTGA-AAACTTAAAATGTTTTGCCCAAAGGTC
18541809 TTACAAATTATGCCTGAAGATCTTAAAAATCT
65 TTACAAATTATGCCTGAAG-TCTTAAAAATCT
* * *
18541841 TTGAATGCTCCTCATATCAAAGGCGTTGAAACTTTGAAAACTTAAAATATTTTGCCCGAAA-GTC
1 TTGAATGCTCCTCGTATCAAAGGCATTGAAACTTTGAAAACTTAAAATGTTTTGCCC-AAAGGTC
* ** *
18541905 TTACAGATTATTTC-AAAGGTCTTAAAAATCT
65 TTACAAATTATGCCTGAA-GTCTTAAAAATCT
* * * * * * * * * *
18541936 TCGAATGCTTCTTGTATCAAAGGTATTAAAACTTTAAAAATTTAAAATGTTTTGCCTAGAGATCT
1 TTGAATGCTCCTCGTATCAAAGGCATTGAAACTTTGAAAACTTAAAATGTTTTGCCCAAAGGTCT
* *
18542001 TATAGATTATGCCTAGAAGTCTTAAAAATC-
66 TACAAATTATGCCT-GAAGTCTTAAAAATCT
* * *
18542031 TTCAGATGCTTCTCGTATCAGAAGTG--TTGAAACTTTGAAAAAC-TAAAATGTTTTACCCAAAG
1 TTGA-ATGCTCCTCGTATCA-AAG-GCATTGAAACTTTG-AAAACTTAAAATGTTTTGCCCAAAG
18542093 GTCTTA
62 GTCTTA
18542099 GAGATTCGGG
Statistics
Matches: 296, Mismatches: 45, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
94 2 0.01
95 80 0.27
96 199 0.67
97 14 0.05
98 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (95 bp):
TTGAATGCTCCTCGTATCAAAGGCATTGAAACTTTGAAAACTTAAAATGTTTTGCCCAAAGGTCT
TACAAATTATGCCTGAAGTCTTAAAAATCT
Found at i:18542012 original size:191 final size:191
Alignment explanation
Indices: 18541732--18542104 Score: 470
Period size: 191 Copynumber: 2.0 Consensus size: 191
18541722 ATACCTGGAA
* * * *
18541732 GTCTTAACAATCTTTGAATGCTCCTCGTATCAAAGGCATTGAAACTTTATAAACTTAAAATATTT
1 GTCTTAAAAATCTTCGAATGCTCCTCGTATCAAAGGCATTAAAACTTTAAAAACTTAAAATATTT
* *
18541797 TGCTCAAAGGTCTTACAAATTATGCCT-GAAGATCTTAAAAATCTT-TGAATGCTCCTCATATCA
66 TGCTCAAAGATCTTACAAATTATGCCTAGAAG-TCTTAAAAATCTTCAG-ATGCTCCTCATATCA
*
18541860 -AAGGCGTTGAAACTTTG-AAAACTTAAAATATTTTGCCCGAAA-GTCTTACAGATTATTTCAAA
129 GAA-GCGTTGAAACTTTGAAAAAC-TAAAATATTTTACCC-AAAGGTCTTACAGATTATTTCAAA
18541922 G
191 G
* * * * *
18541923 GTCTTAAAAATCTTCGAATGCTTCTTGTATCAAAGGTATTAAAACTTTAAAAATTTAAAATGTTT
1 GTCTTAAAAATCTTCGAATGCTCCTCGTATCAAAGGCATTAAAACTTTAAAAACTTAAAATATTT
* * * * *
18541988 TGC-CTAGAGATCTTATAGATTATGCCTAGAAGTCTTAAAAATCTTCAGATGCTTCTCGTATCAG
66 TGCTC-AAAGATCTTACAAATTATGCCTAGAAGTCTTAAAAATCTTCAGATGCTCCTCATATCAG
* * *
18542052 AAGTGTTGAAACTTTGAAAAACTAAAATGTTTTACCCAAAGGTCTTAGAGATT
130 AAGCGTTGAAACTTTGAAAAACTAAAATATTTTACCCAAAGGTCTTACAGATT
18542105 CGGGTGCCAG
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
190 4 0.03
191 140 0.90
192 12 0.08
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (191 bp):
GTCTTAAAAATCTTCGAATGCTCCTCGTATCAAAGGCATTAAAACTTTAAAAACTTAAAATATTT
TGCTCAAAGATCTTACAAATTATGCCTAGAAGTCTTAAAAATCTTCAGATGCTCCTCATATCAGA
AGCGTTGAAACTTTGAAAAACTAAAATATTTTACCCAAAGGTCTTACAGATTATTTCAAAG
Found at i:18542478 original size:19 final size:20
Alignment explanation
Indices: 18542454--18542491 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18542444 CTTCCTTCTT
18542454 TTTTTTTATCTTTT-TTTTA
1 TTTTTTTATCTTTTCTTTTA
18542473 TTTTTTTATCTTTTCTTTT
1 TTTTTTTATCTTTTCTTTT
18542492 TCTTTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTATCTTTTCTTTTA
Found at i:18542503 original size:11 final size:10
Alignment explanation
Indices: 18542449--18542503 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 10
18542439 ATAGACTTCC
18542449 TTCTTTTTTT
1 TTCTTTTTTT
*
18542459 TTATCTTTTTT
1 TTCT-TTTTTT
*
18542470 TTATTTTTTT
1 TTCTTTTTTT
*
18542480 ATCTTTTCTTT
1 TTCTTTT-TTT
18542491 TTCTTTGTTTT
1 TTCTTT-TTTT
18542502 TT
1 TT
18542504 TTCTAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
10 14 0.37
11 23 0.61
12 1 0.03
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:18543400 original size:6 final size:6
Alignment explanation
Indices: 18543391--18543473 Score: 82
Period size: 6 Copynumber: 13.2 Consensus size: 6
18543381 CTATTTTCTT
18543391 TTTTTA TTTTTA TTTTT- TTTTGTA TTTTTACA TTTTTA -TTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTTT--A TTTTTA TTTTTA TTTTTA
18543440 TTATTGT- TTTTATA TTTTTA TATTTTA TTTTTA T
1 TT-TT-TA TTTT-TA TTTTTA T-TTTTA TTTTTA T
18543474 CTTATGTATT
Statistics
Matches: 67, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
5 9 0.13
6 33 0.49
7 18 0.27
8 7 0.10
ACGTcount: A:0.18, C:0.01, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:18543435 original size:37 final size:38
Alignment explanation
Indices: 18543392--18543470 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 38
18543382 TATTTTCTTT
*
18543392 TTTTATTTTTATT-TT-TTTTTGTATTTTTACATTTTTA
1 TTTTATTTTTATTATTGTTTTTATATTTTTACA-TTTTA
*
18543429 TTTTATTTTTATTATTGTTTTTATATTTTTATATTTTA
1 TTTTATTTTTATTATTGTTTTTATATTTTTACATTTTA
18543467 TTTT
1 TTTT
18543471 TATCTTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 13 0.34
38 11 0.29
39 14 0.37
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (38 bp):
TTTTATTTTTATTATTGTTTTTATATTTTTACATTTTA
Found at i:18543469 original size:33 final size:33
Alignment explanation
Indices: 18543391--18543484 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
18543381 CTATTTTCTT
18543391 TTTTTAT-TTTTATTTTT-TTTTGTATTTTTAC
1 TTTTTATATTTTATTTTTATTTTGTATTTTTAC
*
18543422 ATTTT-TATTTTATTTTTATTATTGT-TTTTATA-
1 TTTTTATATTTTATTTTTATT-TTGTATTTT-TAC
18543454 TTTTTATATTTTATTTTTATCTTATGTATTT
1 TTTTTATATTTTATTTTTAT-TT-TGTATTT
18543485 ATTAATATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
30 1 0.02
31 14 0.26
32 10 0.19
33 21 0.40
34 4 0.08
35 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (33 bp):
TTTTTATATTTTATTTTTATTTTGTATTTTTAC
Found at i:18543615 original size:20 final size:21
Alignment explanation
Indices: 18543570--18543620 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
18543560 ATATGCTATT
*
18543570 ATTTATCTGTTATTTAATTTTA
1 ATTTATCTGTTAATT-ATTTTA
*
18543592 ATTTATCTGTTAATT-TTTTG
1 ATTTATCTGTTAATTATTTTA
18543612 ATTTATCTG
1 ATTTATCTG
18543621 ATTTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 13 0.48
22 14 0.52
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.63
Consensus pattern (21 bp):
ATTTATCTGTTAATTATTTTA
Found at i:18543629 original size:20 final size:20
Alignment explanation
Indices: 18543570--18543629 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
18543560 ATATGCTATT
*
18543570 ATTTATCTGTTATTTAATTTTA
1 ATTTATCTG--ATTTATTTTTA
* *
18543592 ATTTATCTG-TTAATTTTTTG
1 ATTTATCTGATTTA-TTTTTA
18543612 ATTTATCTGATTTATTTT
1 ATTTATCTGATTTATTTT
18543630 CATTAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 17 0.53
21 3 0.09
22 9 0.28
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
ATTTATCTGATTTATTTTTA
Found at i:18544511 original size:4 final size:4
Alignment explanation
Indices: 18544467--18544492 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18544457 CTGCTCCAGG
18544467 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
18544493 ATTAGATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:18544521 original size:5 final size:5
Alignment explanation
