Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 127 of 160
Found at i:23686815 original size:12 final size:13
Alignment explanation
Indices: 23686799--23686828 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
23686789 GATCCAAATT
23686799 TAAAACCAATTCC
1 TAAAACCAATTCC
23686812 -AAAACCAATTCC
1 TAAAACCAATTCC
23686824 TAAAA
1 TAAAA
23686829 ATTTTGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAACCAATTCC
Found at i:23692450 original size:11 final size:11
Alignment explanation
Indices: 23692434--23692467 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
23692424 CAATTTTTCG
23692434 TTTTTTATATT
1 TTTTTTATATT
23692445 TTTTTTATATT
1 TTTTTTATATT
23692456 TATTATTTATAT
1 T-TT-TTTATAT
23692468 ATATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 2 0.10
13 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:23693395 original size:18 final size:18
Alignment explanation
Indices: 23693372--23693409 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23693362 TAGGGTAACA
*
23693372 GCCATCCTAATTTGACAC
1 GCCATCATAATTTGACAC
*
23693390 GCCATCATAATTTTACAC
1 GCCATCATAATTTGACAC
23693408 GC
1 GC
23693410 AGGTGAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (18 bp):
GCCATCATAATTTGACAC
Found at i:23714329 original size:149 final size:147
Alignment explanation
Indices: 23714127--23714444 Score: 381
Period size: 149 Copynumber: 2.1 Consensus size: 147
23714117 GCTTTCCTCG
* * * * * *
23714127 AATAAAGATTTTGAAACTTTGAAAATAGCTTCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGC
1 AATAAAGGTTTTGAAACTTTTAAAATAACTCCCCTAAACAGAGGCTTTGAAACTTTGAAAATAGC
* * * * *
23714192 TCCCCCTAAATAGAGGTTTTGAAACTTTTAAA-ATAGCTTCCCCTAAATAGAGGCTTTAAAACTT
66 TCCCCCTAAACAGAGGCTTTGAAAC-TTTAAAGATAGCTTCCCCTAAACAGAAGCTTCAAAA-TT
*
23714256 TT-AAAAT-GACTTCCCCTA
129 TTGAAAATAG-CTCCCCCTA
*
23714274 AATAAAGGTTTTGAAACTTTTAAAGTAACTCCCCCCTAAACAGAGGCTTTGAAACTTTGAAAATA
1 AATAAAGGTTTTGAAACTTTTAAAATAACT--CCCCTAAACAGAGGCTTTGAAACTTTGAAAATA
* * * * *
23714339 GCTCCTCTTAAACAGAGGCTTTGAAACTTTAAAGTTGGCTTCCCCTAAACAGAAGCTTCGAAATT
64 GCTCCCCCTAAACAGAGGCTTTGAAACTTTAAAGATAGCTTCCCCTAAACAGAAGCTTCAAAATT
23714404 TTGAAAATAGCTCCCCCTA
129 TTGAAAATAGCTCCCCCTA
* *
23714423 AACAAAGGCTTTGAAACATTTT
1 AATAAAGGTTTTGAAAC-TTTT
23714445 TTTTAAAAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
147 26 0.18
148 10 0.07
149 104 0.72
150 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (147 bp):
AATAAAGGTTTTGAAACTTTTAAAATAACTCCCCTAAACAGAGGCTTTGAAACTTTGAAAATAGC
TCCCCCTAAACAGAGGCTTTGAAACTTTAAAGATAGCTTCCCCTAAACAGAAGCTTCAAAATTTT
GAAAATAGCTCCCCCTA
Found at i:23714388 original size:37 final size:37
Alignment explanation
Indices: 23714136--23714439 Score: 328
Period size: 37 Copynumber: 8.2 Consensus size: 37
23714126 GAATAAAGAT
*
23714136 TTTGAAACTTTGAAAATAGCTT-CCCTAAATAGAGGC
1 TTTGAAACTTTGAAAATAGCTTCCCCTAAACAGAGGC
* * * *
23714172 TTTGAAACTTTGAAAATGGCTCCCCCTAAATAGAGGT
1 TTTGAAACTTTGAAAATAGCTTCCCCTAAACAGAGGC
* *
23714209 TTTGAAACTTTTAAAATAGCTTCCCCTAAATAGAGGC
1 TTTGAAACTTTGAAAATAGCTTCCCCTAAACAGAGGC
* * * * *
23714246 TTTAAAACTTTTAAAAT-GACTTCCCCTAAATAAAGGT
1 TTTGAAACTTTGAAAATAG-CTTCCCCTAAACAGAGGC
* * * *
23714283 TTTGAAACTTTTAAAGTAACTCCCCCCTAAACAGAGGC
1 TTTGAAACTTTGAAAATAGCT-TCCCCTAAACAGAGGC
*
23714321 TTTGAAACTTTGAAAATAGC-TCCTCTTAAACAGAGGC
1 TTTGAAACTTTGAAAATAGCTTCC-CCTAAACAGAGGC
* * *
23714358 TTTGAAACTTT-AAAGTTGGCTTCCCCTAAACAGAAGC
1 TTTGAAACTTTGAAA-ATAGCTTCCCCTAAACAGAGGC
* * * *
23714395 TTCGAAATTTTGAAAATAGCTCCCCCTAAACAAAGGC
1 TTTGAAACTTTGAAAATAGCTTCCCCTAAACAGAGGC
23714432 TTTGAAAC
1 TTTGAAAC
23714440 ATTTTTTTTA
Statistics
Matches: 225, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
36 26 0.12
37 164 0.73
38 35 0.16
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (37 bp):
TTTGAAACTTTGAAAATAGCTTCCCCTAAACAGAGGC
Found at i:23714643 original size:18 final size:18
Alignment explanation
Indices: 23714620--23714669 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
23714610 TCTCATCAAA
* *
23714620 TGATGCTAATGGAAATGT
1 TGATGCAAATGCAAATGT
23714638 TGATGCAAATGCAAATGT
1 TGATGCAAATGCAAATGT
**
23714656 CAATGCAAATGCAA
1 TGATGCAAATGCAA
23714670 TAATACGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (18 bp):
TGATGCAAATGCAAATGT
Found at i:23715239 original size:29 final size:29
Alignment explanation
Indices: 23715198--23715253 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
23715188 TTCAAATATT
* * **
23715198 GGGATGACGCCACAAGTTGAAAAATAATC
1 GGGATAACACCACAAGTCAAAAAATAATC
23715227 GGGATAACACCACAAGTCAAAAAATAA
1 GGGATAACACCACAAGTCAAAAAATAA
23715254 AGAACAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (29 bp):
GGGATAACACCACAAGTCAAAAAATAATC
Found at i:23715279 original size:36 final size:36
Alignment explanation
Indices: 23715239--23715320 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 36
23715229 GATAACACCA
23715239 CAAGTCAAAAAATAAAGAACAACAA-A-GATAATATTG
1 CAAGTCAAAAAAT-AAGAA-AACAACAGGATAATATTG
23715275 CAAGTCAAAAAATAAGAAAACAATCAGGATAATATTG
1 CAAGTCAAAAAATAAGAAAACAA-CAGGATAATATTG
*
23715312 TAAGTCAAA
1 CAAGTCAAA
23715321 TAAAGTAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
34 5 0.12
35 5 0.12
36 14 0.33
37 18 0.43
ACGTcount: A:0.59, C:0.11, G:0.12, T:0.18
Consensus pattern (36 bp):
CAAGTCAAAAAATAAGAAAACAACAGGATAATATTG
Found at i:23715367 original size:24 final size:21
Alignment explanation
Indices: 23715333--23715385 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
23715323 AAGTAATCAT
*
23715333 TAATTTGGGTTTATGTGCCATC
1 TAATTTGGG-TTATGTGCCAGC
23715355 TAATCTTGAGGTTATGTGCCAGC
1 TAAT-TTG-GGTTATGTGCCAGC
*
23715378 TAAATTGG
1 TAATTTGG
23715386 ACTTCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 7 0.26
23 17 0.63
24 2 0.07
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.40
Consensus pattern (21 bp):
TAATTTGGGTTATGTGCCAGC
Found at i:23715461 original size:28 final size:28
Alignment explanation
Indices: 23715410--23715481 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
23715400 TGGAGCCAGC
*
23715410 TAAACT-GAGCTTAAAATTGGGTGCCAAA
1 TAAACTAG-GCTTAAAATTAGGTGCCAAA
* * **
23715438 TAAATTAGGCTTAAAATTATGTGCCAGC
1 TAAACTAGGCTTAAAATTAGGTGCCAAA
*
23715466 TAAGCTAGGCTTAAAA
1 TAAACTAGGCTTAAAA
23715482 ATTAATTGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (28 bp):
TAAACTAGGCTTAAAATTAGGTGCCAAA
Found at i:23715752 original size:35 final size:35
Alignment explanation
Indices: 23715706--23715780 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
23715696 AGCTAAGCTG
* *
23715706 GGCTTTAAAATC-TTCATCAGGTGCCAAGCAAACTA
1 GGCTTAAAAATCTTTC-TCAGGTGCCAAACAAACTA
** *
23715741 GGCTTAAAAATCTTTCTTTGGTGCCAAATAAACTA
1 GGCTTAAAAATCTTTCTCAGGTGCCAAACAAACTA
23715776 GGCTT
1 GGCTT
23715781 GAAATTTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 31 0.91
36 3 0.09
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (35 bp):
GGCTTAAAAATCTTTCTCAGGTGCCAAACAAACTA
Found at i:23715803 original size:33 final size:32
Alignment explanation
Indices: 23715752--23715829 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
23715742 GCTTAAAAAT
* *
23715752 CTTTCTTTGGTGCCAAATAAACTAGGCTTGAAA
1 CTTTCATTAGTGCCAAATAAACTAGG-TTGAAA
* *
23715785 -TTTCATTACGTGCCAAATAAGCTAGGTTTAAA
1 CTTTCATTA-GTGCCAAATAAACTAGGTTGAAA
23715817 CTTTCATTAGTGC
1 CTTTCATTAGTGC
23715830 GAGGTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (32 bp):
CTTTCATTAGTGCCAAATAAACTAGGTTGAAA
Found at i:23715865 original size:20 final size:20
Alignment explanation
Indices: 23715840--23715878 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23715830 GAGGTAAATT
23715840 GGGCTTAAAATTTTCATCAG
1 GGGCTTAAAATTTTCATCAG
23715860 GGGCTTAAAATTTTCATCA
1 GGGCTTAAAATTTTCATCA
23715879 AGGCTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
GGGCTTAAAATTTTCATCAG
Found at i:23716369 original size:34 final size:34
Alignment explanation
Indices: 23716265--23716371 Score: 119
Period size: 34 Copynumber: 3.2 Consensus size: 34
23716255 TACGTTGAGC
* *
23716265 TTTAAAATCTTCATCAGGTGCCAAGTAAACTGGG
1 TTTAAAATTTTTATCAGGTGCCAAGTAAACTGGG
* * * *
23716299 CTTAAAATCTTTT-TTA-ATGCCAAATAAACTGGG
1 TTTAAAAT-TTTTATCAGGTGCCAAGTAAACTGGG
**
23716332 TTTAAAATTTTTATCAGGTGCCAAGTAAACTATG
1 TTTAAAATTTTTATCAGGTGCCAAGTAAACTGGG
23716366 TTTAAA
1 TTTAAA
23716372 CTTTCAATGG
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
32 4 0.07
33 24 0.41
34 28 0.48
35 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (34 bp):
TTTAAAATTTTTATCAGGTGCCAAGTAAACTGGG
Found at i:23716403 original size:32 final size:32
Alignment explanation
Indices: 23716356--23716440 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 32
23716346 CAGGTGCCAA
* * *
23716356 GTAAACTATGTTTAAACTTTCA-ATGGTGCTAG
1 GTAAACTAGGCTTAAACTTTCACAAGG-GCTAG
*
23716388 GTAAACTAGGCTTAAATTTTTCATCAAGGGCTAG
1 GTAAACTAGGCTTAAA-CTTTCA-CAAGGGCTAG
23716422 GTAAACTAGGCTT-AACTTT
1 GTAAACTAGGCTTAAACTTT
23716441 TTATGTAGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 17 0.38
33 7 0.16
34 18 0.40
35 3 0.07
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (32 bp):
GTAAACTAGGCTTAAACTTTCACAAGGGCTAG
Found at i:23717677 original size:16 final size:15
Alignment explanation
Indices: 23717645--23717689 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23717635 CACCCATTTA
*
23717645 TTTCTTTTCTTTTTC
1 TTTCTTTTATTTTTC
23717660 TTTCTTTTATTCTTTC
1 TTTCTTTTATT-TTTC
* *
23717676 TTTCCTTTCTTTTT
1 TTTCTTTTATTTTT
23717690 TTTTTTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTATTTTTC
Found at i:23717717 original size:20 final size:18
Alignment explanation
Indices: 23717685--23717722 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
