Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 88 of 105
Found at i:15456782 original size:22 final size:20
Alignment explanation
Indices: 15456749--15456792 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
15456739 TTCCATCATT
15456749 TTTTATTATTTTTATTCTTA
1 TTTTATTATTTTTATTCTTA
*
15456769 TTTTAGTTAGTTTTTATTTTTA
1 TTTTA-TTA-TTTTTATTCTTA
15456791 TT
1 TT
15456793 AATAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 3 0.14
22 13 0.62
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTATTATTTTTATTCTTA
Found at i:15457288 original size:22 final size:21
Alignment explanation
Indices: 15457263--15457318 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
15457253 TAATAGCAAT
*
15457263 AAAAACTAAAAATGATCAAAAC
1 AAAAA-TAAAAAAGATCAAAAC
* *
15457285 AAAAATAAAAAAGATTAAATC
1 AAAAATAAAAAAGATCAAAAC
15457306 AAAAAATAAAAAA
1 -AAAAATAAAAAA
15457319 AATAAATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAAAGATCAAAAC
Found at i:15457293 original size:21 final size:22
Alignment explanation
Indices: 15457263--15457318 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
15457253 TAATAGCAAT
* *
15457263 AAAAACTAAAAATGATCAAAAC
1 AAAAAATAAAAAAGATCAAAAC
* *
15457285 -AAAAATAAAAAAGATTAAATC
1 AAAAAATAAAAAAGATCAAAAC
15457306 AAAAAATAAAAAA
1 AAAAAATAAAAAA
15457319 AATAAATCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAATAAAAAAGATCAAAAC
Found at i:15457324 original size:21 final size:22
Alignment explanation
Indices: 15457285--15457327 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15457275 TGATCAAAAC
*
15457285 AAAAATAAAAAAGATTAAATCA
1 AAAAATAAAAAAGAATAAATCA
15457307 AAAAATAAAAAA-AATAAATCA
1 AAAAATAAAAAAGAATAAATCA
15457328 GACTAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAAAGAATAAATCA
Found at i:15458113 original size:23 final size:23
Alignment explanation
Indices: 15458069--15458113 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15458059 AGAGATGTTG
* * *
15458069 GTAGTTAGGTGGGTGGGGTGGTT
1 GTAGGTAGGTGGATAGGGTGGTT
*
15458092 GTAGGTAGGTGGATAGGTTGGT
1 GTAGGTAGGTGGATAGGGTGGT
15458114 GCCGTGCATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.53, T:0.33
Consensus pattern (23 bp):
GTAGGTAGGTGGATAGGGTGGTT
Found at i:15458204 original size:9 final size:10
Alignment explanation
Indices: 15458187--15458212 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15458177 ATTATTAATT
15458187 TTAAAAAAAA
1 TTAAAAAAAA
15458197 TTAAAAAAAA
1 TTAAAAAAAA
15458207 TTAAAA
1 TTAAAA
15458213 TAGGCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:15458614 original size:44 final size:44
Alignment explanation
Indices: 15458546--15458657 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 44
15458536 AAAATCTTTC
* * * * *
15458546 AAAAA-TTTAAAAGGCTCTTTTAAGTAG-AGATTCAATAACTTAT
1 AAAAACTTTAAATGACTCCTTTAAGTAGAAG-CTCAAAAACTTAT
** ** *
15458589 GCAAACTTTAAATGGTTCCTTTAAGTAGAAGCTCAAAAACTTTT
1 AAAAACTTTAAATGACTCCTTTAAGTAGAAGCTCAAAAACTTAT
15458633 AAAAACTTTAAATGACTCCTTTAAG
1 AAAAACTTTAAATGACTCCTTTAAG
15458658 CAAGGGCTCA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 3 0.05
44 50 0.91
45 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (44 bp):
AAAAACTTTAAATGACTCCTTTAAGTAGAAGCTCAAAAACTTAT
Found at i:15458667 original size:44 final size:44
Alignment explanation
Indices: 15458591--15458689 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
15458581 TAACTTATGC
** *
15458591 AAACTTTAAATGGTTCCTTTAAGTAGAAGCTCAAAAACTTTTAA
1 AAACTTTAAATGACTCCTTTAAGAAGAAGCTCAAAAACTTTTAA