Indices: 18544467--18544610 Score: 88
Period size: 5 Copynumber: 28.6 Consensus size: 5
18544457 CTGCTCCAGG
* * *
18544467 TTTA- TTTA- TTTA- TTTA- TTTA- TTTAT TATTAG ATTAT GTTTAT TTAAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT -TTTAT TTTAT
*
18544514 TTTAT TTTAT CTTTAT TTTATT TTTATT TTTAT TTTACT TTT-C TTTAT
1 TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T TTTAT TTTAT
* * *
18544562 TTTTT TATTTT TTTAT TTTCATT TTTAT TTTGT TTTA- -TTAT TTTAT
1 TTTAT T-TTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT
18544608 TTT
1 TTT
18544611 CTTTAAATAA
Statistics
Matches: 116, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
3 3 0.03
4 23 0.20
5 52 0.45
6 34 0.29
7 4 0.03
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:18544528 original size:11 final size:10
Alignment explanation
Indices: 18544467--18544610 Score: 88
Period size: 11 Copynumber: 14.3 Consensus size: 10
18544457 CTGCTCCAGG
18544467 TTTA-TTTA-
1 TTTATTTTAT
18544475 TTTA-TTTA-
1 TTTATTTTAT
18544483 TTTA-TTTAT
1 TTTATTTTAT
**
18544492 TATTAGATTAT
1 T-TTATTTTAT
*
18544503 GTTTATTTAAT
1 -TTTATTTTAT
18544514 TTTATTTTAT
1 TTTATTTTAT
18544524 CTTTATTTTATT
1 -TTTATTTTA-T
18544536 TTTATTTTTAT
1 TTTA-TTTTAT
*
18544547 TTTACTTTT-C
1 TTTA-TTTTAT
*
18544557 TTTATTTTTT
1 TTTATTTTAT
*
18544567 TATTTTTTTAT
1 T-TTATTTTAT
18544578 TTTCATTTTTAT
1 TTT-A-TTTTAT
*
18544590 TTTGTTTTA-
1 TTTATTTTAT
18544599 -TTATTTTAT
1 TTTATTTTAT
18544608 TTT
1 TTT
18544611 CTTTAAATAA
Statistics
Matches: 110, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
8 23 0.21
9 5 0.05
10 26 0.24
11 40 0.36
12 16 0.15
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:18544546 original size:38 final size:37
Alignment explanation
Indices: 18544499--18544610 Score: 106
Period size: 37 Copynumber: 3.0 Consensus size: 37
18544489 TATTATTAGA
*
18544499 TTATGTTTA-TTTAATTTTATTTTATCTTTATTTTATTT
1 TTATTTTTATTTTAATTTT-TTTTAT-TTTATTTTATTT
* * *
18544537 TTATTTTTATTTTACTTTTCTTTATTTT-TTTATTTTT
1 TTATTTTTATTTTAATTTTTTTTATTTTATTT-TATTT
* *
18544574 TTATTTTCATTTTTATTTTGTTTTA--TTATTTTATTT
1 TTATTTTTATTTTAATTTT-TTTTATTTTATTTTATTT
18544610 T
1 T
18544611 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
36 10 0.16
37 26 0.43
38 17 0.28
39 8 0.13
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.78
Consensus pattern (37 bp):
TTATTTTTATTTTAATTTTTTTTATTTTATTTTATTT
Found at i:18544615 original size:17 final size:16
Alignment explanation
Indices: 18544479--18544615 Score: 78
Period size: 17 Copynumber: 7.8 Consensus size: 16
18544469 TATTTATTTA
*
18544479 TTTATTTATTTATTAT
1 TTTATTTTTTTATTAT
** *
18544495 TAGATTATGTTTATTTAAT
1 TTTATT-TTTTTA-TT-AT
*
18544514 TTTATTTTATCT-TTAT
1 TTTATTTT-TTTATTAT
*
18544530 TTTATTTTTATTTTTAT
1 TTTATTTTT-TTATTAT
*
18544547 TTTACTTTTCTTTATTTT
1 TTTA-TTTT-TTTATTAT
18544565 TTTATTTTTTTATTTTCATT
1 TTTATTTTTTTA--TT-A-T
18544585 TTTATTTTGTTTTATTAT
1 TTTA-TTT-TTTTATTAT
18544603 TTTATTTTCTTTA
1 TTTATTTT-TTTA
18544616 AATAAAATCC
Statistics
Matches: 95, Mismatches: 11, Indels: 29
0.70 0.08 0.21
Matches are distributed among these distances:
15 1 0.01
16 20 0.21
17 26 0.27
18 23 0.24
19 10 0.11
20 7 0.07
21 3 0.03
22 5 0.05
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTTTTTTATTAT
Found at i:18544689 original size:57 final size:57
Alignment explanation
Indices: 18544627--18545014 Score: 512
Period size: 57 Copynumber: 6.8 Consensus size: 57
18544617 ATAAAATCCA
* *
18544627 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** * *
18544684 GAAAAAGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
18544741 AAAAAAGGGT-TTTTTGAGGAAAAGATGAAAGTATCAATTTTCCTTAAAAATAAGTTTT-
1 AAAAAA---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** *
18544799 AAAAAACCGTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
**
18544857 AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * ** * *
18544914 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
*
18544973 AAAAAATATTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
18545015 GCACAAAAAA
Statistics
Matches: 293, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
57 180 0.61
58 58 0.20
59 55 0.19
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:18544755 original size:116 final size:115
Alignment explanation
Indices: 18544635--18545014 Score: 554
Period size: 116 Copynumber: 3.3 Consensus size: 115
18544625 CAAAAAAATA
* * * *
18544635 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCGAAAAAGGTTTTTGAA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAAAGTTTTTGAG
18544700 GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGGT
66 GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA-GGT
* * *
18544751 TTTTTGAGGAAAAGATGAAAGTATCAATTTTCCTTAAAAATAAGTTTT-AAAAAACCGTTTTTTA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAA-AGTTTTTGA
*
18544815 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGG-
65 GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGT
*
18544865 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGTTTTTGA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-AAAAAAAGTTTTTGA
** * *
18544930 GGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAA--T
65 GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAGGT
*
18544980 ATTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTT
18545015 GCACAAAAAA
Statistics
Matches: 241, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
114 47 0.20
115 79 0.33
116 115 0.48
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.36
Consensus pattern (115 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAAAGTTTTTGAG
GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGT
Found at i:18547445 original size:34 final size:34
Alignment explanation
Indices: 18547402--18547469 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
18547392 TGCATTTCTC
*
18547402 AATTAAGTGGTCAATTGCTCCTATATGATAATCA
1 AATTAAGTGGCCAATTGCTCCTATATGATAATCA
18547436 AATTAAGTGGCCAATTGCTCCTATATGATAATCA
1 AATTAAGTGGCCAATTGCTCCTATATGATAATCA
18547470 CACTTGCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (34 bp):
AATTAAGTGGCCAATTGCTCCTATATGATAATCA
Found at i:18555150 original size:58 final size:58
Alignment explanation
Indices: 18555051--18555169 Score: 184
Period size: 58 Copynumber: 2.1 Consensus size: 58
18555041 GGTGATTCAA
* **
18555051 GAAATAGAATGAATTGAATCTCTTCAAATTATTCTTAAATAATAATTTTAATATAGTT
1 GAAAGAGAATGAATTGAATCTCTTCAAATTATTCCCAAATAATAATTTTAATATAGTT
* * *
18555109 GAAAGAGAGTGAATTGAATCTCTTCAAATTCTTCCCAAATAATGATTTTAATATAGTT
1 GAAAGAGAATGAATTGAATCTCTTCAAATTATTCCCAAATAATAATTTTAATATAGTT
18555167 GAA
1 GAA
18555170 TAGAAATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (58 bp):
GAAAGAGAATGAATTGAATCTCTTCAAATTATTCCCAAATAATAATTTTAATATAGTT
Found at i:18556508 original size:16 final size:15