23717675 CTTTCCTTTC
23717685 TTTTTTTTTTTTTGCATT
1 TTTTTTTTTTTTTGCATT
23717703 TTTTTCTTTTCTTTTGCATT
1 TTTTT-TTTT-TTTTGCATT
23717723 CTTTCACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTTTTTGCATT
Found at i:23723323 original size:3 final size:3
Alignment explanation
Indices: 23723311--23723370 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
23723301 GTTGTTGTTG
* *
23723311 TTA TTG TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23723359 TTA TTA TTA TTA
1 TTA TTA TTA TTA
23723371 CAAAGAATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23727737 original size:15 final size:16
Alignment explanation
Indices: 23727712--23727744 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23727702 TTTTTCGTTG
*
23727712 AAATCATATTTTTTAA
1 AAATCATATTTTTGAA
23727728 AAAT-ATATTTTTGAA
1 AAATCATATTTTTGAA
23727743 AA
1 AA
23727745 TTTTAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
AAATCATATTTTTGAA
Found at i:23730549 original size:16 final size:17
Alignment explanation
Indices: 23730511--23730552 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
23730501 AGATGTTAAA
23730511 AATATACTAAAATTTTT
1 AATATACTAAAATTTTT
*
23730528 ATTATA-TACAAA-TTTT
1 AATATACTA-AAATTTTT
23730544 AATATACTA
1 AATATACTA
23730553 TCCTTAGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATACTAAAATTTTT
Found at i:23737990 original size:3 final size:3
Alignment explanation
Indices: 23737984--23738038 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
23737974 GTTGTTGTTG
23737984 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23738032 TTA TTA T
1 TTA TTA T
23738039 CATTTAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23738304 original size:10 final size:10
Alignment explanation
Indices: 23738277--23738314 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
23738267 AATTTATCCT
*
23738277 TTTAATAAAA
1 TTTATTAAAA
23738287 TTTA--AAAA
1 TTTATTAAAA
23738295 TTTATTAAAA
1 TTTATTAAAA
23738305 TTTATTAAAA
1 TTTATTAAAA
23738315 AAATAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTATTAAAA
Found at i:23741304 original size:3 final size:3
Alignment explanation
Indices: 23741296--23741362 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
23741286 ACTTTAAAAG
23741296 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23741344 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
23741363 GGTATAAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23741914 original size:2 final size:2
Alignment explanation
Indices: 23741909--23741950 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
23741899 AAAAGCCATT
23741909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23741951 ACATGTGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23742938 original size:21 final size:21
Alignment explanation
Indices: 23742913--23742966 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
23742903 TTGAACTTTT
23742913 TTCTTTTTTTTTTCTTTTAGC
1 TTCTTTTTTTTTTCTTTTAGC
* * * *
23742934 TTCTTTTCTTTGTGTTTTGGC
1 TTCTTTTTTTTTTCTTTTAGC
23742955 -TCTTTTTTTTTT
1 TTCTTTTTTTTTT
23742967 TTCCAGAAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.02, C:0.13, G:0.09, T:0.76
Consensus pattern (21 bp):
TTCTTTTTTTTTTCTTTTAGC
Found at i:23743576 original size:145 final size:145
Alignment explanation
Indices: 23743404--23743881 Score: 457
Period size: 145 Copynumber: 3.3 Consensus size: 145
23743394 AATACCCTTT
* * * * * * *
23743404 AATTATGAAAATATCTTTATAAGGGTATTTTGGTAATTTTATATTTTTCGGGATACTACTATGAT
1 AATTATGAAAATACCCTTATAAAGGTATTTTGGTAATTTTATCTTTTTCGGGGTATTGCTATGAT
** * * ** * *
23743469 TTTAAATGCACCCAAAATCATGAAATATTGTAAAATTAAAAT-TAAAAAAGTTTTATGAAATTAT
66 TTTAAATGCACAAAAAATCATGAAATATTATAAAATTAAAATCT-AAAAAGTTTCACAAAAATAC
* *
23743533 GAGCTCAGGAAA-GCCA
130 AAGCTCA-GAAATACCA
* * * * *
23743549 AATTATGAAAATACCCATTA-AAAGGTATTTTGTTAATTTTA-CCTTTTCAGGGGTATTGTTGTA
1 AATTATGAAAATACCC-TTATAAAGGTATTTTGGTAATTTTATCTTTTTC-GGGGTATTGCTATG
* * *
23743612 ATTTCAAACT-CACAAAAAATCATGAAATATTATAAAATTTAAATCTAAAAGGTTTCACAAAAAT
64 ATTTTAAA-TGCACAAAAAATCATGAAATATTATAAAATTAAAATCTAAAAAGTTTCACAAAAAT
* *
23743676 CCAAGCTTAGAAATACCA
128 ACAAGCTCAGAAATACCA
* * *
23743694 AATTACGAAAATACCCCTATAAAGGTATTTTGGTAATTTCACTCTTTTT-GGGGTATTGCTATGA
1 AATTATGAAAATACCCTTATAAAGGTATTTTGGTAATTTTA-TCTTTTTCGGGGTATTGCTATGA
* * * * *
23743758 TTTTAAATGCACTAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCACAAAAATTC
65 TTTTAAATGCACAAAAAATCATGAAATATTATAAAATTAAAATCTAAAAAGTTTCACAAAAATAC
* * *
23743823 AAGCTCAAAAAGATCA
130 AAGCTCAGAAATACCA
* * * **
23743839 AATTACGAAAA-ACCCCTTATTATGGTATTTTAATAATTTTATC
1 AATTATGAAAATA-CCCTTATAAAGGTATTTTGGTAATTTTATC
23743882 CTTCCAAAGG
Statistics
Matches: 270, Mismatches: 53, Indels: 21
0.78 0.15 0.06
Matches are distributed among these distances:
144 15 0.06
145 245 0.91
146 5 0.02
147 5 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (145 bp):
AATTATGAAAATACCCTTATAAAGGTATTTTGGTAATTTTATCTTTTTCGGGGTATTGCTATGAT
TTTAAATGCACAAAAAATCATGAAATATTATAAAATTAAAATCTAAAAAGTTTCACAAAAATACA
AGCTCAGAAATACCA
Found at i:23753012 original size:2 final size:2
Alignment explanation
Indices: 23753005--23753040 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23752995 CGGCAATAAC
23753005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23753041 GTTCTCTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23754795 original size:11 final size:11
Alignment explanation
Indices: 23754781--23754805 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23754771 ATATTGTCAG
23754781 TATATATATAT
1 TATATATATAT
23754792 TATATATATAT
1 TATATATATAT
23754803 TAT
1 TAT
23754806 TAGTGAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATATAT
Found at i:23755122 original size:22 final size:19
Alignment explanation
Indices: 23755073--23755122 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
23755063 AATTAATTTT
23755073 TTGTATATTTATTTTAAAAG
1 TTGT-TATTTATTTTAAAAG
*
23755093 TTGATATTTATTTATTAATAAG
1 TTGTTATTTA-TT-TTAA-AAG
23755115 TTGTTATT
1 TTGTTATT
23755123 ATCAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 5 0.20
21 4 0.16
22 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (19 bp):
TTGTTATTTATTTTAAAAG
Found at i:23755142 original size:177 final size:177
Alignment explanation
Indices: 23754809--23755156 Score: 468
Period size: 177 Copynumber: 2.0 Consensus size: 177
23754799 ATATTATTAG
* * * * *
23754809 TGAAATCAGATAATATTACTTCATTAATGAAGTTAATCAAATTATATAATCTCAAATAATAAATA
1 TGAAATCAGATAATATCACCTCATTAAAGAAGTGAATCAAATTATATAATCTAAAATAATAAATA
* *
23754874 AGTTTTTTAAAAATATTAATTTTTTTATATTTATTTTAAAGATTGATATTTATTCACTAATAAGT
66 AG-ATTTTAAAAAAATTAATTTTTTTATATTTATTTTAAAGATTGATATTTATTCACTAATAAGT
** ** *
23754939 TGTTATCATTTAATTTTTTGACAGTGTAT-AAAGTTTATATATTGTCAA
130 TGTTATCATCAAATTCATTAACAGTGTATCAAA-TTTATATATTGTCAA
* * * *
23754987 TGAAATCATATAATATCACCTCATTAAAGAAGTGAATTAAATTATATCATCTAAAATAATGAATA
1 TGAAATCAGATAATATCACCTCATTAAAGAAGTGAATCAAATTATATAATCTAAAATAATAAATA
* *
23755052 A-ATTTTAAAAAAATTAATTTTTTGTATATTTATTTTAAA-AGTTGATATTTATTTATTAATAAG
66 AGATTTTAAAAAAATTAATTTTTT-TATATTTATTTTAAAGA-TTGATATTTATTCACTAATAAG
*
23755115 TTGTTATTATCAAATTCATTAACAGTGTATCAAATTTATATA
129 TTGTTATCATCAAATTCATTAACAGTGTATCAAATTTATATA
23755157 GGATTCACAG
Statistics
Matches: 148, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
176 21 0.14
177 67 0.45
178 60 0.41
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (177 bp):
TGAAATCAGATAATATCACCTCATTAAAGAAGTGAATCAAATTATATAATCTAAAATAATAAATA
AGATTTTAAAAAAATTAATTTTTTTATATTTATTTTAAAGATTGATATTTATTCACTAATAAGTT
GTTATCATCAAATTCATTAACAGTGTATCAAATTTATATATTGTCAA
Found at i:23756321 original size:210 final size:210
Alignment explanation
Indices: 23755959--23756380 Score: 738
Period size: 210 Copynumber: 2.0 Consensus size: 210
23755949 TTTTTAAATT
* * * *
23755959 TTTATTTACATATATTTATTTTATGTATTATTTTAAATAATAAAAGAGATAGAGTTAAAAGTAAA
1 TTTATTTACATATACTTATTTTATGTATTACTTTAAATAACAAAAGAGATAGAGTTAAAAATAAA
* *
23756024 AATGATCATTGAAAAAATCTCTAATGATAAAAATTATTTAAAAATTTGTAATTACAAATTTTAAA
66 AATGATCATTGAAAAAATCTCTAATGATAAAAATTATTTAAAAATTTGTAATAACAAAGTTTAAA
23756089 ATATTTTCTTAAATTGAAGAATCATATAATCAATTTTACTAAAGCATAAAGT-AATTCTCACAAT
131 ATATTTTCTTAAATTGAAGAATCATATAATCAATTTTACTAAAGCATAAA-TAAATTCTCACAAT
23756153 TTTTTACAATAAAAAA
195 TTTTTACAATAAAAAA
*
23756169 TTTATTTACATATACTTATTTTATGTATTACTTTAATTAACAAAAGAGATAGAGTTAAAAATAAA
1 TTTATTTACATATACTTATTTTATGTATTACTTTAAATAACAAAAGAGATAGAGTTAAAAATAAA
* *
23756234 AATGATCATTGAAAAAATCTCTAATGATGAAAATTATTTTAAAATTTGTAATAACAAAGTTTAAA
66 AATGATCATTGAAAAAATCTCTAATGATAAAAATTATTTAAAAATTTGTAATAACAAAGTTTAAA
23756299 ATATTTTCTTAAATTGAAGAATCATATAATCAATTTTACTAAAGCATAAATAAATTCTCACAATT
131 ATATTTTCTTAAATTGAAGAATCATATAATCAATTTTACTAAAGCATAAATAAATTCTCACAATT
*
23756364 TTTTCCAATAAAAAA
196 TTTTACAATAAAAAA
23756379 TT
1 TT
23756381 AACTTAGAAA
Statistics
Matches: 201, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
209 1 0.00
210 200 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.39
Consensus pattern (210 bp):
TTTATTTACATATACTTATTTTATGTATTACTTTAAATAACAAAAGAGATAGAGTTAAAAATAAA
AATGATCATTGAAAAAATCTCTAATGATAAAAATTATTTAAAAATTTGTAATAACAAAGTTTAAA
ATATTTTCTTAAATTGAAGAATCATATAATCAATTTTACTAAAGCATAAATAAATTCTCACAATT
TTTTACAATAAAAAA
Found at i:23760651 original size:16 final size:16
Alignment explanation
Indices: 23760617--23760658 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
23760607 TAGAGGGCTA
* *
23760617 ATGGCCACT-GGGCCT
1 ATGGTCACTGGGGCCG
23760632 ATGGTCACTGGGGCCG
1 ATGGTCACTGGGGCCG
23760648 ATGGTCACTGG
1 ATGGTCACTGG
23760659 TGAATTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.21
Consensus pattern (16 bp):