* ***
15458635 AAACTTTAAATGACTCCTTTAAGCAAG-GGCTCAACTGCTTTTAA
1 AAACTTTAAATGACTCCTTTAAG-AAGAAGCTCAAAAACTTTTAA
15458679 AAA-TTTAAATG
1 AAACTTTAAATG
15458690 GCTTTTCTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 8 0.17
44 37 0.79
45 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (44 bp):
AAACTTTAAATGACTCCTTTAAGAAGAAGCTCAAAAACTTTTAA
Found at i:15469786 original size:11 final size:11
Alignment explanation
Indices: 15469772--15469797 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15469762 AACTGAAATT
15469772 TTTTCTTTTTG
1 TTTTCTTTTTG
15469783 TTTTCTTTTTG
1 TTTTCTTTTTG
15469794 TTTT
1 TTTT
15469798 TTATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTG
Found at i:15471836 original size:8 final size:8
Alignment explanation
Indices: 15471825--15471870 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
15471815 TTTCGATTTG
15471825 TTTTTTAT
1 TTTTTTAT
15471833 TTTTTTAT
1 TTTTTTAT
15471841 TTTTTTAT
1 TTTTTTAT
*
15471849 TGGTTTTTTT
1 T--TTTTTAT
15471859 TGTTTTTAT
1 T-TTTTTAT
15471868 TTT
1 TTT
15471871 AAAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 19 0.56
9 8 0.24
10 7 0.21
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.85
Consensus pattern (8 bp):
TTTTTTAT
Found at i:15471842 original size:19 final size:19
Alignment explanation
Indices: 15471801--15471869 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
15471791 TGTAATTGAA
* **
15471801 ATTTTTTTTTTTGTTTTCG
1 ATTTTTTTATTTGTTTTTT
15471820 ATTTGTTTT-TTAT-TTTTTT
1 ATTT-TTTTATT-TGTTTTTT
*
15471839 ATTTTTTTATTGGTTTTTT
1 ATTTTTTTATTTGTTTTTT
15471858 -TTGTTTTTATTT
1 ATT-TTTTTATTT
15471870 TAAAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.15
19 30 0.73
20 5 0.12
ACGTcount: A:0.09, C:0.01, G:0.09, T:0.81
Consensus pattern (19 bp):
ATTTTTTTATTTGTTTTTT
Found at i:15471844 original size:27 final size:26
Alignment explanation
Indices: 15471802--15471870 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
15471792 GTAATTGAAA
* *
15471802 TTTTTTTTTTT-GTTTTCGATTTGTT
1 TTTTTTTTTTTATTTTTCGATTGGTT
**
15471827 TTTTATTTTTTTATTTTTTTATTGGTT
1 TTTT-TTTTTTTATTTTTCGATTGGTT
15471854 TTTTTTGTTTTTATTTT
1 TTTTTT-TTTTTATTTT
15471871 AAAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.11
26 9 0.24
27 24 0.65
ACGTcount: A:0.07, C:0.01, G:0.09, T:0.83
Consensus pattern (26 bp):
TTTTTTTTTTTATTTTTCGATTGGTT
Found at i:15472853 original size:22 final size:20
Alignment explanation
Indices: 15472820--15472863 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
15472810 TTCCATCATT
15472820 TTTTATTATTTTTATTCTTA
1 TTTTATTATTTTTATTCTTA
*
15472840 TTTTAGTTAGTTTTTATTTTTA
1 TTTTA-TTA-TTTTTATTCTTA
15472862 TT
1 TT
15472864 AATAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 3 0.14
22 13 0.62
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTATTATTTTTATTCTTA
Found at i:15473285 original size:3 final size:3
Alignment explanation
Indices: 15473277--15473316 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15473267 TCTTATTCAC
15473277 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15473317 AAAAAAGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:15473407 original size:22 final size:20
Alignment explanation
Indices: 15473382--15473427 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
15473372 AGTTATAGTA
15473382 AAAACTAAAAATGATAAAAATC
1 AAAACTAAAAA-GAT-AAAATC
* *
15473404 AAAATTAAAAAGATTAAATC
1 AAAACTAAAAAGATAAAATC
15473424 AAAA
1 AAAA