Alignment explanation
Indices: 18556487--18556525 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18556477 TTCGAAAAAA
18556487 TTTAAAATGAAGGTAT
1 TTTAAAATGAA-GTAT
* *
18556503 TTTAAAATGTATTAT
1 TTTAAAATGAAGTAT
18556518 TTTAAAAT
1 TTTAAAAT
18556526 ATTAGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (15 bp):
TTTAAAATGAAGTAT
Found at i:18556641 original size:19 final size:18
Alignment explanation
Indices: 18556619--18556662 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
18556609 TTATAAAAGA
* *
18556619 AAAATAATGATATTAAAAT
1 AAAATAAT-AAATAAAAAT
18556638 AAAATAAATAAATAAAAAT
1 AAAAT-AATAAATAAAAAT
18556657 AAAATA
1 AAAATA
18556663 TACAATACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAATAATAAATAAAAAT
Found at i:18556792 original size:24 final size:25
Alignment explanation
Indices: 18556765--18556819 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
18556755 TTTAATTTTG
*
18556765 TAATATTAAATT-AAATATTAAAAT
1 TAATATTAAATTGAAATATTAAAAA
* *
18556789 TAATA-TATATTGTAATATTAAAAA
1 TAATATTAAATTGAAATATTAAAAA
18556813 T-ATATTA
1 TAATATTA
18556820 TGTTACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATATTAAATTGAAATATTAAAAA
Found at i:18556883 original size:20 final size:20
Alignment explanation
Indices: 18556841--18556883 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
18556831 GCAAACAGAC
** * *
18556841 TATATATATTTATATACTTA
1 TATATATATGCATATAATAA
18556861 TATATATATGCATATAATAA
1 TATATATATGCATATAATAA
18556881 TAT
1 TAT
18556884 GTTAAAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATATATGCATATAATAA
Found at i:18557663 original size:29 final size:26
Alignment explanation
Indices: 18557595--18557664 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 26
18557585 TTAAAATAAT
18557595 TTATGTAATTTTATTTTTTAATCTTTTA
1 TTATG-AA-TTTATTTTTTAATCTTTTA
*
18557623 TATATAATATTTATTTTTTAATTTTCTTTTA
1 T-TATGA-ATTTATTTTTTAA---TCTTTTA
18557654 TTATGAATTTA
1 TTATGAATTTA
18557665 GTAGATAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
28 14 0.40
29 9 0.26
30 4 0.11
31 8 0.23
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (26 bp):
TTATGAATTTATTTTTTAATCTTTTA
Found at i:18573560 original size:30 final size:30
Alignment explanation
Indices: 18573526--18573582 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
18573516 TCAAAGATAA
*
18573526 TCAATTGAATATTTGGTTCTAAGCAATCTT
1 TCAATTGAATATTTAGTTCTAAGCAATCTT
18573556 TCAATTGAATATTTAGTTCTAAGCAAT
1 TCAATTGAATATTTAGTTCTAAGCAAT
18573583 TTTTGTTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (30 bp):
TCAATTGAATATTTAGTTCTAAGCAATCTT
Found at i:18575615 original size:16 final size:16
Alignment explanation
Indices: 18575594--18575708 Score: 77
Period size: 17 Copynumber: 6.7 Consensus size: 16
18575584 TTCCTTGGAG
*
18575594 CCATTTTGGTAAGTTA
1 CCATTTTGGAAAGTTA
*
18575610 CCATTTTTGGAAAGTTG
1 CCA-TTTTGGAAAGTTA
* * *
18575627 CCATTTTAGAAAAATTT
1 CCATTTT-GGAAAGTTA
* *
18575644 TCATTTTTGGAAACTTTAA
1 CCA-TTTTGGAAA-GTT-A
* *
18575663 CCATTTTGGAAACAATTT
1 CCATTTTGG-AA-AGTTA
18575681 CCATTTTGGAAAGTTA
1 CCATTTTGGAAAGTTA
18575697 TCCATTTTGGAA
1 -CCATTTTGGAA
18575709 CCTAACTTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
16 10 0.13
17 39 0.51
18 21 0.27
19 6 0.08
20 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (16 bp):
CCATTTTGGAAAGTTA
Found at i:18575669 original size:18 final size:17
Alignment explanation
Indices: 18575648--18575708 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
18575638 AAATTTTCAT
18575648 TTTTGGAAACTTTAACCA
1 TTTTGGAAACTTT-ACCA
18575666 TTTTGGAAACAATTT-CCA
1 TTTTGGAAAC--TTTACCA
*
18575684 TTTTGGAAA-GTTATCCA
1 TTTTGGAAACTTTA-CCA
18575701 TTTTGGAA
1 TTTTGGAA
18575709 CCTAACTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 2 0.05
17 11 0.29
18 22 0.58
20 3 0.08
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (17 bp):
TTTTGGAAACTTTACCA
Found at i:18575688 original size:36 final size:35
Alignment explanation
Indices: 18575614--18575724 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 35
18575604 AAGTTACCAT
* * *
18575614 TTTTGGAAAGTT-GCCATTTTAGAAA-AATTTTCA
1 TTTTGGAAAGTTAACCATTTTGGAAACAATTTCCA
*
18575647 TTTTTGGAAACTTTAACCATTTTGGAAACAATTTCCA
1 -TTTTGGAAA-GTTAACCATTTTGGAAACAATTTCCA
* *
18575684 TTTTGGAAAGTTATCCATTTTGGAACCTAACTTTCCA
1 TTTTGGAAAGTTAACCATTTTGGAAAC-AA-TTTCCA
18575721 TTTT
1 TTTT
18575725 TTGTTCTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
34 9 0.14
35 17 0.26
36 22 0.34
37 17 0.26
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTGGAAAGTTAACCATTTTGGAAACAATTTCCA
Found at i:18586309 original size:62 final size:61
Alignment explanation
Indices: 18586208--18586540 Score: 199
Period size: 62 Copynumber: 5.3 Consensus size: 61
18586198 ATGGGTCAAA
* *
18586208 ATTATTGAAGGCA-TTTTTGGTTAGAAAACGA-CTTGAATAACCCTATTCAAATTTTGTAAGGG
1 ATTATTGAAGGCATTTTTTGGCTA-AAAAC-ACCTTGAATAACCCCATT-AAATTTTGTAAGGG
* * * * ** * *
18586270 ATTATTGAAGGTATTTTTTGGCCAAAAACACCTTCAATAATCCC-TTGAAACAATGGGAAGGG
1 ATTATTGAAGGCATTTTTTGGCTAAAAACACCTTGAATAACCCCATT-AAA-TTTTGTAAGGG
*** * * * *
18586332 ATTATTGAAGGCATTTGGAGGCTAGAAACACATCTTGAATAACACAATTTAATTTTTTGTAAGGG
1 ATTATTGAAGGCATTTTTTGGCTA-AAA-ACACCTTGAATAACCCCA-TTAA-ATTTTGTAAGGG
* * * * ** * * * *** *
18586397 ATTATTCAAGGTATTTTCTGGCAAAAAATGGCC-AGAATAATCCCCCCTAAAACAATGAAAGGG
1 ATTATTGAAGGCATTTTTTGGCTAAAAA-CACCTTGAATAA--CCCCATTAAATTTTGTAAGGG
* *
18586460 CATTATTGATGGCA-TTTTTAGCTAAAAACACCTTGAATAACCCCATTAAATTTTTGTAAGGG
1 -ATTATTGAAGGCATTTTTTGGCTAAAAACACCTTGAATAACCCCATTAAA-TTTTGTAAGGG
* *
18586522 ATTATTTAAGGTATTTTTT
1 ATTATTGAAGGCATTTTTT
18586541 AGACAAAGAC
Statistics
Matches: 193, Mismatches: 63, Indels: 30
0.67 0.22 0.10
Matches are distributed among these distances:
61 24 0.12
62 67 0.35
63 42 0.22
64 29 0.15
65 29 0.15
66 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (61 bp):
ATTATTGAAGGCATTTTTTGGCTAAAAACACCTTGAATAACCCCATTAAATTTTGTAAGGG
Found at i:18586823 original size:24 final size:25
Alignment explanation
Indices: 18586782--18586828 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
18586772 TCATATATGC
*
18586782 TGCCAATTTATATAAAACAAATATA
1 TGCCAATTAATATAAAACAAATATA
* *
18586807 TGCCAA-TAATATTAAACCAATA
1 TGCCAATTAATATAAAACAAATA
18586829 CCCCAATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (25 bp):
TGCCAATTAATATAAAACAAATATA
Found at i:18596087 original size:13 final size:13
Alignment explanation
Indices: 18596066--18596100 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18596056 TCTCAATATC
*
18596066 TTTATATATGTTT
1 TTTATATATATTT
*
18596079 TTTACATATATTT
1 TTTATATATATTT
18596092 TTTATATAT
1 TTTATATAT
18596101 TTGCTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (13 bp):
TTTATATATATTT
Found at i:18597507 original size:161 final size:160
Alignment explanation