ATGGTCACTGGGGCCG
Found at i:23769472 original size:2 final size:2
Alignment explanation
Indices: 23769465--23769502 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23769455 TGTTTTTCTT
*
23769465 GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
23769503 ATTGCTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23773211 original size:46 final size:46
Alignment explanation
Indices: 23773144--23773236 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
23773134 CTCGAAAATA
*
23773144 ACAAATCGTATTAATTTGATTATTATGATTAATGTATAACATTTTT
1 ACAAATCGTATCAATTTGATTATTATGATTAATGTATAACATTTTT
**
23773190 ACAAATCGTATCAATTTGATTATTATGATTAATGTATAGTATTTTT
1 ACAAATCGTATCAATTTGATTATTATGATTAATGTATAACATTTTT
23773236 A
1 A
23773237 ATTTTTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (46 bp):
ACAAATCGTATCAATTTGATTATTATGATTAATGTATAACATTTTT
Found at i:23777652 original size:81 final size:79
Alignment explanation
Indices: 23777560--23777718 Score: 221
Period size: 79 Copynumber: 2.0 Consensus size: 79
23777550 TTACGATAAC
* * *
23777560 AATAATTATAAATACTAACAATTTAATTT-TGATTTTGGTATAATATAGGTAAAATTTGATAACT
1 AATAATGATAAACACTAACAATTTAATTTGT-ATTTT-G-ATAATATAAGTAAAATTTGATAACT
* *
23777624 TTTTATATACTTTTGAA
63 TTTGATATAATTTTGAA
* *
23777641 AATAATGATAAACACTAACAATTTAATTTGTATTTTGATATTATAAGTAAAATTTGATAGCTTTT
1 AATAATGATAAACACTAACAATTTAATTTGTATTTTGATAATATAAGTAAAATTTGATAACTTTT
23777706 GATATAATTTTGA
66 GATATAATTTTGA
23777719 TAATTTTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 36 0.51
80 1 0.01
81 32 0.46
82 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (79 bp):
AATAATGATAAACACTAACAATTTAATTTGTATTTTGATAATATAAGTAAAATTTGATAACTTTT
GATATAATTTTGAA
Found at i:23777719 original size:21 final size:21
Alignment explanation
Indices: 23777693--23777759 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
23777683 ATAAGTAAAA
*
23777693 TTTGATAGCTTTTGATATAAT
1 TTTGATAACTTTTGATATAAT
* * *
23777714 TTTGATAATTTTTTATAAAAT
1 TTTGATAACTTTTGATATAAT
* *
23777735 TTTGGTAACCTTTTGATGTAAT
1 TTTGATAA-CTTTTGATATAAT
23777757 TTT
1 TTT
23777760 AATTATTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTGATAACTTTTGATATAAT
Found at i:23778197 original size:22 final size:22
Alignment explanation
Indices: 23778172--23778297 Score: 98
Period size: 22 Copynumber: 5.8 Consensus size: 22
23778162 TTTATAATTT
23778172 ATTTACTATTAAGTTATGAATG
1 ATTTACTATTAAGTTATGAATG
* *
23778194 ATTTACTATTAA-TTATTAATA
1 ATTTACTATTAAGTTATGAATG
*
23778215 ATTTACTACTAAGTTACTG-ATG
1 ATTTACTATTAAGTTA-TGAATG
* * *
23778237 ATTTATTATAAAGTTA-CAACTG
1 ATTTACTATTAAGTTATGAA-TG
* * *
23778259 ATTTATTATTAATTTATCG-ATA
1 ATTTACTATTAAGTTAT-GAATG
* *
23778281 ATTTACCATAAAGTTAT
1 ATTTACTATTAAGTTAT
23778298 CAATAATTAA
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
21 19 0.23
22 60 0.74
23 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (22 bp):
ATTTACTATTAAGTTATGAATG
Found at i:23778347 original size:22 final size:22
Alignment explanation
Indices: 23778321--23778826 Score: 120
Period size: 22 Copynumber: 22.9 Consensus size: 22
23778311 ATGTACTACA
*
23778321 AAATTATTATTGATTTACAATT
1 AAATTATTATTGATTTACTATT
** * *
23778343 AAATTAGCATTGATTTGCAATT
1 AAATTATTATTGATTTACTATT
* * *
23778365 ATATTATTACT-AGTTTACTACT
1 AAATTATTATTGA-TTTACTATT
* * * *
23778387 AAGTTATCAATAATTTAC-ATCT
1 AAATTATTATTGATTTACTAT-T
* *
23778409 AAATTATTAATAATTTACTATT
1 AAATTATTATTGATTTACTATT
* *
23778431 ATATTATT-TTGCATTTACTACT
1 AAATTATTATTG-ATTTACTATT
* * **
23778453 ATATTATCATTGATTTACTACA
1 AAATTATTATTGATTTACTATT
* * *
23778475 AAATTACTATAGATTTATTATT
1 AAATTATTATTGATTTACTATT
* ** * **
23778497 AAATTAATT-CTGATCCATTACC
1 AAATT-ATTATTGATTTACTATT
* * *
23778519 AAGTTATCATTAATTTA-TATT
1 AAATTATTATTGATTTACTATT
* *
23778540 AAATTATTCA-TGACTTATTATT
1 AAATTATT-ATTGATTTACTATT
* * *
23778562 AAGTTATTAATGATTAACTATT
1 AAATTATTATTGATTTACTATT
* * *
23778584 AAGTTATCGA-TGATTCATTACAATT
1 AAATTAT-TATTGA-T--TTACTATT
* * *
23778609 GAATTA-TATTAATTTA-TTTT
1 AAATTATTATTGATTTACTATT
* * * * *
23778629 AAGTT-TCCAATAATTAATA-TAAT
1 AAATTAT-TATTGATT--TACTATT
* * *
23778652 AAATTATCATTAATTTATTATT
1 AAATTATTATTGATTTACTATT
** *
23778674 AAATTATTCGTGATTTACTATGG
1 AAATTATTATTGATTTACTAT-T
** * * * *
23778697 AGTTTATCAATAAATTACTATT
1 AAATTATTATTGATTTACTATT
* * *
23778719 AAATTATCACTAATTTACTATT
1 AAATTATTATTGATTTACTATT
* *
23778741 AAATTATCATTGATTTATTATT
1 AAATTATTATTGATTTACTATT
* * * *
23778763 AAGTTATCAATGATTAACTATT
1 AAATTATTATTGATTTACTATT
* * **
23778785 AAGTTATCACTTG-TTTTTTATT
1 AAATTATTA-TTGATTTACTATT
*
23778807 AACA-TATCATTGATTTACTA
1 AA-ATTATTATTGATTTACTA
23778827 ATATATATAT
Statistics
Matches: 355, Mismatches: 103, Indels: 52
0.70 0.20 0.10
Matches are distributed among these distances:
20 5 0.01
21 33 0.09
22 261 0.74
23 43 0.12
24 3 0.01
25 10 0.03
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (22 bp):
AAATTATTATTGATTTACTATT
Found at i:23778448 original size:66 final size:66
Alignment explanation
Indices: 23778378--23778591 Score: 163
Period size: 66 Copynumber: 3.3 Consensus size: 66
23778368 TTATTACTAG
* * *
23778378 TTTACTACTAAGTTATCAATAATTTACATCTAAATTATTAATA-ATTTACTATTATATT-ATTTT
1 TTTACTACTAAGTTATCATTAATTTACATCTAAATTATT-ATAGATTTACTATTAAATTAATTCT
23778441 GCA
65 G-A
* * * *
23778444 TTTACTACTATA-TTATCATTGATTTAC-TACAAAATTACTATAGATTTATTATTAAATTAATTC
1 TTTACTACTA-AGTTATCATTAATTTACAT-CTAAATTATTATAGATTTACTATTAAATTAATTC
23778507 TGA
64 TGA
** * * * * * * *
23778510 TCCATTACCAAGTTATCATTAATTTATAT-TAAATTATTCAT-GACTTATTATTAAGTT-ATTAA
1 TTTACTACTAAGTTATCATTAATTTACATCTAAATTATT-ATAGATTTACTATTAAATTAATT-C
23778572 TGA
64 TGA
* *
23778575 TTAACTATTAAGTTATC
1 TTTACTACTAAGTTATC
23778592 GATGATTCAT
Statistics
Matches: 117, Mismatches: 23, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
64 3 0.03
65 41 0.35
66 66 0.56
67 7 0.06
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (66 bp):
TTTACTACTAAGTTATCATTAATTTACATCTAAATTATTATAGATTTACTATTAAATTAATTCTG
A
Found at i:23778764 original size:44 final size:44
Alignment explanation
Indices: 23778321--23778826 Score: 178
Period size: 44 Copynumber: 11.5 Consensus size: 44
23778311 ATGTACTACA
* * * * ***
23778321 AAATTATTATTGATTTACAATTAAATTAGCATTGATTTGCAATT
1 AAATTATCAATGATTTACTATTAAATTATCATTGATTTATTATT
* * * * * * * *
23778365 ATATTATTACT-AGTTTACTACTAAGTTATCAATAATTTA-CATCT
1 AAATTATCAATGA-TTTACTATTAAATTATCATTGATTTATTAT-T
* * * * * *
23778409 AAATTATTAATAATTTACTATTATATTAT-TTTGCATTTACTACT
1 AAATTATCAATGATTTACTATTAAATTATCATTG-ATTTATTATT
* * ** *
23778453 ATATTATCATTGATTTACTACAAAATTA-CTATAGATTTATTATT
1 AAATTATCAATGATTTACTATTAAATTATC-ATTGATTTATTATT
** * ** * *
23778497 AAATTAATTC--TGATCCATTACCAAGTTATCATTAATTTA-TATT
1 AAATT-A-TCAATGATTTACTATTAAATTATCATTGATTTATTATT
* * * * * * *
23778540 AAATTATTC-ATGACTTATTATTAAGTTATTAATGATTAACTATT
1 AAATTA-TCAATGATTTACTATTAAATTATCATTGATTTATTATT
* * * * *
23778584 AAGTTATCGATGATTCATTACAATTGAATTAT-ATTAATTTATT-TT
1 AAATTATCAATGA-T--TTACTATTAAATTATCATTGATTTATTATT
* * * *
23778629 AAGTT-TCCAATAATTAATA-TAATAAATTATCATTAATTTATTATT
1 AAATTAT-CAATGATT--TACTATTAAATTATCATTGATTTATTATT
* * ** * * * *
23778674 AAATTATTC-GTGATTTACTATGGAGTTTATCAATAAATTACTATT
1 AAATTA-TCAATGATTTACTAT-TAAATTATCATTGATTTATTATT
* *
23778719 AAATTATCACTAATTTACTATTAAATTATCATTGATTTATTATT
1 AAATTATCAATGATTTACTATTAAATTATCATTGATTTATTATT
* * * *
23778763 AAGTTATCAATGATTAACTATTAAGTTATCACTTG-TTTTTTATT
1 AAATTATCAATGATTTACTATTAAATTATCA-TTGATTTATTATT
*
23778807 AACA-TATCATTGATTTACTA
1 AA-ATTATCAATGATTTACTA
23778827 ATATATATAT
Statistics
Matches: 343, Mismatches: 91, Indels: 56
0.70 0.19 0.11
Matches are distributed among these distances:
42 5 0.01
43 45 0.13
44 208 0.61
45 63 0.18
46 10 0.03
47 12 0.03
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (44 bp):
AAATTATCAATGATTTACTATTAAATTATCATTGATTTATTATT
Found at i:23779137 original size:22 final size:22
Alignment explanation
Indices: 23779081--23779312 Score: 95
Period size: 22 Copynumber: 10.8 Consensus size: 22
23779071 TTTAAAAAGG
* * * *
23779081 TTATTAATGATTGACAATTAAA
1 TTATCAATGATTTACTACTAAA
* *
23779103 TTATTAGTGATTTACTACTAAA
1 TTATCAATGATTTACTACTAAA
23779125 TTATCAATGATTTACTAC----
1 TTATCAATGATTTACTACTAAA
* * * *
23779143 TTATGAAT-AGTTTACCATTAAG
1 TTATCAATGA-TTTACTACTAAA
* * *
23779165 TTATGAATAATTTA-TCATTAAA
1 TTATCAATGATTTACT-ACTAAA
* *
23779187 TTATAAATGATTT-CTATTAAA
1 TTATCAATGATTTACTACTAAA
* * * *
23779208 TTATCATTGATTTACCACTTAG
1 TTATCAATGATTTACTACTAAA
** * *
23779230 TTATTGATAATTTATTA-TAAA
1 TTATCAATGATTTACTACTAAA
* *
23779251 TTTAT-AATCAATTTACTACTAAT
1 -TTATCAAT-GATTTACTACTAAA
* * **
23779274 TTATCGATGATTAACTAAAAAA
1 TTATCAATGATTTACTACTAAA
*
23779296 TTATCAATGATTAACTA
1 TTATCAATGATTTACTA
23779313 ATTTACTATT
Statistics
Matches: 160, Mismatches: 37, Indels: 26
0.72 0.17 0.12
Matches are distributed among these distances:
17 1 0.01
18 13 0.08
21 21 0.13
22 119 0.74
23 6 0.04
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
TTATCAATGATTTACTACTAAA
Found at i:23779207 original size:21 final size:21
Alignment explanation
Indices: 23779181--23779220 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23779171 ATAATTTATC
23779181 ATTAAATTATAAATGATTTCT
1 ATTAAATTATAAATGATTTCT
* *
23779202 ATTAAATTATCATTGATTT
1 ATTAAATTATAAATGATTT
23779221 ACCACTTAGT
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:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTAAATTATAAATGATTTCT
Found at i:23779360 original size:22 final size:22
Alignment explanation
Indices: 23779305--23779685 Score: 113
Period size: 22 Copynumber: 17.5 Consensus size: 22
23779295 ATTATCAATG