15473428 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAACTAAAAAGATAAAATC
Found at i:15489686 original size:29 final size:28
Alignment explanation
Indices: 15489653--15489731 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
15489643 AATAAATATA
*
15489653 AATAATATAGATATATACGAACAGACAC
1 AATAATATAGATATATACAAACAGACAC
* * *
15489681 GAATAATACAGATATATATAAATAGACAC
1 -AATAATATAGATATATACAAACAGACAC
* *
15489710 AACTAATATAAATATCTACAAA
1 AA-TAATATAGATATATACAAA
15489732 AACTAGACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 2 0.05
29 39 0.95
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.24
Consensus pattern (28 bp):
AATAATATAGATATATACAAACAGACAC
Found at i:15495575 original size:52 final size:52
Alignment explanation
Indices: 15495454--15495580 Score: 148
Period size: 52 Copynumber: 2.4 Consensus size: 52
15495444 AAATTTGCCA
* * *
15495454 ATTAAGAAT-CCCTCTCTTCTTAGAATTCTTCTCCTGTAAGTCAAACTTGCCT
1 ATTAAGAATCCCCTTTCTT-TTAGAATTCTTCTCCTGCAAGTCAAACTTACCT
* ** * * *
15495506 ATTAAAAATCCATTTTCTTTTAGAATTCTTCTCTTGCAAGTCAAATTTACTT
1 ATTAAGAATCCCCTTTCTTTTAGAATTCTTCTCCTGCAAGTCAAACTTACCT
*
15495558 ATTAAGAATCCCCTTTCTCTTAG
1 ATTAAGAATCCCCTTTCTTTTAG
15495581 TCAAATATTG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
52 55 0.90
53 6 0.10
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.42
Consensus pattern (52 bp):
ATTAAGAATCCCCTTTCTTTTAGAATTCTTCTCCTGCAAGTCAAACTTACCT
Found at i:15495713 original size:51 final size:51
Alignment explanation
Indices: 15495613--15495749 Score: 132
Period size: 51 Copynumber: 2.7 Consensus size: 51
15495603 GAAAATTTGT
* * * * *
15495613 AAAAAAAGAATTTTAAGA-TAATGAGATTTTTAGTAGGTAAATTTAACTTGC
1 AAAAAAA-AATTTTAAGAGAAAAGAGATTCTTAATAGGCAAATTTAACTTGC
* * *
15495664 AAAAAAAAATTTTAAGAGAAAAGAGATTCTTAATAGGCAAGTTTGACTTGT
1 AAAAAAAAATTTTAAGAGAAAAGAGATTCTTAATAGGCAAATTTAACTTGC
* * * * *
15495715 AGAATAAGAATTATAAGAGGAAATAGATTCTTAAT
1 A-AAAAAAAATTTTAAGAGAAAAGAGATTCTTAAT
15495750 GGATAAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
50 10 0.14
51 33 0.46
52 28 0.39
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.31
Consensus pattern (51 bp):
AAAAAAAAATTTTAAGAGAAAAGAGATTCTTAATAGGCAAATTTAACTTGC
Found at i:15500231 original size:11 final size:11
Alignment explanation
Indices: 15500217--15500324 Score: 96
Period size: 11 Copynumber: 9.9 Consensus size: 11
15500207 ATAAAAAAAC
*
15500217 TTAATAATAAT
1 TTAATATTAAT
*
15500228 TTAATGTAATAAT
1 TTAA--TATTAAT
*
15500241 TAAATATTAA-
1 TTAATATTAAT
15500251 TTAATATTAAT
1 TTAATATTAAT
*
15500262 TTAATATT-GT
1 TTAATATTAAT
* *
15500272 CTAGTA-TAAT
1 TTAATATTAAT
*
15500282 TAAATATTAAT
1 TTAATATTAAT
*
15500293 TTCATATTAAT
1 TTAATATTAAT
15500304 TTAATATTAAT
1 TTAATATTAAT
*
15500315 TAAATATTAA
1 TTAATATTAA
15500325 ATAATATTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
9 1 0.01
10 18 0.23
11 49 0.63
13 10 0.13
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (11 bp):
TTAATATTAAT
Found at i:15500349 original size:17 final size:17
Alignment explanation
Indices: 15500327--15500363 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15500317 AATATTAAAT
*
15500327 AATATTTACTAATAGTG
1 AATATTTAATAATAGTG
*
15500344 AATATTTAATAATATTG
1 AATATTTAATAATAGTG
15500361 AAT
1 AAT
15500364 GTTAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (17 bp):
AATATTTAATAATAGTG
Found at i:15500422 original size:21 final size:21
Alignment explanation
Indices: 15500237--15500422 Score: 76
Period size: 21 Copynumber: 8.7 Consensus size: 21