Indices: 18597275--18597858 Score: 660
Period size: 161 Copynumber: 3.6 Consensus size: 160
18597265 TTTTATGCCA
* ** * * * * *
18597275 TTAAAAGGTAAAAATGTAAATTTAC-AGTTATTGTTCTATTTTAATAGTTTTGATAGTTTCAATA
1 TTAAAAGGCAAAAATACAAATTTGCTA-TTATTATTCTATTTTAACAGTTTGGATAGCTTCAATA
* * * * *
18597339 AATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTCTACGGTTGACATGTGTGAAAAAGTT
65 CATGATATTAAACTT-TCTCAAATGATTGAACTTGGTTTCTACAGTTGATATATGTGAAAAAGTT
*
18597403 GTTGTTTACATCTATTTAGGACTATTTTTGTCG
129 GTTGTTTACATCTGTTTAGGACT-TTTTTGTCG
* * * * *
18597436 TTTAAAGGCAAAAATACAAATTTGCTATTATTATTCTATTTTAACAATTTGGACAACTTCAATAT
1 TTAAAAGGCAAAAATACAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * ** *
18597501 ATGATATTAAACTTTTTCAAATGATTCAACTTGGTTTTTGCAGTTGATATATGCAAAAAAGTTAT
66 ATGATATTAAACTTTCTCAAATGATTGAACTTGGTTTCTACAGTTGATATATGTGAAAAAGTTGT
* *
18597566 TGTTTACTTCTGTTTAGGA-TTTTTCGTGCCG
131 TGTTTACATCTGTTTAGGACTTTTT--TGTCG
* * * *
18597597 TTAAAAGGCAAAATTACAAATTTGTTGTTATTATTCTATTTTAATAGTTTGGATAGCTTCAATAC
1 TTAAAAGGCAAAAATACAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATAC
*
18597662 ATGATATTAAACTTTTTCAAATGATTGAACTTGGTTT-TCACAGTTGATATATGTGAAAACA-TT
66 ATGATATTAAACTTTCTCAAATGATTGAACTTGGTTTCT-ACAGTTGATATATGTGAAAA-AGTT
* * * *
18597725 GCTGTTTACCTTTGTTTAGGACTTTTTTATCG
129 GTTGTTTACATCTGTTTAGGACTTTTTTGTCG
* * *
18597757 TTAAAAGGCAAAAATAC-AAGTTGCTATTATTGTTCTATTTTAACAGTTTGGATGGCTTCAATAC
1 TTAAAAGGCAAAAATACAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * *
18597821 ATGATAATAAAGTTGTC-CAAATGATTGAATTTGGTTTC
66 ATGATATTAAACTT-TCTCAAATGATTGAACTTGGTTTC
18597859 CATGATTGAT
Statistics
Matches: 357, Mismatches: 57, Indels: 19
0.82 0.13 0.04
Matches are distributed among these distances:
159 76 0.21
160 24 0.07
161 250 0.70
162 7 0.02
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (160 bp):
TTAAAAGGCAAAAATACAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATAC
ATGATATTAAACTTTCTCAAATGATTGAACTTGGTTTCTACAGTTGATATATGTGAAAAAGTTGT
TGTTTACATCTGTTTAGGACTTTTTTGTCG
Found at i:18599422 original size:34 final size:34
Alignment explanation
Indices: 18599303--18599424 Score: 158
Period size: 34 Copynumber: 3.6 Consensus size: 34
18599293 GTGTTTTATG
* *
18599303 ATACAAATGTCACTAAATTAGTGACGTTTTTCTA
1 ATACAAATGTCACTAAATTAGTGACATTTTTTTA
* *
18599337 ATACAAATGCCACTAAATTAGCGACA-TTTTTTA
1 ATACAAATGTCACTAAATTAGTGACATTTTTTTA
*
18599370 ATACAAATGTCACTAAATTAGT-AGCATTTTTTTG
1 ATACAAATGTCACTAAATTAGTGA-CATTTTTTTA
**
18599404 ATACAAACATCACTAAATTAG
1 ATACAAATGTCACTAAATTAG
18599425 CAGTGTTTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 28 0.36
34 48 0.62
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (34 bp):
ATACAAATGTCACTAAATTAGTGACATTTTTTTA
Found at i:18599433 original size:101 final size:101
Alignment explanation
Indices: 18599178--18599434 Score: 224
Period size: 101 Copynumber: 2.5 Consensus size: 101
18599168 CATAAAACGC
* * * *
18599178 CACTAAATTTAGCT-GCATTTTTCT-ATACAAACATCTCTAATTTAGCAGTATTTTTCTAATACA
1 CACTAAA-TTAG-TAGCATTTTTATGATACAAACATCACTAAATTAGCAGTGTTTTTCTAATACA
*** * *
18599241 AATGTTGCGAATTTAGTAGCAATTATTTTTACAAATAT
64 AATGCCACGAAATTAGGAGCAATTATTTTTACAAATAT
* * ** * *
18599279 CGCTAAA-TAG-AGCGGTGTTTTATGATACAAATGTCACTAAATTAG-TGACGTTTTTCTAATAC
1 CACTAAATTAGTAGC-AT-TTTTATGATACAAACATCACTAAATTAGCAG-TGTTTTTCTAATAC
* *
18599341 AAATGCCACTAAATTAGCGA-C-ATT-TTTTAATACAAATGT
63 AAATGCCACGAAATTAG-GAGCAATTATTTT--TACAAATAT
*
18599380 CACTAAATTAGTAGCATTTTTTTGATACAAACATCACTAAATTAGCAGTGTTTTT
1 CACTAAATTAGTAGCATTTTTATGATACAAACATCACTAAATTAGCAGTGTTTTT
18599435 TATAAAATGC
Statistics
Matches: 121, Mismatches: 24, Indels: 22
0.72 0.14 0.13
Matches are distributed among these distances:
98 2 0.02
99 8 0.07
100 9 0.07
101 93 0.77
102 6 0.05
103 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (101 bp):
CACTAAATTAGTAGCATTTTTATGATACAAACATCACTAAATTAGCAGTGTTTTTCTAATACAAA
TGCCACGAAATTAGGAGCAATTATTTTTACAAATAT
Found at i:18599434 original size:67 final size:65
Alignment explanation
Indices: 18599178--18599443 Score: 209
Period size: 67 Copynumber: 4.0 Consensus size: 65
18599168 CATAAAACGC
* *
18599178 CACTAAATTTAGCTGCATTTTTCTATACAAACATCTCTAATTTAGCAGTATTTTTCTAATACAAA
1 CACTAAA-TTAG-TGCATTTTTCTATACAAACATCACTAAATTAGCAGTATTTTT-TAATACAAA
18599243 TGT
63 TGT
** * * * * * * * * *
18599246 TGCGAATTTAGTAGCAATTATTT-T-TACAAATATCGCTAAATAGAGCGGTGTTTTATGATACAA
1 CACTAAATTAGT-GC-ATT-TTTCTATACAAACATCACTAAAT-TAGCAGTATTTTTTAATACAA
18599309 ATGT
62 ATGT
* *** *
18599313 CACTAAATTAGTGACGTTTTTCTAATACAAATGCCACTAAATTAGC-GACATTTTTTAATACAAA
1 CACTAAATTAGTG-CATTTTTCT-ATACAAACATCACTAAATTAGCAG-TATTTTTTAATACAAA
18599377 TGT
63 TGT
* *
18599380 CACTAAATTAGTAGCATTTTTTTGATACAAACATCACTAAATTAGCAGTGTTTTTT-ATA-AAAT
1 CACTAAATTAGT-GCATTTTTCT-ATACAAACATCACTAAATTAGCAGTATTTTTTAATACAAAT
18599443 G
64 G
18599444 CTGCTACTTT
Statistics
Matches: 154, Mismatches: 33, Indels: 25
0.73 0.16 0.12
Matches are distributed among these distances:
65 8 0.05
66 9 0.06
67 102 0.66
68 32 0.21
69 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (65 bp):
CACTAAATTAGTGCATTTTTCTATACAAACATCACTAAATTAGCAGTATTTTTTAATACAAATGT
Found at i:18599435 original size:34 final size:34
Alignment explanation
Indices: 18599178--18599427 Score: 111
Period size: 34 Copynumber: 7.4 Consensus size: 34
18599168 CATAAAACGC
* *
18599178 CACTAAATTTAGCTGCATTTTTCT-ATACAAACAT
1 CACTAAA-TTAGCAGCATTTTTTTAATACAAACAT
* * * * **
18599212 CTCTAATTTAGCAGTATTTTTCTAATACAAATGT
1 CACTAAATTAGCAGCATTTTTTTAATACAAACAT
** * * * * *
18599246 TGCGAATTTAGTAGCAATTATTTT--TACAAATAT
1 CACTAAATTAGCAGC-ATTTTTTTAATACAAACAT
* * * * **
18599279 CGCTAAA-TAG-AGCGGTGTTTTATGATACAAATGT
1 CACTAAATTAGCAGC-AT-TTTTTTAATACAAACAT
* * * ***
18599313 CACTAAATTAG-TGACGTTTTTCTAATACAAATGC
1 CACTAAATTAGCAG-CATTTTTTTAATACAAACAT
**
18599347 CACTAAATTAGC-GACA-TTTTTTAATACAAATGT
1 CACTAAATTAGCAG-CATTTTTTTAATACAAACAT
* *
18599380 CACTAAATTAGTAGCATTTTTTTGATACAAACAT
1 CACTAAATTAGCAGCATTTTTTTAATACAAACAT
18599414 CACTAAATTAGCAG
1 CACTAAATTAGCAG
18599428 TGTTTTTTAT
Statistics
Matches: 171, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
31 4 0.02
32 7 0.04
33 54 0.32
34 93 0.54
35 12 0.07
36 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (34 bp):
CACTAAATTAGCAGCATTTTTTTAATACAAACAT
Found at i:18601119 original size:21 final size:21
Alignment explanation
Indices: 18601095--18601134 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18601085 GGCCTTTTAA
18601095 ATACAACACAAAATTTTCTCT
1 ATACAACACAAAATTTTCTCT
* *
18601116 ATACACCTCAAAATTTTCT
1 ATACAACACAAAATTTTCT
18601135 TCCAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (21 bp):
ATACAACACAAAATTTTCTCT
Found at i:18601505 original size:20 final size:19
Alignment explanation
Indices: 18601459--18601507 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