23779305 ATTAACTAATTTACTATTAAATT
1 ATTAA-TAATTTACTATTAAATT
* * * * *
23779328 ATCATTCATTTACAATTAATTT
1 ATTAATAATTTACTATTAAATT
* *
23779350 ATTAATAATTTATTATT-AGTT
1 ATTAATAATTTACTATTAAATT
* * *
23779371 ATTAGTAATTTACTACTAACTT
1 ATTAATAATTTACTATTAAATT
* *
23779393 -TTCA-AA-TTATTATTAAATT
1 ATTAATAATTTACTATTAAATT
* * *
23779412 ATCAATGATTTATTATTATAATT
1 ATTAATAATTTACTATTA-AATT
* **
23779435 -TTACAT-ATTTACTACTATGTT
1 ATTA-ATAATTTACTATTAAATT
* *
23779456 ATTATTGATTTACTACTT-AATT
1 ATTAATAATTTACTA-TTAAATT
* * * **
23779478 TTTGATTATTTACTACAAAATT
1 ATTAATAATTTACTATTAAATT
* * * ** *
23779500 GTCACTAATTTA-TCGCTATATT
1 ATTAATAATTTACT-ATTAAATT
* * *
23779522 ATCT-ATGATTCACTATCAAATT
1 AT-TAATAATTTACTATTAAATT
* *
23779544 ATTACTTATTTA-TATTAAATT
1 ATTAATAATTTACTATTAAATT
* * *
23779565 -GTATATGATTTACTATTAAGTT
1 ATTA-ATAATTTACTATTAAATT
* * *
23779587 ATCACTAATTAACTATTAAATT
1 ATTAATAATTTACTATTAAATT
* * * * *
23779609 ATAAATGATTTATTACTAAATC
1 ATTAATAATTTACTATTAAATT
* *
23779631 A-TACTAATTTACTTTTAAAATT
1 ATTAATAATTTACTATT-AAATT
* * *
23779653 -TCAATAATTAACTACTAAATT
1 ATTAATAATTTACTATTAAATT
* *
23779674 ATCAATTATTTA
1 ATTAATAATTTA
23779686 TTACTAATAA
Statistics
Matches: 248, Mismatches: 90, Indels: 41
0.65 0.24 0.11
Matches are distributed among these distances:
19 10 0.04
20 6 0.02
21 53 0.21
22 167 0.67
23 12 0.05
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTAATAATTTACTATTAAATT
Found at i:23779580 original size:43 final size:44
Alignment explanation
Indices: 23779519--23779620 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 44
23779509 TTATCGCTAT
* * * * *
23779519 ATTATCTATGATTCACTATCAAATTATTACTTATTTA-TATTAA
1 ATTATATATGATTTACTATCAAATTATCACTAATTAACTATTAA
* * *
23779562 ATTGTATATGATTTACTATTAAGTTATCACTAATTAACTATTAA
1 ATTATATATGATTTACTATCAAATTATCACTAATTAACTATTAA
*
23779606 ATTATAAATGATTTA
1 ATTATATATGATTTA
23779621 TTACTAAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 29 0.60
44 19 0.40
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (44 bp):
ATTATATATGATTTACTATCAAATTATCACTAATTAACTATTAA
Found at i:23779778 original size:44 final size:44
Alignment explanation
Indices: 23779730--23779829 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
23779720 GATTTACTAC
23779730 TATCAATTAATTACTATTAAGTTATAACTGATTTACTAATAAAT
1 TATCAATTAATTACTATTAAGTTATAACTGATTTACTAATAAAT
* * * * * * *
23779774 TATCAATAAATTATTATTAAGTTATTATTGATTTATTACTAAGT
1 TATCAATTAATTACTATTAAGTTATAACTGATTTACTAATAAAT
23779818 TATCAA-TAATTA
1 TATCAATTAATTA
23779830 AGGATTAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 5 0.10
44 43 0.90
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (44 bp):
TATCAATTAATTACTATTAAGTTATAACTGATTTACTAATAAAT
Found at i:23779837 original size:44 final size:44
Alignment explanation
Indices: 23779730--23779842 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
23779720 GATTTACTAC
* **
23779730 TATCAATTAATTACTATTAAGTTATAACTGATTTACTAATAAAT
1 TATCAATAAATTAGGATTAAGTTATAACTGATTTACTAATAAAT
** * * * * *
23779774 TATCAATAAATTATTATTAAGTTATTATTGATTTATTACTAAGT
1 TATCAATAAATTAGGATTAAGTTATAACTGATTTACTAATAAAT
23779818 TATCAAT-AATTAAGGATTAAGTTAT
1 TATCAATAAATT-AGGATTAAGTTAT
23779843 CACTTTTTGT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 4 0.07
44 55 0.93
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (44 bp):
TATCAATAAATTAGGATTAAGTTATAACTGATTTACTAATAAAT
Found at i:23780689 original size:26 final size:26
Alignment explanation
Indices: 23780642--23780694 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23780632 TTAAATAGAA
*
23780642 TTTATAAAAATTAAATAGACAACAAT
1 TTTATAAAAATTAAATACACAACAAT
* *
23780668 TTTA-AAAATATTAAATTCACAATAAT
1 TTTATAAAA-ATTAAATACACAACAAT
23780694 T
1 T
23780695 ACCTTCACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (26 bp):
TTTATAAAAATTAAATACACAACAAT
Found at i:23781826 original size:16 final size:16
Alignment explanation
Indices: 23781805--23781843 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
23781795 AAACTCAAAC
*
23781805 TTAAAATT-ATAAAAAG
1 TTAAAATTCA-AAAAAA
23781821 TTAAAATTCAAAAAAA
1 TTAAAATTCAAAAAAA
23781837 TTAAAAT
1 TTAAAAT
23781844 ACTAAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TTAAAATTCAAAAAAA
Found at i:23787365 original size:29 final size:26
Alignment explanation
Indices: 23787331--23787434 Score: 93
Period size: 29 Copynumber: 3.7 Consensus size: 26
23787321 ATTACTCAAC
23787331 AAAATAAATAACAATAAAATGAGTAAAAT
1 AAAATAAATAA-AATAAAAT-A-TAAAAT
*
23787360 AAAATAAAATAAAATAAAAAACTTAAAAT
1 AAAAT-AAATAAAATAAAATA--TAAAAT
**
23787389 AAAAATAAA-AACTTAAAATATAAAAT
1 -AAAATAAATAAAATAAAATATAAAAT
23787415 AATAATAAATAAAATCAAAA
1 AA-AATAAATAAAAT-AAAA
23787435 AATTAAATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
25 2 0.03
26 12 0.19
27 3 0.05
28 13 0.21
29 21 0.34
30 11 0.18
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (26 bp):
AAAATAAATAAAATAAAATATAAAAT
Found at i:23787386 original size:19 final size:19
Alignment explanation
Indices: 23787364--23787416 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
23787354 TAAAATAAAA
23787364 TAAAAT-AAAATAAAAAACT
1 TAAAATAAAAAT-AAAAACT
23787383 TAAAATAAAAATAAAAACT
1 TAAAATAAAAATAAAAACT
23787402 TAAAATATAAAATAA
1 TAAAATA-AAAATAA
23787417 TAATAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAAATAAAAATAAAAACT
Found at i:23787388 original size:14 final size:14
Alignment explanation
Indices: 23787331--23787446 Score: 65
Period size: 14 Copynumber: 8.2 Consensus size: 14
23787321 ATTACTCAAC
*
23787331 AAAATAAATAACAAT
1 AAAAAAAATAA-AAT
** *
23787346 AAAATGAGTAAAAT
1 AAAAAAAATAAAAT
23787360 AAAATAAAATAAAAT
1 AAAA-AAAATAAAAT
**
23787375 AAAAAACTTAAAAT
1 AAAAAAAATAAAAT
* *
23787389 AAAAATAA-AAACT
1 AAAAAAAATAAAAT
* *
23787402 -TAAAATATAAAAT
1 AAAAAAAATAAAAT
*
23787415 AATAATAAATAAAAT
1 AA-AAAAAATAAAAT
* * *
23787430 CAAAAAATTAAATT
1 AAAAAAAATAAAAT
23787444 AAA
1 AAA
23787447 TTGAGAAAAA
Statistics
Matches: 74, Mismatches: 23, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
12 4 0.05
13 8 0.11
14 31 0.42
15 31 0.42
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAAAAATAAAAT
Found at i:23787393 original size:6 final size:6
Alignment explanation
Indices: 23787355--23787423 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 6
23787345 TAAAATGAGT
* *
23787355 AAAAT- AAAAT- AAAAT- AAAATAA AAAACTT AAAATA AAAATA AAAACTT
1 AAAATA AAAATA AAAATA AAAAT-A AAAA-TA AAAATA AAAATA AAAA-TA
*
23787403 AAAATA TAAAATA ATAATA AA
1 AAAATA -AAAATA AAAATA AA
23787424 TAAAATCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 15 0.28
6 18 0.34
7 19 0.36
8 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:23787396 original size:55 final size:54
Alignment explanation
Indices: 23787336--23787446 Score: 138
Period size: 55 Copynumber: 2.0 Consensus size: 54
23787326 TCAACAAAAT
*
23787336 AAATAACAA-TAAAATGAGTAAAATAA-AATAAAATAAAAT-AAAAAACTTAAAATAA
1 AAATAAAAACTAAAAT-A-TAAAATAATAAT-AAATAAAATCAAAAAA-TTAAAATAA
*
23787391 AAATAAAAACTTAAAATATAAAATAATAATAAATAAAATCAAAAAATTAAATTAA
1 AAATAAAAAC-TAAAATATAAAATAATAATAAATAAAATCAAAAAATTAAAATAA
23787446 A
1 A
23787447 TTGAGAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
55 34 0.68
56 10 0.20
57 6 0.12
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (54 bp):
AAATAAAAACTAAAATATAAAATAATAATAAATAAAATCAAAAAATTAAAATAA
Found at i:23787434 original size:6 final size:5
Alignment explanation
Indices: 23787331--23787434 Score: 63
Period size: 5 Copynumber: 19.8 Consensus size: 5
23787321 ATTACTCAAC
* *
23787331 AAAAT -AAAT AACAAT AAAAT -GAGT AAAAT AAAAT AAAAT AAAAT AAAA-
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
**
23787379 AACTT AAAAT AAAAAT AAAAACTT AAAATAT AAAAT AATAAT -AAAT AAAAT
1 AAAAT AAAAT -AAAAT -AAAA--T -AAA-AT AAAAT AA-AAT AAAAT AAAAT
23787430 CAAAA
1 -AAAA
23787435 AATTAAATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
4 11 0.14
5 37 0.46
6 25 0.31
7 1 0.01
8 5 0.06
9 1 0.01
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:23788264 original size:3 final size:3
Alignment explanation
Indices: 23788256--23788369 Score: 183
Period size: 3 Copynumber: 38.0 Consensus size: 3
23788246 AACATGATAG
23788256 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
23788304 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
23788352 TAG TAA TAG TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA
23788370 AATCGACCTT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:23788848 original size:55 final size:56
Alignment explanation
Indices: 23788759--23788907 Score: 137
Period size: 55 Copynumber: 2.7 Consensus size: 56
23788749 AGATTAAATT
* * * *
23788759 GTAAGTCTGAAAAAATAATCTAGATTGAGCTGAGATCAAATGATC-AGGATTGAACC
1 GTAAGTCTAAAAAAATAATCTAGATCGAACTGAGATCAAACGATCGA-GATTGAACC
* * *
23788815 GTAAGT-TAAAAAAATGATCTAGATCGAATTGAGATCGAACGATCGAGATTGAATCC
1 GTAAGTCTAAAAAAATAATCTAGATCGAACTGAGATCAAACGATCGAGATTGAA-CC
* * * * *
23788871 --AAGTCT-ATAAAATGATCTAAATCGAGCTAAGATCAAA
1 GTAAGTCTAAAAAAATAATCTAGATCGAACTGAGATCAAA
23788908 TTACAATGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
54 29 0.38
55 39 0.51
56 9 0.12
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (56 bp):
GTAAGTCTAAAAAAATAATCTAGATCGAACTGAGATCAAACGATCGAGATTGAACC
Found at i:23789346 original size:18 final size:17
Alignment explanation
Indices: 23789325--23789382 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
23789315 ATTTTGTAAT
23789325 GATTTCCAAATTTGCAAA
1 GATTT-CAAATTTGCAAA
23789343 GA-TTCAAGATTTGCAAA
1 GATTTCAA-ATTTGCAAA
*
23789360 GATTTTCAAATTTGCATA
1 GA-TTTCAAATTTGCAAA
23789378 GATTT
1 GATTT
23789383 TTAGATTCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 3 0.08