15500227 TTTAATGTAA
*
15500237 TAATTAAATATTAATT-AATAT
1 TAATTTAATATT-ATTAAATAT
* *
15500258 TAATTTAATATTGTCT-AGTA-
1 TAATTTAATATTAT-TAAATAT
* **
15500278 TAATTAAATATTAATTTCATAT
1 TAATTTAATATT-ATTAAATAT
15500300 TAATTTAATATTAATTAAATAT
1 TAATTTAATATT-ATTAAATAT
* *
15500322 TAA-ATAATATTTACT-AATAGT
1 TAATTTAATA-TTATTAAATA-T
* * * *
15500343 GAATATTTAATAATATTGAATGT
1 -TA-ATTTAATATTATTAAATAT
* * * *
15500366 TAATTTCAGAATATTAAATGT
1 TAATTTAATATTATTAAATAT
** * * *
15500387 TAAAATGATAATATTAAATAA
1 TAATTTAATATTATTAAATAT
15500408 TAATTTAATATTATT
1 TAATTTAATATTATT
15500423 TAATTAATTG
Statistics
Matches: 124, Mismatches: 31, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
20 17 0.14
21 68 0.55
22 26 0.21
23 5 0.04
24 8 0.06
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
TAATTTAATATTATTAAATAT
Found at i:15500426 original size:18 final size:18
Alignment explanation
Indices: 15500395--15500447 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
15500385 GTTAAAATGA
**
15500395 TAATATTAAATAATAATT
1 TAATATTATTTAATAATT
15500413 TAATATTATTTAATTAATT
1 TAATATTATTTAA-TAATT
* *
15500432 GAATACTATTTTAATA
1 TAATATTA-TTTAATA
15500448 CTATTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.38
19 13 0.45
20 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATATTATTTAATAATT
Found at i:15500449 original size:11 final size:11
Alignment explanation
Indices: 15500433--15500482 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
15500423 TAATTAATTG
15500433 AATACTATTTT
1 AATACTATTTT
15500444 AATACTA-TTT
1 AATACTATTTT
15500454 AAT--TAATTTT
1 AATACT-ATTTT
* *
15500464 AGTATTATTTT
1 AATACTATTTT
15500475 AATACTAT
1 AATACTAT
15500483 GTAATTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
8 1 0.03
9 1 0.03
10 11 0.34
11 18 0.56
12 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (11 bp):
AATACTATTTT
Found at i:15500476 original size:31 final size:31
Alignment explanation
Indices: 15500411--15500491 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
15500401 TAAATAATAA
*
15500411 TTTAATATTATTTAATTAA-TTGAATACTAT
1 TTTAATACTATTTAATTAATTTGAATACTAT
* * *
15500441 TTTAATACTATTTAATTAATTTTAGTATTAT
1 TTTAATACTATTTAATTAATTTGAATACTAT
*
15500472 TTTAATACTATGTAATTAAT
1 TTTAATACTATTTAATTAAT
15500492 GTAATATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 18 0.40
31 27 0.60
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (31 bp):
TTTAATACTATTTAATTAATTTGAATACTAT
Found at i:15500574 original size:31 final size:29
Alignment explanation
Indices: 15500539--15500606 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
15500529 TTAATATTTA
*
15500539 TTTAATATTAAGTAATTAATTTTATTAAAAT
1 TTTAATATTAAGTAATTAA-TTTAAT-AAAT
* * **
15500570 TTTAAGAATATTTAATTAATTTAATAAAT
1 TTTAATATTAAGTAATTAATTTAATAAAT
15500599 TTTAATAT
1 TTTAATAT
15500607 AATATTCAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 10 0.33
30 5 0.17
31 15 0.50
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TTTAATATTAAGTAATTAATTTAATAAAT
Found at i:15502812 original size:22 final size:22
Alignment explanation
Indices: 15502756--15502823 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
15502746 TTTAATCCGA
*
15502756 TATATATAATTT-ATTTT-TAAT
1 TATATAT-ATTTAATTTTATATT
*
15502777 TA-AT-TAATTAATTTTATATT
1 TATATATATTTAATTTTATATT
15502797 TATATATATTTAATTTTATATT
1 TATATATATTTAATTTTATATT
15502819 TATAT
1 TATAT
15502824 TAAAAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.08
19 6 0.15