18601449 GTTTTAATTT
*
18601459 AAATAAAATAAATAATTTA
1 AAATAAAATAAATAATCTA
**
18601478 ATCTTAAAATAAATAATACTA
1 A-AATAAAATAAATAAT-CTA
18601499 AAATAAAAT
1 AAATAAAAT
18601508 TAAGACCTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAAAATAAATAATCTA
Found at i:18622180 original size:17 final size:17
Alignment explanation
Indices: 18622140--18622182 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
18622130 TGAATTTATC
*
18622140 TTACAAATTAGATAAAA
1 TTACAATTTAGATAAAA
18622157 TTACAATTTAGATAAAA
1 TTACAATTTAGATAAAA
18622174 TTACAATTT
1 TTACAATTT
18622183 TTGGTTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (17 bp):
TTACAATTTAGATAAAA
Found at i:18623188 original size:20 final size:19
Alignment explanation
Indices: 18623145--18623181 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18623135 AGCTTAAAGA
18623145 ATTTGCAAAGATTTTTATC
1 ATTTGCAAAGATTTTTATC
*
18623164 ATTTGCAAATATTTTTAT
1 ATTTGCAAAGATTTTTAT
18623182 GTTTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (19 bp):
ATTTGCAAAGATTTTTATC
Found at i:18635495 original size:8 final size:8
Alignment explanation
Indices: 18635471--18635500 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
18635461 TGCCAAACAA
18635471 GCCCAAGT
1 GCCCAAGT
18635479 GCCCTAAGT
1 GCCC-AAGT
18635488 GCCCAAGT
1 GCCCAAGT
18635496 GCCCA
1 GCCCA
18635501 TCTTTGACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.13
Consensus pattern (8 bp):
GCCCAAGT
Found at i:18636295 original size:2 final size:2
Alignment explanation
Indices: 18636288--18636315 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18636278 GACTTGTTTG
18636288 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
18636316 TTGCATGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18638276 original size:19 final size:18
Alignment explanation
Indices: 18638254--18638292 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18638244 CAAATCATTT
18638254 TTAACTTAATTTTTACATA
1 TTAA-TTAATTTTTACATA
* *
18638273 TTAATTATTTTTTTCATA
1 TTAATTAATTTTTACATA
18638291 TT
1 TT
18638293 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATTAATTTTTACATA
Found at i:18650597 original size:23 final size:24
Alignment explanation
Indices: 18650571--18650618 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
18650561 AAAAATTTAA
*
18650571 AAAT-ATTATTATTTATAAT-TATT
1 AAATAATTA-TATCTATAATATATT
18650594 AAATAATTATATCTATAATATATT
1 AAATAATTATATCTATAATATATT
18650618 A
1 A
18650619 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AAATAATTATATCTATAATATATT
Found at i:18650628 original size:26 final size:24
Alignment explanation
Indices: 18650567--18650624 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
18650557 AAATAAAAAT
*
18650567 TTAAAAATATTATTATTTATAATTA
1 TTAAAAA-ATTATTATCTATAATTA
*
18650592 TTAAATAATTA-TATCTATAATATA
1 TTAAAAAATTATTATCTATAAT-TA
18650616 TTATAAAAA
1 TTA-AAAAA
18650625 ATTAATATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.32
24 9 0.32
25 10 0.36
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAAAAAATTATTATCTATAATTA
Found at i:18652124 original size:19 final size:18
Alignment explanation
Indices: 18652102--18652143 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
18652092 AAGGAATGGA
18652102 TATTATTAAAATAAAAATT
1 TATTA-TAAAATAAAAATT
*
18652121 TATTATATAATAAAAATT
1 TATTATAAAATAAAAATT
18652139 TATTA
1 TATTA
18652144 ATTTTTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTATAAAATAAAAATT
Found at i:18652304 original size:25 final size:26
Alignment explanation
Indices: 18652254--18652317 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
18652244 GAACTCTCTC
* *
18652254 AATTCAAATTGAATCAAATTTGAAAT
1 AATTCGAATTTAATCAAATTTGAAAT
18652280 AATTCGAATTTAATC-AATTTGAAAT
1 AATTCGAATTTAATCAAATTTGAAAT
18652305 AATTCGAATTTAA
1 AATTCGAATTTAA
18652318 AATAACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 23 0.64
26 13 0.36
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
AATTCGAATTTAATCAAATTTGAAAT
Found at i:18652399 original size:16 final size:16
Alignment explanation
Indices: 18652301--18652399 Score: 58
Period size: 16 Copynumber: 6.2 Consensus size: 16
18652291 AATCAATTTG
* *
18652301 AAATAATTCGAATTTA
1 AAATAATTTGAATTCA
** * *
18652317 AAATAACCTGTATCCA
1 AAATAATTTGAATTCA
* *
18652333 AAATAATATGAAATCAA
1 AAATAATTTGAATTC-A
*
18652350 AAAAAATTT-AATTCA
1 AAATAATTTGAATTCA
* **
18652365 AAATTATCCGAATAT-A
1 AAATAATTTGAAT-TCA
18652381 AAATAATTTGAATTCA
1 AAATAATTTGAATTCA
18652397 AAA
1 AAA
18652400 AGAATCATAA
Statistics
Matches: 58, Mismatches: 21, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
15 7 0.12
16 42 0.72
17 9 0.16
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (16 bp):
AAATAATTTGAATTCA
Found at i:18663424 original size:16 final size:16
Alignment explanation
Indices: 18663405--18663446 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
18663395 TTTGCTTTTT
18663405 CTTTTTTTTTACAAGG
1 CTTTTTTTTTACAAGG
*
18663421 CTTTTTTGTTACAAGG
1 CTTTTTTTTTACAAGG
18663437 CTTGTTTTTT
1 CTT-TTTTTT
18663447 CTTTCTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (16 bp):
CTTTTTTTTTACAAGG
Found at i:18672152 original size:27 final size:27
Alignment explanation
Indices: 18672097--18672155 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
18672087 TTTAAAAGTC
**
18672097 TTTTTTAAAATTTTTTTAGTGTTCTAA
1 TTTTTTAAAATTTTTTTAGTGTTAGAA
*
18672124 TTTTTTAAAATTTTTTTA-TTTTAAGAA
1 TTTTTTAAAATTTTTTTAGTGTT-AGAA
18672151 TTTTT
1 TTTTT
18672156 AAGTTCTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTTTAAAATTTTTTTAGTGTTAGAA
Found at i:18673394 original size:23 final size:21
Alignment explanation
Indices: 18673367--18673428 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 21
18673357 AATTTTACAA
18673367 TCAATTACGGCATTTCTTTTAAG
1 TCAATTACGGCATTTCTTTT--G
*
18673390 TCAATTATGGCATTTC-TTTG
1 TCAATTACGGCATTTCTTTTG
**
18673410 TCAATTACGGTGTTTCTTT
1 TCAATTACGGCATTTCTTT
18673429 GTTAAAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 14 0.41
21 2 0.06
22 3 0.09
23 15 0.44
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (21 bp):
TCAATTACGGCATTTCTTTTG
Found at i:18673414 original size:20 final size:20
Alignment explanation
Indices: 18673367--18673430 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
18673357 AATTTTACAA
18673367 TCAATTACGGCATTTCTTTTAAG
1 TCAATTACGGCATTTC-TTT--G
*
18673390 TCAATTATGGCATTTCTTTG
1 TCAATTACGGCATTTCTTTG
**
18673410 TCAATTACGGTGTTTCTTTG
1 TCAATTACGGCATTTCTTTG
18673430 T
1 T
18673431 TAAAATGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 19 0.51
22 3 0.08
23 15 0.41
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (20 bp):
TCAATTACGGCATTTCTTTG
Found at i:18677542 original size:16 final size:16
Alignment explanation