17 16 0.44
18 12 0.33
19 5 0.14
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (17 bp):
GATTTCAAATTTGCAAA
Found at i:23789383 original size:18 final size:18
Alignment explanation
Indices: 23789325--23789383 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
23789315 ATTTTGTAAT
*
23789325 GATTTCCAAATTTGCAAA
1 GATTTTCAAATTTGCAAA
23789343 GA--TTCAAGATTTGCAAA
1 GATTTTCAA-ATTTGCAAA
*
23789360 GATTTTCAAATTTGCATA
1 GATTTTCAAATTTGCAAA
23789378 GATTTT
1 GATTTT
23789384 TAGATTCGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 16 0.44
19 5 0.14
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (18 bp):
GATTTTCAAATTTGCAAA
Found at i:23795517 original size:26 final size:26
Alignment explanation
Indices: 23795488--23795537 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
23795478 TAAGATAAAA
23795488 TAAATAAAT-AAATAAAAATAAAAATT
1 TAAA-AAATAAAATAAAAATAAAAATT
* *
23795514 TAAAATATAAAATAATAATAAAAA
1 TAAAAAATAAAATAAAAATAAAAA
23795538 AAAACCTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAAAAATAAAATAAAAATAAAAATT
Found at i:23796348 original size:3 final size:3
Alignment explanation
Indices: 23796340--23796526 Score: 100
Period size: 3 Copynumber: 64.0 Consensus size: 3
23796330 AACATGATAG
* *
23796340 TAA TAA TAA T-A TAA T-A TAA TAA TAG T-A TAA -AA TGA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
23796383 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG CAA CAA CAA -CA TCAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * * * * * * *
23796431 CAA CAA CAA TAA TAA TAA CAA CAA CAA CAA CAA CAA CAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
23796478 CAAA TAA TAA TAC TAA TAA TAA AAA TAA TAA TAG TAA TAG TAA CAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23796524 TAA
1 TAA
23796527 AATTGACCCG
Statistics
Matches: 152, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
2 12 0.08
3 137 0.90
4 3 0.02
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.24
Consensus pattern (3 bp):
TAA
Found at i:23800871 original size:57 final size:58
Alignment explanation
Indices: 23800730--23801119 Score: 203
Period size: 54 Copynumber: 6.8 Consensus size: 58
23800720 AATTTCATTC
* * *
23800730 AAATGTTTTAAGAAAAAGTTGAAA-TATCAATTTTCCTTTAAAATAAAAAATTTCAAAAA
1 AAATGTTTTAAGGAAAAGTT-AAAGTATCAATTTTCCTTAAAAATAAAAAA-TTAAAAAA
* * * *
23800789 ATATTTTTTAAGGAAAAGTTGAAGTATTAATTTTTCC-TAAAAAT-AAAAA-TAAAAAA
1 AAATGTTTTAAGGAAAAGTTAAAGTATCAA-TTTTCCTTAAAAATAAAAAATTAAAAAA
* *
23800845 AAATGATTTTAAGGAAAAGTTAAAGTATCAATTTTCCTT---AA-AAAGATTTCAAAAAA
1 AAATG-TTTTAAGGAAAAGTTAAAGTATCAATTTTCCTTAAAAATAAAAAATT-AAAAAA
* * * * *
23800901 ATAA--TTTTGA-GAAAATTTTGAAGTATCAATTTTTCTT----A-AAAAATTTCAAAAAA
1 A-AATGTTTTAAGGAAAA-GTTAAAGTATCAATTTTCCTTAAAAATAAAAAATT-AAAAAA
* * *
23800954 AATAT-TTTTAAGGAAAAATTGAAGTATCAATATTTCTTTAAAACA-AAAAATATTTTTAAAAAA
1 AA-ATGTTTTAAGGAAAAGTTAAAGTATCAAT-TTTCCTTAAAA-ATAAAAA-A---TTAAAAAA
* * * ** * ***
23801017 ATATTTTTTGAGGAAAAGTTGAAA-TATCAATTTTCCTTAGCCAA-AAAATATTTCCAAA
1 AAATGTTTTAAGGAAAAGTT-AAAGTATCAATTTTCCTTA-AAAATAAAAAATTAAAAAA
* * * *
23801075 AAATGTTTGAATGAAAAGATAAAGTATTAATTTTCC-T-AAAATAAA
1 AAATGTTTTAAGGAAAAGTTAAAGTATCAATTTTCCTTAAAAATAAA
23801120 GAATATTTCA
Statistics
Matches: 261, Mismatches: 43, Indels: 57
0.72 0.12 0.16
Matches are distributed among these distances:
52 1 0.00
53 22 0.08
54 46 0.18
55 13 0.05
56 25 0.10
57 30 0.11
58 37 0.14
59 28 0.11
60 12 0.05
61 1 0.00
62 14 0.05
63 28 0.11
64 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.35
Consensus pattern (58 bp):
AAATGTTTTAAGGAAAAGTTAAAGTATCAATTTTCCTTAAAAATAAAAAATTAAAAAA
Found at i:23800925 original size:54 final size:54
Alignment explanation
Indices: 23800773--23800996 Score: 229
Period size: 54 Copynumber: 4.1 Consensus size: 54
23800763 TCCTTTAAAA
* * * *
23800773 TAAAAAATTTCAAAAAATAT-TTTTTAAGGAAAAGTTGAAGTATTAATTTTTCCT
1 TAAAAAATTTCAAAAAAAATAATTTTAAGGAAAAATTGAAGTATCAA-TTTTCCT
* ** * * * *
23800827 AAAAATAAAAATAAAAAAAAATGATTTTAAGGAAAAGTTAAAGTATCAATTTTCCT
1 -TAAA-AAATTTCAAAAAAAATAATTTTAAGGAAAAATTGAAGTATCAATTTTCCT
* * *
23800883 TAAAAAGATTTC-AAAAAAATAATTTTGA-GAAAATTTTGAAGTATCAATTTTTCT
1 TAAAAA-ATTTCAAAAAAAATAATTTTAAGGAAAA-ATTGAAGTATCAATTTTCCT
* *
23800937 TAAAAAATTTCAAAAAAAATATTTTTAAGGAAAAATTGAAGTATCAATATTTCTT
1 TAAAAAATTTCAAAAAAAATAATTTTAAGGAAAAATTGAAGTATCAAT-TTTCCT
23800992 TAAAA
1 TAAAA
23800997 CAAAAAATAT
Statistics
Matches: 140, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
53 10 0.07
54 66 0.47
55 22 0.16
56 19 0.14
57 23 0.16
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (54 bp):
TAAAAAATTTCAAAAAAAATAATTTTAAGGAAAAATTGAAGTATCAATTTTCCT
Found at i:23801017 original size:14 final size:14
Alignment explanation
Indices: 23800998--23801024 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23800988 TCTTTAAAAC
23800998 AAAAAATATTTTTA
1 AAAAAATATTTTTA
23801012 AAAAAATATTTTT
1 AAAAAATATTTTT
23801025 TGAGGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAAATATTTTTA
Found at i:23801177 original size:21 final size:22
Alignment explanation
Indices: 23801146--23801197 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
23801136 TTAAAAAAGT
*
23801146 TAAAAGTATCAA-TTTCTTAAAA
1 TAAAA-TATCAATTTTCCTAAAA
23801168 TAAAATATCAATTTTTCCTAAAA
1 TAAAATATCAA-TTTTCCTAAAA
23801191 TAAAATA
1 TAAAATA
23801198 AAATAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 6 0.22
22 5 0.19
23 16 0.59
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAATATCAATTTTCCTAAAA
Found at i:23806456 original size:46 final size:47
Alignment explanation
Indices: 23806369--23806486 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 47
23806359 TTTTTTTTAG
** * * *
23806369 TAAGAATTTTTGAAATTTTGGTTTTGAATCACTAAAAGTTTTTCGAA
1 TAAGAATTTTTGAAATTTTGAATGTAAATCACTAAAAGTTTTTCAAA
* * *
23806416 TGAGAATTTTTGAAATATTGAATGTAAATCGCT-AAAGTTTTTCAAA
1 TAAGAATTTTTGAAATTTTGAATGTAAATCACTAAAAGTTTTTCAAA
*
23806462 TAAG-ATTATTTAAAATTTTGAATGT
1 TAAGAATT-TTTGAAATTTTGAATGT
23806487 GAACCTCTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 3 0.05
46 30 0.51
47 26 0.44
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.43
Consensus pattern (47 bp):
TAAGAATTTTTGAAATTTTGAATGTAAATCACTAAAAGTTTTTCAAA
Found at i:23806497 original size:46 final size:46
Alignment explanation
Indices: 23806403--23806497 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
23806393 TGAATCACTA
* * * *
23806403 AAAGTTTTTCGAATGAGAATTTTTGAAATATTGAATGTAAATCGCT
1 AAAGTTTTTCAAATAAGAATTTTTAAAATATTGAATGTAAACCGCT
* * *
23806449 AAAGTTTTTCAAATAAG-ATTATTTAAAATTTTGAATGTGAACCTCT
1 AAAGTTTTTCAAATAAGAATT-TTTAAAATATTGAATGTAAACCGCT
23806495 AAA
1 AAA
23806498 ACTTTCGAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 3 0.07
46 38 0.93
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (46 bp):
AAAGTTTTTCAAATAAGAATTTTTAAAATATTGAATGTAAACCGCT
Found at i:23806704 original size:17 final size:18
Alignment explanation
Indices: 23806681--23806767 Score: 77
Period size: 18 Copynumber: 4.9 Consensus size: 18
23806671 CTTATGAATC
*
23806681 TGAAAAATCTTGCAAAAT
1 TGAAAATTCTTGCAAAAT
**
23806699 TGAAAATTCTTG-TGAAT
1 TGAAAATTCTTGCAAAAT
* *
23806716 TTAAAATTCTTGCAAAAC
1 TGAAAATTCTTGCAAAAT
* * *
23806734 TGAAAATTATTGCAAGAC
1 TGAAAATTCTTGCAAAAT
* *
23806752 TAAAAATTGTTGCAAA
1 TGAAAATTCTTGCAAA
23806768 GCTAAAAGTC
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
17 14 0.25
18 41 0.75
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (18 bp):
TGAAAATTCTTGCAAAAT
Found at i:23806727 original size:35 final size:36
Alignment explanation
Indices: 23806665--23806741 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 36
23806655 TTTTTTAAAA
* *
23806665 AAAAATCTTATGAATCTGAAAAATCTTGCAAAATTG
1 AAAATTCTTATGAATCTGAAAAATCTTGCAAAACTG
* * *
23806701 AAAATTCTTGTGAAT-TTAAAATTCTTGCAAAACTG
1 AAAATTCTTATGAATCTGAAAAATCTTGCAAAACTG
23806736 AAAATT
1 AAAATT
23806742 ATTGCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (36 bp):
AAAATTCTTATGAATCTGAAAAATCTTGCAAAACTG
Found at i:23806772 original size:18 final size:18
Alignment explanation
Indices: 23806718--23806774 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
23806708 TTGTGAATTT
* * *
23806718 AAAATTCTTGCAAAACTG
1 AAAATTATTGCAAAGCTA
23806736 AAAATTATTGC-AAGACTA
1 AAAATTATTGCAAAG-CTA
*
23806754 AAAATTGTTGCAAAGCTA
1 AAAATTATTGCAAAGCTA
23806772 AAA
1 AAA
23806775 GTCATGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.85
19 3 0.09
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.26
Consensus pattern (18 bp):
AAAATTATTGCAAAGCTA
Found at i:23807654 original size:39 final size:40
Alignment explanation
Indices: 23807571--23807658 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
23807561 CCACTATCTT
* * *
23807571 TAGCAAAACATAGCAATCTAGCTTAACCTGAAAATGACAA
1 TAGCAAAACACAGCAACCTAGCCTAACCTGAAAATGACAA
* *
23807611 -AGCAAAACACAGCCACCTAGCCTAACCT-AAAA-GCCATA
1 TAGCAAAACACAGCAACCTAGCCTAACCTGAAAATGACA-A
23807649 TAGCAAAACA
1 TAGCAAAACA
23807659 GAAACCTAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 3 0.07
38 5 0.12
39 33 0.80
ACGTcount: A:0.48, C:0.26, G:0.11, T:0.15
Consensus pattern (40 bp):
TAGCAAAACACAGCAACCTAGCCTAACCTGAAAATGACAA
Found at i:23810338 original size:21 final size:21
Alignment explanation
Indices: 23810314--23810384 Score: 142
Period size: 21 Copynumber: 3.4 Consensus size: 21
23810304 CAAGGGGCCC
23810314 GATCGATCCCTATAAGGAGGT
1 GATCGATCCCTATAAGGAGGT
23810335 GATCGATCCCTATAAGGAGGT
1 GATCGATCCCTATAAGGAGGT
23810356 GATCGATCCCTATAAGGAGGT
1 GATCGATCCCTATAAGGAGGT
23810377 GATCGATC
1 GATCGATC
23810385 TGATCAAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (21 bp):