20 7 0.17
21 4 0.10
22 20 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATATATTTAATTTTATATT
Found at i:15502851 original size:23 final size:25
Alignment explanation
Indices: 15502809--15502863 Score: 87
Period size: 23 Copynumber: 2.3 Consensus size: 25
15502799 TATATATTTA
*
15502809 ATTTTATATTTATATTAAAAATAAT
1 ATTTTATATTTATATAAAAAATAAT
15502834 ATTTTATATTT-T-TAAAAAATAAT
1 ATTTTATATTTATATAAAAAATAAT
15502857 ATTTTAT
1 ATTTTAT
15502864 TAATTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 17 0.59
24 1 0.03
25 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTTATATTTATATAAAAAATAAT
Found at i:15502870 original size:24 final size:23
Alignment explanation
Indices: 15502825--15502870 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15502815 TATTTATATT
*
15502825 AAAAATAATATTTTATATTTTTA
1 AAAAATAATATTTTATAATTTTA
15502848 AAAAATAATATTTTATTAATTTT
1 AAAAATAATATTTTA-TAATTTT
15502871 GAAATTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAAATAATATTTTATAATTTTA
Found at i:15502966 original size:18 final size:17
Alignment explanation
Indices: 15502920--15502966 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
15502910 AATCGAATCG
15502920 ATTTAAATA-TAAAAAA
1 ATTTAAATATTAAAAAA
* *
15502936 ATTTAAAAAATTAAATCAA
1 ATTT-AAATATTAAA-AAA
15502955 ATTTAAATATTA
1 ATTTAAATATTA
15502967 TATTTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 11 0.44
19 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAATATTAAAAAA
Found at i:15505453 original size:2 final size:2
Alignment explanation
Indices: 15505446--15505474 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15505436 GCTAATAATT
15505446 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15505475 AGCAGACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15508602 original size:15 final size:15
Alignment explanation
Indices: 15508582--15508615 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15508572 AAATTTAAGT
15508582 TTTATTATATGTGAA
1 TTTATTATATGTGAA
* *
15508597 TTTATTATGTGTGGA
1 TTTATTATATGTGAA
15508612 TTTA
1 TTTA
15508616 ATTGTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTATTATATGTGAA
Found at i:15509379 original size:3 final size:3
Alignment explanation
Indices: 15509371--15509420 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
15509361 GTATTCGTGA
15509371 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15509419 AT
1 AT
15509421 CAACAAAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15511438 original size:10 final size:11
Alignment explanation
Indices: 15511423--15511451 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15511413 GTTGATTACC
15511423 TATTAAAA-TT
1 TATTAAAATTT
15511433 TATTAAAATTT
1 TATTAAAATTT
15511444 TATTAAAA
1 TATTAAAA
15511452 AATAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTAAAATTT
Found at i:15512496 original size:14 final size:14
Alignment explanation
Indices: 15512464--15512513 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
15512454 ATATCATGCA
* *
15512464 AAATTAATCATACAA
1 AAATAAATCATA-AT
15512479 AAATAAATCATAAT
1 AAATAAATCATAAT
15512493 AAAT-AATACA-AAT
1 AAATAAAT-CATAAT
15512506 AAATAAAT
1 AAATAAAT
15512514 TCCTTACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 10 0.32
14 10 0.32
15 11 0.35
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAAATCATAAT
Found at i:15512556 original size:23 final size:24
Alignment explanation
Indices: 15512526--15512597 Score: 103
Period size: 23 Copynumber: 3.0 Consensus size: 24