Indices: 18677521--18677552 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18677511 TAAATGATCA
18677521 CAGAATGTAAAAATTT
1 CAGAATGTAAAAATTT
*
18677537 CAGAATTTAAAAATTT
1 CAGAATGTAAAAATTT
18677553 TTGTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
CAGAATGTAAAAATTT
Found at i:18678556 original size:35 final size:35
Alignment explanation
Indices: 18678517--18678583 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
18678507 TTTCGAACCG
* *
18678517 TGCCACCGATTAAGAATAGTGGTTTTTGTTCATCA
1 TGCCACCAATTAAGAATAGTGATTTTTGTTCATCA
* *
18678552 TGCCATCAATTGAGAATAGTGATTTTTGTTCA
1 TGCCACCAATTAAGAATAGTGATTTTTGTTCA
18678584 CCATACCATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (35 bp):
TGCCACCAATTAAGAATAGTGATTTTTGTTCATCA
Found at i:18686802 original size:23 final size:24
Alignment explanation
Indices: 18686757--18686802 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18686747 CTTGTTTTGG
*
18686757 TAAAATAAAAGTATATAGATTTAT
1 TAAAATAAAAGTATAAAGATTTAT
18686781 TAAAAT-AAAGTGATAAAG-TTTA
1 TAAAATAAAAGT-ATAAAGATTTA
18686803 GGATTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (24 bp):
TAAAATAAAAGTATAAAGATTTAT
Found at i:18690807 original size:29 final size:29
Alignment explanation
Indices: 18690753--18690810 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18690743 TTTATGAATG
*
18690753 TTTGGAATGGATATATGGAGAATTTTGGT
1 TTTGGAATGGATATAAGGAGAATTTTGGT
* *
18690782 TTTGGAATGGGTTTAAGGA-AAGTTTTGGT
1 TTTGGAATGGATATAAGGAGAA-TTTTGGT
18690811 AAGAATGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (29 bp):
TTTGGAATGGATATAAGGAGAATTTTGGT
Found at i:18693166 original size:168 final size:168
Alignment explanation
Indices: 18692887--18693228 Score: 666
Period size: 168 Copynumber: 2.0 Consensus size: 168
18692877 GAACTATAAT
18692887 CAATTTTTTGAAAAAATTTCATAATAGATTTCTTCGTCGGATAATTCATCAGCAAAAGAAATTTG
1 CAATTTTTTGAAAAAATTTCATAATAGATTTCTTCGTCGGATAATTCATCAGCAAAAGAAATTTG
*
18692952 AAGCAAATTGTCATCAAGTTTTTTGATCATTTTCGTTGCGCTTTTCCCTTTATTAGGGCAACGGT
66 AAGCAAATTGTCATCAAGTTTTTTGATCATTTTCGTTGCACTTTTCCCTTTATTAGGGCAACGGT
18693017 TGGCATAATGACCTTCTTGATCATAAAGAAAACATTTG
131 TGGCATAATGACCTTCTTGATCATAAAGAAAACATTTG
18693055 CAATTTTTTGAAAAAATTTCATAATAGATTTCTTCGTCGGATAATTCATCAGCAAAAGAAATTTG
1 CAATTTTTTGAAAAAATTTCATAATAGATTTCTTCGTCGGATAATTCATCAGCAAAAGAAATTTG
*
18693120 AAGCAAATTGTCATCAAGTTTTTTTATCATTTTCGTTGCACTTTTCCCTTTATTAGGGCAACGGT
66 AAGCAAATTGTCATCAAGTTTTTTGATCATTTTCGTTGCACTTTTCCCTTTATTAGGGCAACGGT
18693185 TGGCATAATGACCTTCTTGATCATAAAGAAAACATTTG
131 TGGCATAATGACCTTCTTGATCATAAAGAAAACATTTG
18693223 CAATTT
1 CAATTT
18693229 AGTTTAGAAG
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 172 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (168 bp):
CAATTTTTTGAAAAAATTTCATAATAGATTTCTTCGTCGGATAATTCATCAGCAAAAGAAATTTG
AAGCAAATTGTCATCAAGTTTTTTGATCATTTTCGTTGCACTTTTCCCTTTATTAGGGCAACGGT
TGGCATAATGACCTTCTTGATCATAAAGAAAACATTTG
Found at i:18695163 original size:21 final size:21
Alignment explanation
Indices: 18695139--18695183 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18695129 TTTTGTACCT
* *
18695139 AAATC-TATTTAAATATATTAA
1 AAATCATATTAAAATA-ATAAA
18695160 AAATCATATTAAAATAATAAA
1 AAATCATATTAAAATAATAAA
18695181 AAA
1 AAA
18695184 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATCATATTAAAATAATAAA
Found at i:18697717 original size:44 final size:45
Alignment explanation
Indices: 18697622--18697718 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
18697612 AACTCATATT
* *
18697622 CATAAAATCTAACATTATAGCGTACGATTGATTTTACAATAAAAA
1 CATAAAATCTAACATTATAACGTACGATTAATTTTACAATAAAAA
* * *
18697667 CA-AAAATCTAACATTATAATGTATC-ATTAATTTTA-TATAAATA
1 CATAAAATCTAACATTATAACGTA-CGATTAATTTTACAATAAAAA
*
18697710 GATAAAATC
1 CATAAAATC
18697719 ATTATATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 7 0.16
44 34 0.77
45 3 0.07
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (45 bp):
CATAAAATCTAACATTATAACGTACGATTAATTTTACAATAAAAA
Found at i:18698448 original size:2 final size:2
Alignment explanation
Indices: 18698441--18698477 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18698431 CGTATGCATT
*
18698441 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18698478 CTCTTATCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18716240 original size:19 final size:19
Alignment explanation
Indices: 18716216--18716261 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
18716206 TTCAAAGTAG
18716216 TTCTATTTAATGTTGAGAC
1 TTCTATTTAATGTTGAGAC
18716235 TTCTATTTAATGTTGAGAC
1 TTCTATTTAATGTTGAGAC
*
18716254 TACTATTT
1 TTCTATTT
18716262 CTTGCTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (19 bp):
TTCTATTTAATGTTGAGAC
Found at i:18717186 original size:15 final size:15
Alignment explanation
Indices: 18717166--18717199 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
18717156 GATAAATCAC
18717166 CTTAAAGAGCACATG
1 CTTAAAGAGCACATG
18717181 CTTAAAGAGCACATG
1 CTTAAAGAGCACATG
18717196 CTTA
1 CTTA
18717200 TAATAACTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (15 bp):
CTTAAAGAGCACATG
Found at i:18726197 original size:57 final size:58
Alignment explanation
Indices: 18726076--18726202 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 58
18726066 AATTTTCTAT
* ** *
18726076 ATGCATGAATAAATAAATAAATGCATGTATTGGGTGTTTGAAACATAACAATTCAATG
1 ATGCATGAATGAATAAATAAATGCATGTATTGAATGTTTCAAACATAACAATTCAATG
* * ** * *
18726134 ATGCATGAATGAATAAATGAATGTATGTATT-AATGTTTCCCACATAACATTTTAATG
1 ATGCATGAATGAATAAATAAATGCATGTATTGAATGTTTCAAACATAACAATTCAATG
18726191 ATGCATGAATGA
1 ATGCATGAATGA
18726203 GTGAATGCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
57 31 0.53
58 28 0.47
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (58 bp):
ATGCATGAATGAATAAATAAATGCATGTATTGAATGTTTCAAACATAACAATTCAATG
Found at i:18727497 original size:108 final size:107
Alignment explanation
Indices: 18727287--18727505 Score: 230
Period size: 108 Copynumber: 2.0 Consensus size: 107
18727277 AAAATTTTAG
* * *
18727287 AATTATGAATTCTACAAAACAATTGGAGAATTTCATAATAAAATTTTTGAATAAATAAAATTTTT
1 AATTAGGAATTCTACAAAACAATTGGAGAATTTCATAATAAAATTTTAGAAAAAATAAAATTTTT
* * * * ** *
18727352 TTAATCTTTCCAAATGATTGGTGGATTCTATTTTTTTTTTGTA
66 ATAATCTATCCAAACGATTGGAGGATTCTATAATTTTTGT-TA
* ** * *
18727395 AATTAGGAATTCTACCAAATGATTGGAGAATTTTATAAT-GAATTTTAAGAAAAAATAAATTATT
1 AATTAGGAATTCTACAAAACAATTGGAGAATTTCATAATAAAATTTT-AGAAAAAATAAA--ATT
18727459 TTTATAATCCTAT-CAAACGATTGGAGGATT-TA-AATTTTTGTTA
63 TTTATAAT-CTATCCAAACGATTGGAGGATTCTATAATTTTTGTTA
18727502 AATT
1 AATT
18727506 TTACCAAACT
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
107 12 0.13
108 50 0.54
109 2 0.02
110 25 0.27
111 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (107 bp):
AATTAGGAATTCTACAAAACAATTGGAGAATTTCATAATAAAATTTTAGAAAAAATAAAATTTTT
ATAATCTATCCAAACGATTGGAGGATTCTATAATTTTTGTTA