GATCGATCCCTATAAGGAGGT
Found at i:23816680 original size:21 final size:21
Alignment explanation
Indices: 23816631--23816672 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23816621 TCACCTTTTG
23816631 AATACAAAATCACTTAATAAA
1 AATACAAAATCACTTAATAAA
23816652 AATACAAAATCACTTAATAAA
1 AATACAAAATCACTTAATAAA
23816673 TATGCAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (21 bp):
AATACAAAATCACTTAATAAA
Found at i:23818311 original size:60 final size:60
Alignment explanation
Indices: 23818246--23818631 Score: 234
Period size: 60 Copynumber: 6.7 Consensus size: 60
23818236 AAGTTTCTTT
* * * *
23818246 AAAAAATAATTTTTTTAAAAAAAGTTAAATTATCAATATTTCTTAAAGATAAAAAATTTC
1 AAAAAATAATTTTTTTAAGAAAAGTTAAAGTATCAATTTTTCTTAAAGATAAAAAAATTC
* * * ** *
23818306 AAAAAAT-ATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTTAAAAAT-AAAATTTTGA
1 AAAAAATAATTTTTTTAA-GAAAAGTTAAAGTATCAATTTTTCTTAAAGATAAAAAAATT-C
* *
23818366 AAAAAATAA--TTTTGAAGAAAAGTTAAAGAATCAA-TTTTCTT-----TAAAAAAATTC
1 AAAAAATAATTTTTTTAAGAAAAGTTAAAGTATCAATTTTTCTTAAAGATAAAAAAATTC
* *
23818418 AAAAAA-AATATTTTTTGAGGAAAAGTTGAAGTATCAATTTTTCTTAAAAAGA-AAAAAAATTC
1 AAAAAATAAT-TTTTTT-AAGAAAAGTTAAAGTATCAATTTTTCTT--AAAGATAAAAAAATTC
* * * *
23818480 -AAAAA-AATGTTTTTGAAGAAAGGTTGAAA-TATCAATTTTCCTT-AA-CTAAAAAATATT-
1 AAAAAATAAT-TTTTTTAAGAAAAGTT-AAAGTATCAATTTTTCTTAAAGATAAAAAA-ATTC
** * * * *
23818537 TTAAAA-AA-TGTTGTAATGAAAACTTAAAGTATCAATTTTTC-TAAA-ATAAATAATATTTC
1 AAAAAATAATTTTTTTAA-GAAAAGTTAAAGTATCAATTTTTCTTAAAGATAAA-AA-AATTC
*
23818596 -AAAAAT-A---TTTGAA-AAAAGTTGAAAGTATCAATTTTT
1 AAAAAATAATTTTTTTAAGAAAAGTT-AAAGTATCAATTTTT
23818632 ACTAAAATAA
Statistics
Matches: 260, Mismatches: 38, Indels: 61
0.72 0.11 0.17
Matches are distributed among these distances:
51 2 0.01
52 7 0.03
53 6 0.02
54 10 0.04
55 32 0.12
56 20 0.08
57 38 0.15
58 35 0.13
59 22 0.08
60 62 0.24
61 16 0.06
62 10 0.04
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (60 bp):
AAAAAATAATTTTTTTAAGAAAAGTTAAAGTATCAATTTTTCTTAAAGATAAAAAAATTC
Found at i:23818441 original size:55 final size:56
Alignment explanation
Indices: 23818296--23818467 Score: 183
Period size: 55 Copynumber: 3.1 Consensus size: 56
23818286 TCTTAAAGAT
* * *
23818296 AAAAAATTTC--AAAAAATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTTAAA
1 AAAAAATTTCAAAAAAAATATTTTT-TGAGGAAAAGTTAAAGAATCAA-TTTTCTT-TA
** * *
23818353 AATAAAATTTTGAAAAAAATA-ATTTTGAAGAAAAGTTAAAGAATCAATTTTCTTTA
1 AA-AAAATTTCAAAAAAAATATTTTTTGAGGAAAAGTTAAAGAATCAATTTTCTTTA
* *
23818409 AAAAAA-TTCAAAAAAAATATTTTTTGAGGAAAAGTTGAAGTATCAATTTT-TCTTA
1 AAAAAATTTCAAAAAAAATATTTTTTGAGGAAAAGTTAAAGAATCAATTTTCT-TTA
23818464 AAAA
1 AAAA
23818468 GAAAAAAAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
54 12 0.12
55 37 0.38
56 3 0.03
57 9 0.09
58 26 0.27
59 3 0.03
60 8 0.08
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (56 bp):
AAAAAATTTCAAAAAAAATATTTTTTGAGGAAAAGTTAAAGAATCAATTTTCTTTA
Found at i:23818484 original size:113 final size:113
Alignment explanation
Indices: 23818306--23818524 Score: 264
Period size: 115 Copynumber: 1.9 Consensus size: 113
23818296 AAAAAATTTC
* **
23818306 AAAAAATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTTAAAAATAAAATTTTGAAAAAA
1 AAAAAATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTTAAAAAAAAAAAATT-AAAAAA
*
23818371 ATAA-TTTTGAAGAAAAGTT-AAAGAATCAATTTTCTTTAAAAAAATTCAA
65 A-AATTTTTGAAGAAAAGTTGAAA-AATCAATTTTCCTTAAAAAAATTCAA
* * *
23818420 AAAAAATATTTTT-TGAGGAAAAGTTGAAGTATCAATTTTTCTTAAAAAGAAAAAAAATTCAAAA
1 AAAAAATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTT-AAAA-AAAAAAAATT-AAAA
** * *
23818484 AAATGTTTTTGAAGAAAGGTTGAAATATCAATTTTCCTTAA
63 AAAAATTTTTGAAGAAAAGTTGAAAAATCAATTTTCCTTAA
23818525 CTAAAAAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
113 27 0.30
114 17 0.19
115 42 0.47
116 3 0.03
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (113 bp):
AAAAAATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTTAAAAAAAAAAAATTAAAAAAA
AATTTTTGAAGAAAAGTTGAAAAATCAATTTTCCTTAAAAAAATTCAA
Found at i:23818545 original size:173 final size:172
Alignment explanation
Indices: 23818246--23818575 Score: 372
Period size: 173 Copynumber: 1.9 Consensus size: 172
23818236 AAGTTTCTTT
* * *
23818246 AAAAAATAATTTTTTTAAAAAAAGTTAAATTATCAATATTTCTTAAAGATAAAAAATTTCAAAAA
1 AAAAAATAATTTTTTGAAAAAAAGTTAAAGTATCAATATTTCTTAAAGATAAAAAAATTCAAAAA
*
23818311 ATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTTCTTAAAAATAAAATTTTGAAAAAAATAAT
66 ATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTCCTTAAAAATAAAATTTT-AAAAAAAT-AT
* *
23818376 TTTGAA-GAAAAGTTAAAGAATCAATTTTCTTTAAAAAAATTCAA
129 TGT-AATGAAAACTTAAAGAATCAATTTTCTTTAAAAAAATTCAA
** * *
23818420 AAAAAAT-ATTTTTTGAGGAAAAGTTGAAGTATCAATTTTTCTTAAAAAGA-AAAAAAATTCAAA
1 AAAAAATAATTTTTTGAAAAAAAGTTAAAGTATCAATATTTCTT--AAAGATAAAAAAATTCAAA
* *
23818483 AAA-ATGTTTT-TGAA-GAAAGGTTGAAA-TATCAATTTTCCTTAACTAAA-AAATATTTT-AAA
64 AAATAT-TTTTCT-AAGGAAAAGTT-AAAGCATCAATTTTCCTTAA--AAATAAA-ATTTTAAAA
* *
23818542 AAATGTTGTAATGAAAACTTAAAGTATCAATTTT
123 AAATATTGTAATGAAAACTTAAAGAATCAATTTT
23818576 TCTAAAATAA
Statistics
Matches: 133, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
171 2 0.02
172 23 0.17
173 61 0.46
174 34 0.26
175 13 0.10
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (172 bp):
AAAAAATAATTTTTTGAAAAAAAGTTAAAGTATCAATATTTCTTAAAGATAAAAAAATTCAAAAA
ATATTTTTCTAAGGAAAAGTTAAAGCATCAATTTTCCTTAAAAATAAAATTTTAAAAAAATATTG
TAATGAAAACTTAAAGAATCAATTTTCTTTAAAAAAATTCAA
Found at i:23818572 original size:57 final size:55
Alignment explanation
Indices: 23818503--23818641 Score: 149
Period size: 57 Copynumber: 2.5 Consensus size: 55
23818493 TGAAGAAAGG
* * *
23818503 TTGAAA-TATCAATTTTCCTTAACTAAAAAATATTTTAAAAA-ATGTTGTAATGAAAAC
1 TTGAAAGTATCAATTTTCCTAAAATAAAAAATATTTCAAAAATAT-TTG-AA--AAAAC
* * *
23818560 TT-AAAGTATCAATTTTTCTAAAATAAATAATATTTCAAAAATATTTGAAAAAAG
1 TTGAAAGTATCAATTTTCCTAAAATAAAAAATATTTCAAAAATATTTGAAAAAAC
*
23818614 TTGAAAGTATCAATTTTTACTAAAATAA
1 TTGAAAGTATCAA-TTTTCCTAAAATAA
23818642 TACATCAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
54 6 0.08
55 10 0.14
56 18 0.25
57 35 0.49
58 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (55 bp):
TTGAAAGTATCAATTTTCCTAAAATAAAAAATATTTCAAAAATATTTGAAAAAAC
Found at i:23822597 original size:21 final size:21
Alignment explanation
Indices: 23822568--23822621 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 21
23822558 TTTTTTCAAT
* * *
23822568 ATTTTAATTTGAAAAAATTAG
1 ATTTCAATTTCAAAAAAATAG
23822589 ATTTCAATTTTTCAAAAAAATAG
1 ATTTCAA--TTTCAAAAAAATAG
*
23822612 TTTTCAATTT
1 ATTTCAATTT
23822622 TTAGAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.33
23 18 0.67
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
ATTTCAATTTCAAAAAAATAG
Found at i:23822623 original size:24 final size:23
Alignment explanation
Indices: 23822579--23822623 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23822569 TTTTAATTTG
*
23822579 AAAAAATTAGATTTCAATTTTTC
1 AAAAAAATAGATTTCAATTTTTC
*
23822602 AAAAAAATAGTTTTCAATTTTT
1 AAAAAAATAGATTTCAATTTTT
23822624 AGAATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (23 bp):
AAAAAAATAGATTTCAATTTTTC
Found at i:23824796 original size:28 final size:26
Alignment explanation
Indices: 23824717--23824799 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 26
23824707 TCACACTTTC
* *
23824717 AATTAAATTTAAATATTAATTTTAATAA
1 AATTAAA-TT-AATATAAATTTTATTAA
23824745 AATTAAATTAATATAAATTATTTATTAA
1 AATTAAATTAATATAAA-T-TTTATTAA
23824773 AATTTATAATTACA-ATAAATTTTATTA
1 AA-TTA-AATTA-ATATAAATTTTATTA
23824800 TTATTTTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
26 7 0.15
27 3 0.06
28 23 0.48
29 4 0.08
30 10 0.21
31 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (26 bp):
AATTAAATTAATATAAATTTTATTAA
Found at i:23834817 original size:13 final size:13
Alignment explanation
Indices: 23834799--23834823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23834789 TGCTGCTGGT
23834799 TGTTGATTTTTGG
1 TGTTGATTTTTGG
23834812 TGTTGATTTTTG
1 TGTTGATTTTTG
23834824 CTACTGATGT
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:0.08, C:0.00, G:0.28, T:0.64
Consensus pattern (13 bp):
TGTTGATTTTTGG
Found at i:23836065 original size:31 final size:32
Alignment explanation
Indices: 23836018--23836077 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
23836008 TTTAATTTCC
23836018 CACTTTAATTTCCTTGTAAT-TAATTTTCTTG
1 CACTTTAATTTCCTTGTAATATAATTTTCTTG
* * *
23836049 CACTTTGATTTTCTTGTTATATAATTTTC
1 CACTTTAATTTCCTTGTAATATAATTTTC
23836078 ATGTTCCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.57
Consensus pattern (32 bp):
CACTTTAATTTCCTTGTAATATAATTTTCTTG
Found at i:23842073 original size:12 final size:12
Alignment explanation
Indices: 23842056--23842080 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23842046 GAAAAGTTTT
23842056 GATACATTTGGA
1 GATACATTTGGA
23842068 GATACATTTGGA
1 GATACATTTGGA
23842080 G
1 G
23842081 CAACACTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATACATTTGGA
Found at i:23847806 original size:61 final size:61
Alignment explanation
Indices: 23847711--23847832 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
23847701 TTTGTAGCAA
23847711 TTAAATTCCAGTTCTTAGGAAAGTAGTCAACATTAATGATGAAGAGCTTCTTAGTCAATGT
1 TTAAATTCCAGTTCTTAGGAAAGTAGTCAACATTAATGATGAAGAGCTTCTTAGTCAATGT
23847772 TTAAATTCCAGTTCTTAGGAAAGTAGTCAACATTAATGATGAAGAGCTTCTTAGTCAATGT
1 TTAAATTCCAGTTCTTAGGAAAGTAGTCAACATTAATGATGAAGAGCTTCTTAGTCAATGT
23847833 CATATAATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (61 bp):
TTAAATTCCAGTTCTTAGGAAAGTAGTCAACATTAATGATGAAGAGCTTCTTAGTCAATGT
Found at i:23848384 original size:11 final size:11