15512516 CTTACAAAAT
*
15512526 ATCATGCAA-AAATATCATAATAA
1 ATCATGCAATAAATATAATAATAA
15512549 ATCATGCAAATAAATATAATAA-AA
1 ATCATGC-AATAAATATAATAATAA
*
15512573 ATCATGTAATAAATATAATAATAA
1 ATCATGCAATAAATATAATAATAA
15512597 A
1 A
15512598 AATCCCACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 21 0.48
24 13 0.30
25 10 0.23
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (24 bp):
ATCATGCAATAAATATAATAATAA
Found at i:15513509 original size:16 final size:16
Alignment explanation
Indices: 15513490--15513520 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15513480 TTTTGGGCAT
15513490 TTTTTAATT-AATTAA
1 TTTTTAATTAAATTAA
15513505 TTTTTAATTAAATTAA
1 TTTTTAATTAAATTAA
15513521 CTAATTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAATTAAATTAA
Found at i:15513787 original size:12 final size:12
Alignment explanation
Indices: 15513770--15513800 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15513760 AGATATATAT
15513770 AAATATAAATAA
1 AAATATAAATAA
15513782 AAATATAAATAA
1 AAATATAAATAA
*
15513794 ACATATA
1 AAATATA
15513801 TGTAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATATAAATAA
Found at i:15514915 original size:56 final size:58
Alignment explanation
Indices: 15514838--15514982 Score: 176
Period size: 55 Copynumber: 2.6 Consensus size: 58
15514828 ATATATATTC
* *
15514838 TTGAG-AAAAGTTGAAATATCAATTTTTCTTGAAAA-AAAATTTT-AAAAAAATA-CT
1 TTGAGAAAAATTTAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATCT
* *
15514892 TTGAGAAAAATTTAAAAGTATCAA-TTTTCTT-AAAATAAAATTTTCCAAAAAATATTT
1 TTGAGAAAAATTTAAAA-TATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATCT
*
15514949 TTGAGGAAAAAGTTGAAAATATCAATTTTTCTTG
1 TTGA-GAAAAA-TTTAAAATATCAATTTTTCTTG
15514983 TATAAAAGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
54 9 0.12
55 24 0.31
56 14 0.18
57 5 0.06
58 12 0.16
59 13 0.17
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (58 bp):
TTGAGAAAAATTTAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATCT
Found at i:15518806 original size:12 final size:12
Alignment explanation
Indices: 15518789--15518828 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
15518779 CCGCCAGCAA
*
15518789 AAATTTCAACTT
1 AAATTTAAACTT
15518801 AAATTTTAAA-TT
1 AAA-TTTAAACTT
15518813 AAATTTAAACTT
1 AAATTTAAACTT
15518825 AAAT
1 AAAT
15518829 ATGGTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 6 0.24
12 14 0.56
13 5 0.20
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATTTAAACTT
Found at i:15522432 original size:15 final size:15
Alignment explanation
Indices: 15522408--15522442 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15522398 CTTGTTCATC
*
15522408 ATTATCATTATTTTT
1 ATTATTATTATTTTT
15522423 ATTATTATTATTTTT
1 ATTATTATTATTTTT
15522438 -TTATT
1 ATTATT
15522443 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTATTATTATTTTT
Found at i:15522452 original size:16 final size:16
Alignment explanation
Indices: 15522418--15522465 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
15522408 ATTATCATTA
* *
15522418 TTTTTATTATTATTATT
1 TTTTTATTTTTCTT-TT
15522435 TTTTTATTTTTCTTTT
1 TTTTTATTTTTCTTTT
* *
15522451 TTGTTCTTTTTCTTT
1 TTTTTATTTTTCTTT
15522466 GCTACTTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTTCTTTT
Found at i:15522902 original size:22 final size:21
Alignment explanation
Indices: 15522854--15522903 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
15522844 CGATTTAGGA
15522854 GTTTTTTTTTGAATTTTTCTT
1 GTTTTTTTTTGAATTTTTCTT