Found at i:18728249 original size:58 final size:58
Alignment explanation
Indices: 18728131--18728282 Score: 233
Period size: 58 Copynumber: 2.7 Consensus size: 58
18728121 TATTTACCAC
* * *
18728131 ATAATAATTTAATGATGCATGAATGAAGGAATGCA-----TGCTTTAAAACTTGCTAT
1 ATAACAATTTAATAATGCATGATTGAAGGAATGCATGTGTTGCTTTAAAACTTGCTAT
18728184 ATAACAATTTAATAATGCATGATTGAAGGAATGCATGTGTTGCTTTAAAACTTGCTAT
1 ATAACAATTTAATAATGCATGATTGAAGGAATGCATGTGTTGCTTTAAAACTTGCTAT
*
18728242 ATAACAATTTAACAATGCATGATTGAAGGAATGCATGTGTT
1 ATAACAATTTAATAATGCATGATTGAAGGAATGCATGTGTT
18728283 AATATTTGAC
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
53 32 0.36
58 58 0.64
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (58 bp):
ATAACAATTTAATAATGCATGATTGAAGGAATGCATGTGTTGCTTTAAAACTTGCTAT
Found at i:18729322 original size:41 final size:41
Alignment explanation
Indices: 18729261--18729388 Score: 138
Period size: 40 Copynumber: 3.1 Consensus size: 41
18729251 TAACTTTTTA
* * *
18729261 AAGATGAAAAACGTA-A-TCTTTATTGAAAATATGACATTTCT
1 AAGAT-AAAAA-GTATAGTCTTTGTTGAAAAGACGACATTTCT
* * *
18729302 AAGATAAAAAGTATAGTCTTTGTTGAAAAGACAACGTTTTT
1 AAGATAAAAAGTATAGTCTTTGTTGAAAAGACGACATTTCT
*
18729343 AAGAT-AAAA-TCATAGTCTTTGTTCAAAAGACGACATTTCT
1 AAGATAAAAAGT-ATAGTCTTTGTTGAAAAGACGACATTTCT
18729383 AAGATA
1 AAGATA
18729389 CAAACGCAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.05
40 40 0.55
41 29 0.40
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (41 bp):
AAGATAAAAAGTATAGTCTTTGTTGAAAAGACGACATTTCT
Found at i:18729497 original size:72 final size:73
Alignment explanation
Indices: 18729402--18729590 Score: 245
Period size: 72 Copynumber: 2.6 Consensus size: 73
18729392 ACGCAGGTAA
* * * * * *
18729402 AAAAGATAATGTTTATAAGATAAAAATACAATCTTTATTAAAAACATGTAAAATATATTTTTTAG
1 AAAAGATGATGTTTCTAAGATAAAAATACAATTTTTATTAAAAACATGAAAAATATATTTTTCAA
18729467 AATTCAAT
66 AATTCAAT
* * * * *
18729475 -AAAGATGACGTTTCTAAGATAAAAACACAGTTTTTGTTGAAAACATGAAAAATATATTTTTCAA
1 AAAAGATGATGTTTCTAAGATAAAAATACAATTTTTATTAAAAACATGAAAAATATATTTTTCAA
18729539 AATTCAAT
66 AATTCAAT
* * *
18729547 AAAAAATGATATTTCTAAGATAAAAATATAATTTTTATTAAAAA
1 AAAAGATGATGTTTCTAAGATAAAAATACAATTTTTATTAAAAA
18729591 GATAACTTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 61 0.64
73 35 0.36
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (73 bp):
AAAAGATGATGTTTCTAAGATAAAAATACAATTTTTATTAAAAACATGAAAAATATATTTTTCAA
AATTCAAT
Found at i:18729590 original size:18 final size:19
Alignment explanation
Indices: 18729567--18729602 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18729557 ATTTCTAAGA
*
18729567 TAAAAATATAA-TTTTTAT
1 TAAAAAGATAACTTTTTAT
18729585 TAAAAAGATAACTTTTTA
1 TAAAAAGATAACTTTTTA
18729603 AAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
TAAAAAGATAACTTTTTAT
Found at i:18729682 original size:37 final size:37
Alignment explanation
Indices: 18729641--18729720 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
18729631 ATGTGAAAAA
* * * *
18729641 ATAAAATGTAAAATATC-TTTAGTTAACATTATTACAT
1 ATAAAATCTAAAATA-CATTTACTTAACATTATTAAAC
*
18729678 ATAAAATCTAAAATACATTTACTTAATATTATTAAAC
1 ATAAAATCTAAAATACATTTACTTAACATTATTAAAC
18729715 ATAAAA
1 ATAAAA
18729721 CTTGTATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.38
Consensus pattern (37 bp):
ATAAAATCTAAAATACATTTACTTAACATTATTAAAC
Found at i:18731116 original size:19 final size:19
Alignment explanation
Indices: 18731092--18731128 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18731082 AAATTAAATT
18731092 GTTAAATAAAT-AAATAAAA
1 GTTAAA-AAATAAAATAAAA
18731111 GTTAAAAAATAAAATAAA
1 GTTAAAAAATAAAATAAA
18731129 TAATCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
GTTAAAAAATAAAATAAAA
Found at i:18731146 original size:27 final size:26
Alignment explanation
Indices: 18731095--18731154 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
18731085 TTAAATTGTT
18731095 AAATAAATAAATAAAAGTTAAAAAATA
1 AAATAAATAAATAAAAGTTAAAAAA-A
*
18731122 AAATAAAT-AATCAAA-TTAATTAAAAA
1 AAATAAATAAATAAAAGTTAA--AAAAA
18731148 AAATAAA
1 AAATAAA
18731155 AAAACAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.13
26 14 0.47
27 12 0.40
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (26 bp):
AAATAAATAAATAAAAGTTAAAAAAA
Found at i:18731319 original size:30 final size:30
Alignment explanation
Indices: 18731285--18731351 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
18731275 TCTCAATTTG
*
18731285 CTCTTCCCTACTTTCTCTAAACCCAATTCT
1 CTCTTCCCCACTTTCTCTAAACCCAATTCT
18731315 CTCTTCCCCACTTTCTCTAAACCCAATTCT
1 CTCTTCCCCACTTTCTCTAAACCCAATTCT
18731345 CTCTTCC
1 CTCTTCC
18731352 TTATCTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.43, G:0.00, T:0.39
Consensus pattern (30 bp):
CTCTTCCCCACTTTCTCTAAACCCAATTCT
Found at i:18731347 original size:16 final size:16
Alignment explanation
Indices: 18731298--18731348 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
18731288 TTCCCTACTT
18731298 TCTCTAAACCCAATTC
1 TCTCTAAACCCAATTC
** *
18731314 TCTCT-TCCCCACTT-
1 TCTCTAAACCCAATTC
18731328 TCTCTAAACCCAATTC
1 TCTCTAAACCCAATTC
18731344 TCTCT
1 TCTCT
18731349 TCCTTATCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 5 0.19
15 12 0.44
16 10 0.37
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (16 bp):
TCTCTAAACCCAATTC
Found at i:18740178 original size:16 final size:16
Alignment explanation
Indices: 18740157--18740194 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
18740147 TTTGGAAATT
18740157 ATTTTTTAGTTT-TTAA
1 ATTTTTTA-TTTCTTAA
18740173 ATTTTTTATTTCTTAA
1 ATTTTTTATTTCTTAA
18740189 AGTTTT
1 A-TTTT
18740195 GCTATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 13 0.65
17 4 0.20
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (16 bp):
ATTTTTTATTTCTTAA
Found at i:18745788 original size:8 final size:8
Alignment explanation
Indices: 18745775--18745814 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
18745765 ACAAATTATG
*
18745775 TATTTAGA
1 TATTTAAA
18745783 TATTTAAA
1 TATTTAAA
18745791 TATTTATAA
1 TATTTA-AA
18745800 TATTTATAA
1 TATTTA-AA
18745809 TATTTA
1 TATTTA
18745815 GTGTATGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (8 bp):
TATTTAAA
Found at i:18745803 original size:9 final size:9
Alignment explanation
Indices: 18745782--18745814 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
18745772 ATGTATTTAG
18745782 ATATTTA-A
1 ATATTTATA
18745790 ATATTTATA
1 ATATTTATA
18745799 ATATTTATA
1 ATATTTATA
18745808 ATATTTA
1 ATATTTA
18745815 GTGTATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATTTATA
Found at i:18752314 original size:17 final size:17
Alignment explanation
Indices: 18752277--18752310 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18752267 ATGTTGGCTC
*
18752277 TATTTTATTATTTACCT
1 TATTGTATTATTTACCT
18752294 TATTGTATT-TTTACCT
1 TATTGTATTATTTACCT