Alignment explanation
Indices: 23848370--23848394 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23848360 ACATTTTTTA
23848370 TTTTTTTTCAT
1 TTTTTTTTCAT
23848381 TTTTTTTTCAT
1 TTTTTTTTCAT
23848392 TTT
1 TTT
23848395 CTAAACTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:23862045 original size:17 final size:18
Alignment explanation
Indices: 23862007--23862047 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
23861997 ATTGTTTGGA
23862007 ATTTTTACTTTGTATTTT
1 ATTTTTACTTTGTATTTT
23862025 -TTTTTA-TTTGT-TCTTT
1 ATTTTTACTTTGTAT-TTT
23862041 ATTTTTA
1 ATTTTTA
23862048 AGTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 8 0.38
17 12 0.57
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (18 bp):
ATTTTTACTTTGTATTTT
Found at i:23866667 original size:35 final size:35
Alignment explanation
Indices: 23866621--23866691 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
23866611 TATAGTCATT
23866621 TTACATTCTCTTTTATTTACTCTTTTGAAGTCCGA
1 TTACATTCTCTTTTATTTACTCTTTTGAAGTCCGA
* *
23866656 TTACATTCTCTTTTGTTTTCTCTTTTGAAGTCCGA
1 TTACATTCTCTTTTATTTACTCTTTTGAAGTCCGA
23866691 T
1 T
23866692 GCCTAATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.54
Consensus pattern (35 bp):
TTACATTCTCTTTTATTTACTCTTTTGAAGTCCGA
Found at i:23870253 original size:90 final size:90
Alignment explanation
Indices: 23870129--23870298 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 90
23870119 CTTGTTGCGA
* * *
23870129 TATTCTTGACCAATCCTGCAAGATCTTTGGGAGGTTGGGCTGTTTCCTGTTTCTGCATAACGTGC
1 TATTCTTGACCAACCCTGCAAGACCTTTGGGAGGTTGGGCTGTTTCCTGTTTCTGCATAACATGC
*
23870194 TTTGATGCCATAGTTCTAGTTCCAG
66 TTTGATGCCAGAGTTCTAGTTCCAG
* * *
23870219 TATTCTTGACCAACCCTGCAGGACCTTTGGGAGGTTGGGTTGTTTCCTTTTTCTGCATAACATGC
1 TATTCTTGACCAACCCTGCAAGACCTTTGGGAGGTTGGGCTGTTTCCTGTTTCTGCATAACATGC
23870284 TTTGATGCCAGAGTT
66 TTTGATGCCAGAGTT
23870299 GTACTGGTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (90 bp):
TATTCTTGACCAACCCTGCAAGACCTTTGGGAGGTTGGGCTGTTTCCTGTTTCTGCATAACATGC
TTTGATGCCAGAGTTCTAGTTCCAG
Found at i:23870356 original size:93 final size:90
Alignment explanation
Indices: 23870137--23870394 Score: 257
Period size: 93 Copynumber: 2.8 Consensus size: 90
23870127 GATATTCTTG
* * * * * *
23870137 ACCAATCCTGCAAGATCTTTGGGAGGTTGGGCTGTTTCCTGTTTCTGCATAACGTGCTTTGATGC
1 ACCAACCCTGCAGGACCTTTGGGAGGTTGGGTTGTTTCCTTTTTCTGCATAACATGCTTTGATGC
* ** **
23870202 CATAGTTCTAGTTCCAGTATTCTTG
66 CAGAGTTCTAGTTCCACCATTCTCA
23870227 ACCAACCCTGCAGGACCTTTGGGAGGTTGGGTTGTTTCCTTTTTCTGCATAACATGCTTTGATGC
1 ACCAACCCTGCAGGACCTTTGGGAGGTTGGGTTGTTTCCTTTTTCTGCATAACATGCTTTGATGC
* *
23870292 CAGAGTTGTACTGGTTCCACCGTTCTCA
66 CAGAG-T-T-CTAGTTCCACCATTCTCA
* * * * * * * * *
23870320 ACCAGA-TCTGTAGGACTTTTGGGAGATTGGATTGTTTCCTTTTTCTTCACAAAATGCATTGATG
1 ACCA-ACCCTGCAGGACCTTTGGGAGGTTGGGTTGTTTCCTTTTTCTGCATAACATGCTTTGATG
* *
23870384 CCTGAATTCTA
65 CCAGAGTTCTA
23870395 CTAATTGCAC
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
90 65 0.47
91 2 0.01
92 2 0.01
93 69 0.50
94 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (90 bp):
ACCAACCCTGCAGGACCTTTGGGAGGTTGGGTTGTTTCCTTTTTCTGCATAACATGCTTTGATGC
CAGAGTTCTAGTTCCACCATTCTCA
Found at i:23872163 original size:19 final size:19
Alignment explanation
Indices: 23872139--23872176 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23872129 CAATAAAAAC
*
23872139 TTTTATCAATATTGAACTA
1 TTTTATCAATATTAAACTA
*
23872158 TTTTATCGATATTAAACTA
1 TTTTATCAATATTAAACTA
23872177 AATTCTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (19 bp):
TTTTATCAATATTAAACTA
Found at i:23872399 original size:22 final size:22
Alignment explanation
Indices: 23872356--23872398 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
23872346 ATATATTGAA
*
23872356 AAATTAAAATTATTAAAATTTT
1 AAATTAAAATAATTAAAATTTT
23872378 AAATTAAAA-AATTAAAATTTT
1 AAATTAAAATAATTAAAATTTT
23872399 TTAATGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTAAAATAATTAAAATTTT
Found at i:23873604 original size:7 final size:6
Alignment explanation
Indices: 23873578--23873618 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
23873568 AAATTTTAAA
*
23873578 TTTTAT TTATAT TTTTAT TTCTTAT TTTATAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TT-TTAT TTT-TAT TTTTAT TTT
23873619 CATTGCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:23873605 original size:13 final size:12
Alignment explanation
Indices: 23873578--23873618 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
23873568 AAATTTTAAA
*
23873578 TTTTATTTATAT
1 TTTTATTTTTAT
23873590 TTTTATTTCTTAT
1 TTTTATTT-TTAT
23873603 TTTATATTTTTAT
1 TTT-TATTTTTAT
23873616 TTT
1 TTT
23873619 CATTGCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 13 0.50
14 5 0.19
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:23873661 original size:20 final size:21
Alignment explanation
Indices: 23873625--23873666 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
23873615 TTTTCATTGC
23873625 ATTTATCTATATTTTT-ATTT
1 ATTTATCTATATTTTTAATTT
*
23873645 ATTTATC-ATTTTGTTTAATTT
1 ATTTATCTATATT-TTTAATTT
23873666 A
1 A
23873667 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTATCTATATTTTTAATTT
Found at i:23876361 original size:25 final size:25
Alignment explanation
Indices: 23876284--23876372 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
23876274 CATCATAGTA
* * *
23876284 ATTTTAGCTAATTATAATATGAAGGAG
1 ATTTTAG-TAATTATGATAAGAA-GAT
* *
23876311 ATTTTTGTAATTATGATAAGATGAT
1 ATTTTAGTAATTATGATAAGAAGAT
* *
23876336 ATTTTCGTAATTATGGTTAA-AAGAT
1 ATTTTAGTAATTAT-GATAAGAAGAT
*
23876361 ATTATAGTAATT
1 ATTTTAGTAATT
23876373 TTAGTCAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
25 29 0.57
26 16 0.31
27 6 0.12
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (25 bp):
ATTTTAGTAATTATGATAAGAAGAT
Found at i:23876451 original size:86 final size:84
Alignment explanation
Indices: 23876257--23876496 Score: 214
Period size: 86 Copynumber: 2.8 Consensus size: 84
23876247 GCATTTTTGG
* * * *
23876257 TAATTAT-AGTTAGAAGGCATCATAGTAATTTTAG-CTAATTATAATATGAAGGAGATTTTTGTA
1 TAATTATGA-TTAAAAGGCATTATAGTAATTTTAGTC-AATTATAATATGAAGG-TA-TTTTATA
* *
23876320 ATTATGATAAGATGATATTTTCG
62 ATTATGATAAGAGGATATTTTCA
* ** *
23876343 TAATTATGGTTAAAAGATATTATAGTAATTTTAGTCAATTATTATATGAAAGGTATTTTATAATT
1 TAATTATGATTAAAAGGCATTATAGTAATTTTAGTCAATTATAATATG-AAGGTATTTTATAATT
* *
23876408 ATGGTAAGAGGATATTTTTA
65 ATGATAAGAGGATATTTTCA
* * * * * * * *
23876428 TAGTTATGATTATAAGGGCATTATAGTAACTTTGGTTAATTATGATAAGATGAGTATTTTAGTAA
1 TAATTATGATTA-AAAGGCATTATAGTAATTTTAGTCAATTATAATATGAAG-GTATTTTA-TAA
23876493 TTAT
63 TTAT
23876497 ATTAAAAAAG
Statistics
Matches: 125, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
85 37 0.30
86 76 0.61
87 12 0.10
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (84 bp):
TAATTATGATTAAAAGGCATTATAGTAATTTTAGTCAATTATAATATGAAGGTATTTTATAATTA
TGATAAGAGGATATTTTCA
Found at i:23877771 original size:21 final size:21
Alignment explanation
Indices: 23877745--23877800 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
23877735 AGAAAGTATA
23877745 AATTTTTAGAAAGA-GATAATG
1 AATTTTTAGAAAGAGGAT-ATG
*
23877766 AGTTTTTAGAAAGAGGATATG
1 AATTTTTAGAAAGAGGATATG
*
23877787 AATATTTAGAAAGA
1 AATTTTTAGAAAGA
23877801 AAGTACGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.32
Consensus pattern (21 bp):
AATTTTTAGAAAGAGGATATG
Found at i:23878700 original size:18 final size:19
Alignment explanation
Indices: 23878670--23878705 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
23878660 GTTCAAATAT
23878670 GAAAAACATAAAAAAAATG
1 GAAAAACATAAAAAAAATG
23878689 GAAAAACA-AAAAAAAAT
1 GAAAAACATAAAAAAAAT
23878706 TGATATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (19 bp):
GAAAAACATAAAAAAAATG
Found at i:23879046 original size:14 final size:14
Alignment explanation
Indices: 23879029--23879055 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23879019 ATGGAAAACT
23879029 AAAAAAAAAAAAGC
1 AAAAAAAAAAAAGC
23879043 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
23879056 AGTTAATCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGC
Found at i:23886396 original size:34 final size:34
Alignment explanation
Indices: 23886353--23886420 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23886343 TGACTCGAAT
23886353 ACATGAATAGCTAAGTATAAACTATCATTGGCCC
1 ACATGAATAGCTAAGTATAAACTATCATTGGCCC
23886387 ACATGAATAGCTAAGTATAAACTATCATTGGCCC
1 ACATGAATAGCTAAGTATAAACTATCATTGGCCC
23886421 TGCAACGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (34 bp):
ACATGAATAGCTAAGTATAAACTATCATTGGCCC
Found at i:23890057 original size:46 final size:46
Alignment explanation
Indices: 23889990--23890083 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
23889980 AAACATAAAC
23889990 CACTTCCAACCACATTTTTATAAAGAAATCCACGTCCTAGAATGCT
1 CACTTCCAACCACATTTTTATAAAGAAATCCACGTCCTAGAATGCT
*
23890036 CACTTCCAACCACATTTTTATAAAGAAATCCATGTCCTAGAATGCT
1 CACTTCCAACCACATTTTTATAAAGAAATCCACGTCCTAGAATGCT
23890082 CA
1 CA
23890084 ATAGAACCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.29
Consensus pattern (46 bp):
CACTTCCAACCACATTTTTATAAAGAAATCCACGTCCTAGAATGCT
Found at i:23897234 original size:22 final size:24
Alignment explanation
Indices: 23897189--23897235 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23897179 AAATATTTAT
*
23897189 TTTTTATATATAATAAAAATAATA
1 TTTTTATATACAATAAAAATAATA
*
23897213 TTTTTATATACAAAGAAAAATAA
1 TTTTTATATAC-AATAAAAATAA
23897236 GAATAAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTTTTATATACAATAAAAATAATA
Found at i:23897913 original size:25 final size:27
Alignment explanation
Indices: 23897883--23897937 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