18752310 T
1 T
18752311 TATTATTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (17 bp):
TATTGTATTATTTACCT
Found at i:18752335 original size:29 final size:29
Alignment explanation
Indices: 18752280--18752335 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
18752270 TTGGCTCTAT
* *
18752280 TTTATTATTTACCTTATTGTATTTTTACC
1 TTTATTATTTACCTTATTATATCTTTACC
18752309 TTTATTATTTA-CTTATTCATATCTTTA
1 TTTATTATTTACCTTATT-ATATCTTTA
18752336 TTTGTTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTATTATTTACCTTATTATATCTTTACC
Found at i:18764890 original size:37 final size:34
Alignment explanation
Indices: 18764816--18764883 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
18764806 AACTTGAGAA
18764816 AAAAAAGGTAAATAAAAGTTTCACAATACTTACT
1 AAAAAAGGTAAATAAAAGTTTCACAATACTTACT
*
18764850 AAAAAA-GTAAATAAAGGTTTCACAATACTTACT
1 AAAAAAGGTAAATAAAAGTTTCACAATACTTACT
18764883 A
1 A
18764884 GCTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (34 bp):
AAAAAAGGTAAATAAAAGTTTCACAATACTTACT
Found at i:18770440 original size:48 final size:48
Alignment explanation
Indices: 18770377--18770468 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 48
18770367 CTTTGTAAAA
* * *
18770377 GAATTATAATGAGATTATATTTACAAGATCTTTATTGCATAAAAAGCT
1 GAATTACAATGAGATTATAATTACAAGATCTTTATTACATAAAAAGCT
* * ** *
18770425 GAATTACAATTAGATTGTAATTATGAGATTTTTATTACATAAAA
1 GAATTACAATGAGATTATAATTACAAGATCTTTATTACATAAAA
18770469 GACATAATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 36 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (48 bp):
GAATTACAATGAGATTATAATTACAAGATCTTTATTACATAAAAAGCT
Found at i:18772565 original size:68 final size:68
Alignment explanation
Indices: 18772363--18772645 Score: 234
Period size: 68 Copynumber: 4.2 Consensus size: 68
18772353 TCAAATTCAT
* * *
18772363 AAACTATTAG-AGACTTTCAT-GAGTCT-AAAAATAA-ATGTTTTGAAAAATTAAATTCATGACA
1 AAACTATTAGAAGATTTTCATAGA-T-TAAAAAATAATA-ATTTTGGAAAATTAAATTCAT-A-A
*
18772424 A-CCTATC
61 ATCCTACC
* * * *
18772431 AAACTATTAGAGGATTTTCATAGATTTAAAAAAT-AT--TTTTTGAAAATTAAATTCATAAGTCT
1 AAACTATTAGAAGATTTTCATAGA-TTAAAAAATAATAATTTTGGAAAATTAAATTCATAAATCC
18772493 TACC
65 TACC
* * * *
18772497 AAATTATT-GAAGATTTTCATGGGTTAAAAAAATAATAATTTTGGAAAATCAAATTCATAAATCC
1 AAACTATTAGAAGATTTTCATAGATT-AAAAAATAATAATTTTGGAAAATTAAATTCATAAATCC
18772561 TACC
65 TACC
* * * * *
18772565 AAACTATTA-AAGGATTTT-ATATATTTAAAAATAA-AATTTT-GAAAA-TAAATTTATGAATCT
1 AAACTATTAGAA-GATTTTCATAGATTAAAAAATAATAATTTTGGAAAATTAAATTCATAAATCC
18772625 TACC
65 TACC
*
18772629 AAACTATTAGATGATTT
1 AAACTATTAGAAGATTT
18772646 GATGGGTTTT
Statistics
Matches: 177, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
64 31 0.18
65 26 0.15
66 20 0.11
67 26 0.15
68 49 0.28
69 16 0.09
70 9 0.05
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (68 bp):
AAACTATTAGAAGATTTTCATAGATTAAAAAATAATAATTTTGGAAAATTAAATTCATAAATCCT
ACC
Found at i:18772974 original size:27 final size:27
Alignment explanation
Indices: 18772943--18772997 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
18772933 ATTGAAGTAA
18772943 TTTAAAGAATACTTTTCAATATTAAAT
1 TTTAAAGAATACTTTTCAATATTAAAT
* *
18772970 TTTAAAGAATACTTTTTAATATTCAAT
1 TTTAAAGAATACTTTTCAATATTAAAT
18772997 T
1 T
18772998 ATTTTAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (27 bp):
TTTAAAGAATACTTTTCAATATTAAAT
Found at i:18790408 original size:21 final size:23
Alignment explanation
Indices: 18790384--18790426 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
18790374 CGATTAAATA
18790384 TTATTAAAAT-ATTTTA-TATTT
1 TTATTAAAATAATTTTAGTATTT
*
18790405 TTATTAATATAATTTTAGTATT
1 TTATTAAAATAATTTTAGTATT
18790427 CTTTTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTAAAATAATTTTAGTATTT
Found at i:18794925 original size:26 final size:26
Alignment explanation
Indices: 18794880--18794938 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
18794870 TTGCTCATTA
*
18794880 ATTTAGAGCTTGTGAATTACTCACTG
1 ATTTAGAGCTTATGAATTACTCACTG
**
18794906 ATTTAGAGCTTATGTTTTACTCACTG
1 ATTTAGAGCTTATGAATTACTCACTG
*
18794932 ACTTAGA
1 ATTTAGA
18794939 CTTTATAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (26 bp):
ATTTAGAGCTTATGAATTACTCACTG
Found at i:18795063 original size:15 final size:15
Alignment explanation
Indices: 18795043--18795074 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18795033 ATTTACTATG
18795043 TATGAAGCTTGTGTT
1 TATGAAGCTTGTGTT
*
18795058 TATGAAGTTTGTGTT
1 TATGAAGCTTGTGTT
18795073 TA
1 TA
18795075 GATTTTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (15 bp):
TATGAAGCTTGTGTT
Found at i:18796126 original size:2 final size:2
Alignment explanation
Indices: 18796119--18796145 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18796109 ATAAAACCTC
18796119 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
18796146 GAGAGAGAGA
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:18797391 original size:21 final size:21
Alignment explanation
Indices: 18797365--18797410 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18797355 GAATTAGATT
18797365 ATATT-ATTTTAATAAATAAAA
1 ATATTAATTTTAA-AAATAAAA
* *
18797386 ATATTAATTTTTAAAATAAAT
1 ATATTAATTTTAAAAATAAAA
18797407 ATAT
1 ATAT
18797411 AAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTAATTTTAAAAATAAAA
Found at i:18797412 original size:29 final size:30
Alignment explanation
Indices: 18797375--18797436 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
18797365 ATATTATTTT
18797375 AATAAATAAAAATATT-A-ATTTTTAAAATA
1 AATAAATAAAAATATTAATATTTTTAAAA-A
*
18797404 AATATATAAAAATATTAATATTTTTAAAAA
1 AATAAATAAAAATATTAATATTTTTAAAAA
18797434 AAT
1 AAT
18797437 TTATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 15 0.50
30 5 0.17
31 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AATAAATAAAAATATTAATATTTTTAAAAA
Found at i:18798935 original size:28 final size:29
Alignment explanation
Indices: 18798893--18798949 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
18798883 AATCTTATGG
* *
18798893 AAATCTCTTCGTT-AAAATATTCATAACT
1 AAATCTATTCATTAAAAATATTCATAACT
18798921 AAATCTATTCATTAAAAATATTCATAACT
1 AAATCTATTCATTAAAAATATTCATAACT
18798950 GCGTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (29 bp):
AAATCTATTCATTAAAAATATTCATAACT
Found at i:18802058 original size:33 final size:33
Alignment explanation
Indices: 18802015--18802089 Score: 132
Period size: 33 Copynumber: 2.2 Consensus size: 33
18802005 AGAATACATG
*
18802015 GAAAGCAAAATTGCCTTCAAAAGATTAACTGATA
1 GAAAG-AAAATTGCCTTCAAAAAATTAACTGATA
18802049 GAAAGAAAATTGCCTTCAAAAAATTAACTGATA
1 GAAAGAAAATTGCCTTCAAAAAATTAACTGATA
18802082 GAAAGAAA
1 GAAAGAAA
18802090 GGAATTCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 35 0.88
34 5 0.12
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (33 bp):
GAAAGAAAATTGCCTTCAAAAAATTAACTGATA
Done.