23897873 ATATATTAAA
*
23897883 TTAATTTGATATT-TTTAATT-TTATT
1 TTAATTCGATATTATTTAATTATTATT
* *
23897908 TTAATTCGATTTTATTTAATTATTTTT
1 TTAATTCGATATTATTTAATTATTATT
23897935 TTA
1 TTA
23897938 TTTCTCTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 7 0.28
27 7 0.28
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TTAATTCGATATTATTTAATTATTATT
Found at i:23901732 original size:2 final size:2
Alignment explanation
Indices: 23901727--23901765 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
23901717 AAATTTTAAG
* *
23901727 TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23901766 CCAAGTTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:23902252 original size:21 final size:20
Alignment explanation
Indices: 23902205--23902253 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 20
23902195 TTTTTTTTTT
23902205 TTTGAAATTATAGATAACAAA
1 TTTG-AATTATAGATAACAAA
23902226 -TTGAATTATAGATATGA-AAA
1 TTTGAATTATAGATA--ACAAA
23902246 TTTGAATT
1 TTTGAATT
23902254 TTTATTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 11 0.44
20 6 0.24
21 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (20 bp):
TTTGAATTATAGATAACAAA
Found at i:23913736 original size:29 final size:30
Alignment explanation
Indices: 23913683--23913742 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23913673 AAATTAATTT
*
23913683 ATGTTAAGGGTTTATTTAAGTATAAATTAA
1 ATGTTAAGGGTTTATTGAAGTATAAATTAA
* *
23913713 ATGTTAAGGGTTTGTTGGA-TATAAATTAA
1 ATGTTAAGGGTTTATTGAAGTATAAATTAA
23913742 A
1 A
23913743 AGCTAAAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (30 bp):
ATGTTAAGGGTTTATTGAAGTATAAATTAA
Found at i:23913771 original size:30 final size:31
Alignment explanation
Indices: 23913735--23913826 Score: 120
Period size: 30 Copynumber: 3.1 Consensus size: 31
23913725 TGTTGGATAT
*
23913735 AAATTAAAAGCT-AA-AGACTTATTTGGGTGC
1 AAATTAAAAGATCAATAG-CTTATTTGGGTGC
23913765 AAATT-AAAGATCAATAGCTTATTTGGGTGC
1 AAATTAAAAGATCAATAGCTTATTTGGGTGC
* *
23913795 AAATT-AAAGGTCAATAGCTTATTTGAGTGC
1 AAATTAAAAGATCAATAGCTTATTTGGGTGC
23913825 AA
1 AA
23913827 TAAAATTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
29 5 0.09
30 50 0.88
31 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (31 bp):
AAATTAAAAGATCAATAGCTTATTTGGGTGC
Found at i:23917890 original size:16 final size:15
Alignment explanation
Indices: 23917865--23917894 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23917855 AAATTTTTTA
23917865 TTTTTTATTTTCATT
1 TTTTTTATTTTCATT
23917880 TTTTATTATTTTCAT
1 TTTT-TTATTTTCAT
23917895 AAAAGTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTTCATT
Found at i:23936489 original size:18 final size:18
Alignment explanation
Indices: 23936463--23936498 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23936453 TCTTAACTTA
23936463 CAGGATTATCAAGCCCTG
1 CAGGATTATCAAGCCCTG
*
23936481 CAGGGTTATCAAGCCCTG
1 CAGGATTATCAAGCCCTG
23936499 AAAGTAGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (18 bp):
CAGGATTATCAAGCCCTG
Found at i:23939555 original size:20 final size:20
Alignment explanation
Indices: 23939516--23939556 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23939506 ATATTGACTT
*
23939516 AAATTAGAAAAAAATGTTTA
1 AAATTAGAAAAAAATATTTA
23939536 AAATTA-AAAAAAATTATTTA
1 AAATTAGAAAAAAA-TATTTA
23939556 A
1 A
23939557 TATATTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AAATTAGAAAAAAATATTTA
Found at i:23940702 original size:49 final size:50
Alignment explanation
Indices: 23940621--23940721 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 50
23940611 TGGAGCTGGC
* *
23940621 TAGTTATTCTTGAAGCCCTTCAACAAATTTACCCAATAAAATCCATCAAG
1 TAGTTATCCTTGAAGCCCTGCAACAAATTTACCCAATAAAATCCATCAAG
*
23940671 TAGTTATCCTTGAA-CCCTGCAACAAATTTACCTAATAAAATCCATCAAG
1 TAGTTATCCTTGAAGCCCTGCAACAAATTTACCCAATAAAATCCATCAAG
23940720 TA
1 TA
23940722 ATCTCTGTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 35 0.73
50 13 0.27
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.30
Consensus pattern (50 bp):
TAGTTATCCTTGAAGCCCTGCAACAAATTTACCCAATAAAATCCATCAAG
Found at i:23945771 original size:27 final size:27
Alignment explanation
Indices: 23945733--23945791 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
23945723 CCTTTTGCAG
23945733 AACCACCATCTACGCCACCTAAACTAA
1 AACCACCATCTACGCCACCTAAACTAA
23945760 AACCACCATCTACGCCACCTAAACTAA
1 AACCACCATCTACGCCACCTAAACTAA
23945787 AACCA
1 AACCA
23945792 GAAGTATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.41, G:0.03, T:0.14
Consensus pattern (27 bp):
AACCACCATCTACGCCACCTAAACTAA
Found at i:23948282 original size:20 final size:21
Alignment explanation
Indices: 23948254--23948306 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
23948244 CATACCTTCT
23948254 TTCATCTTTAAA-AATACAAA
1 TTCATCTTTAAAGAATACAAA
*
23948274 -TCTATCTTTAAAGAATACAGA
1 TTC-ATCTTTAAAGAATACAAA
23948295 TTCATCTTTAAA
1 TTCATCTTTAAA
23948307 CATAATTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 16 0.55
22 2 0.07
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (21 bp):
TTCATCTTTAAAGAATACAAA
Found at i:23948757 original size:103 final size:103
Alignment explanation
Indices: 23948571--23948769 Score: 317
Period size: 103 Copynumber: 1.9 Consensus size: 103
23948561 ATAATAGAAT
* *
23948571 CTCAAACTTAAGTATAAACATACTAGACATACCTTATTCGGATATCTTGAAACATTACTTCAAGA
1 CTCAAACTTAAGCATAAACATACTAGACATACCTTATTCGGACATCTTGAAACATTACTTCAAGA
* *
23948636 TCTCTTGGGCTCATGAACCTTAAACCTCGAAAATGGAA
66 TCTCTTGGGCCCACGAACCTTAAACCTCGAAAATGGAA
** * *
23948674 CTCAAACTTAAGCATAGGCATACTAGACATACCTTCTTCGGACATCTTGAAACATTACTTCACGA
1 CTCAAACTTAAGCATAAACATACTAGACATACCTTATTCGGACATCTTGAAACATTACTTCAAGA
*
23948739 TGTCTTGGGCCCACGAACCTTAAACCTCGAA
66 TCTCTTGGGCCCACGAACCTTAAACCTCGAA
23948770 CCTTGCCTGA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 87 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (103 bp):
CTCAAACTTAAGCATAAACATACTAGACATACCTTATTCGGACATCTTGAAACATTACTTCAAGA
TCTCTTGGGCCCACGAACCTTAAACCTCGAAAATGGAA
Found at i:23950561 original size:2 final size:2
Alignment explanation
Indices: 23950554--23950579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23950544 GACAAATCAA
23950554 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
23950580 TTAGAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23952592 original size:18 final size:18
Alignment explanation
Indices: 23952571--23952608 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23952561 TTCACTGCTT
*
23952571 TCTGGAACTTCAATTATA
1 TCTGGAACTTCAAATATA
*
23952589 TCTGGGACTTCAAATATA
1 TCTGGAACTTCAAATATA
23952607 TC
1 TC
23952609 ATGCACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (18 bp):
TCTGGAACTTCAAATATA
Found at i:23955396 original size:15 final size:15
Alignment explanation
Indices: 23955372--23955411 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
23955362 GGTTCAATTG
*
23955372 AATTTGATTTGGATC
1 AATTTAATTTGGATC
23955387 AATTTAATTTGGATC
1 AATTTAATTTGGATC
23955402 -ATTTATATTT
1 AATTTA-ATTT
23955412 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
AATTTAATTTGGATC
Found at i:23956602 original size:24 final size:24
Alignment explanation
Indices: 23956575--23956625 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
23956565 ATAAGTTATC
*
23956575 ATTTGTGTTATGTTTATTATTTTT
1 ATTTGTGTTATATTTATTATTTTT
23956599 ATTTGTGTTATATTTATTATTTTT
1 ATTTGTGTTATATTTATTATTTTT
23956623 ATT
1 ATT
23956626 AAATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (24 bp):
ATTTGTGTTATATTTATTATTTTT
Found at i:23958718 original size:3 final size:3
Alignment explanation
Indices: 23958650--23958704 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
23958640 TTATAGTTTG
*
23958650 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23958698 TT- TTA TT
1 TTA TTA TT
23958705 TTTCTATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23960137 original size:119 final size:118
Alignment explanation
Indices: 23959865--23960339 Score: 605
Period size: 118 Copynumber: 3.9 Consensus size: 118
23959855 AAAATAATTG
* * * * * *
23959865 TAAAGTCATAAGTGGTTATTTTATTAAAAATATTTATA-AAAAGACATTTTTAAAATATTATAAA
1 TAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAA-AAATTTTTAAAATATTCTAAA
* * * *
23959929 AGTGTTAGAAATATTTTAGCAAATTTTAAGCATAAAAAAATTATTAATAAAATA
65 AGTGTTAGAAATATTTTAGAAAATTTCAAACATAAAAAAATTATTAATAAAAAA
23959983 TAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAAAAATTTTTAAAATATTCTAAAA
1 TAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAAAAATTTTTAAAATATTCTAAAA
23960048 GTGTTAGAAATATTTTAGAAAATTTCAAACATAAAAAAATTTATTAATAAAAAA
66 GTGTTAGAAATATTTTAGAAAATTTCAAACATAAAAAAA-TTATTAATAAAAAA
*
23960102 TAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCTAAA
1 TAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAA-AAAATTTTTAAAATATTCTAAA
* * *
23960167 AGTATTAAAAATATTTTAGAGAAATTTCAAGCATAAAAAACATTATTAATAAAAAA
65 AGTGTTAGAAATATTTTAGA-AAATTTCAAACATAAAAAA-ATTATTAATAAAAAA
* * * **
23960223 TAAAGTCACACAAGTAGTGATTTTATTAAAAATA-TT-CATATAAAACTTTTTTAAAAATATTCT
1 TAAAAT--CACAAGTGGTGATTTTATTAAAAATATTTACACA-AAAAAATTTTT-AAAATATTCT
* * ** *
23960286 AAAATATGTTAGAAATATTTTATAATTTTTCAAATACAAAAAAAAATTATTAAT
62 AAAA-GTGTTAGAAATATTTTAGAAAATTTC-AA-ACATAAAAAAATTATTAAT
23960340 GGGATAATGA
Statistics
Matches: 319, Mismatches: 26, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
118 90 0.28
119 59 0.18
120 39 0.12
121 48 0.15
122 24 0.08
123 51 0.16
124 8 0.03
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (118 bp):
TAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAAAAATTTTTAAAATATTCTAAAA
GTGTTAGAAATATTTTAGAAAATTTCAAACATAAAAAAATTATTAATAAAAAA
Done.