* *
15522875 GATTTTTTTTTTAATCTTT-TT
1 G-TTTTTTTTTGAATTTTTCTT
*
15522896 GTGTTTTT
1 GTTTTTTT
15522904 CTGGGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 15 0.60
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (21 bp):
GTTTTTTTTTGAATTTTTCTT
Found at i:15523003 original size:19 final size:18
Alignment explanation
Indices: 15522979--15523023 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15522969 TATAGTGAGA
*
15522979 TTTTCAGAATCCGACGGGT
1 TTTTCAAAAT-CGACGGGT
*
15522998 TTTTCAAAAATCGATGGGT
1 TTTTC-AAAATCGACGGGT
15523017 TTTTCAA
1 TTTTCAA
15523024 TTTTCGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 17 0.74
20 4 0.17
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (18 bp):
TTTTCAAAATCGACGGGT
Found at i:15523275 original size:12 final size:13
Alignment explanation
Indices: 15523258--15523286 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15523248 GATCATAGGT
15523258 TTTTCCTTTTCC-
1 TTTTCCTTTTCCA
15523270 TTTTCCTTTTCCA
1 TTTTCCTTTTCCA
15523283 TTTT
1 TTTT
15523287 ATTTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCCTTTTCCA
Found at i:15523298 original size:25 final size:24
Alignment explanation
Indices: 15523270--15523321 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
15523260 TTCCTTTTCC
*
15523270 TTTTCCTTTTCCATTTTATTTTTAT
1 TTTTCCATTTCCATTTTA-TTTTAT
** *
15523295 TTTTTGATTTCTATTTTATTTTAT
1 TTTTCCATTTCCATTTTATTTTAT
15523319 TTT
1 TTT
15523322 ATTTTCACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTCCATTTCCATTTTATTTTAT
Found at i:15542087 original size:114 final size:113
Alignment explanation
Indices: 15541767--15542089 Score: 330
Period size: 112 Copynumber: 2.8 Consensus size: 113
15541757 CTTGTGACAC
* * *
15541767 CAGTCCAGTCATTTATTTACAACCTTGACT-TGATCTTGGTTACCTTTTGACTCACGTCATCATC
1 CAGTCCAGTCATTTATTTACGACCTTGACTCT-ATCTTGGTTACC-TTTGACTCACGACATCGTC
* * * * * * *
15541831 ACAGTTATTTGATCTCAACTTAGGTCAGATCATTGTCAGACTCGCGACAT
64 TCAGTTATTTGATCTCGACTTAGGTCAAATCATCGTCAAACTCGCAACAA
* * * * * *
15541881 CAGTCCAGTCATTTATTTACGACC--AACTCGATCTTAGTCACCTTTCGACTCATGACATTGTCT
1 CAGTCCAGTCATTTATTTACGACCTTGACTCTATCTTGGTTACCTTT-GACTCACGACATCGTCT
* * *
15541944 CAATTATTTGATCTCGACTTAGGTTAAATCATCGTCAAACTCGTAACAA
65 CAGTTATTTGATCTCGACTTAGGTCAAATCATCGTCAAACTCGCAACAA
* * * *
15541993 CAGTCCAATTATTTATTTATGACCTTGACTCTATCTTGGTTATCTTCTGACTCAC-AGCATCGTC
1 CAGTCCAGTCATTTATTTACGACCTTGACTCTATCTTGGTTACCTT-TGACTCACGA-CATCGTC
* * * *
15542057 TCAGTCATTTGATCTTGGCTTTGGTCAAATCAT
64 TCAGTTATTTGATCTCGACTTAGGTCAAATCAT
15542090 ATTTCGACTC
Statistics
Matches: 168, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
111 3 0.02
112 86 0.51
113 1 0.01
114 77 0.46
115 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (113 bp):
CAGTCCAGTCATTTATTTACGACCTTGACTCTATCTTGGTTACCTTTGACTCACGACATCGTCTC
AGTTATTTGATCTCGACTTAGGTCAAATCATCGTCAAACTCGCAACAA
Found at i:15542447 original size:8 final size:8
Alignment explanation
Indices: 15542434--15542471 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
15542424 TATCATTATT
15542434 TTTTTTTA
1 TTTTTTTA
15542442 TTTTTTTA
1 TTTTTTTA
15542450 TTTTTTT-
1 TTTTTTTA
**
15542457 TTTTGCTA
1 TTTTTTTA
15542465 TTTTTTT
1 TTTTTTT
15542472 TTGTTTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:15542459 original size:14 final size:15
Alignment explanation
Indices: 15542434--15542473 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
15542424 TATCATTATT
**
15542434 TTTTTTTATTTTTTTA
1 TTTTTTT-TTTTGCTA
15542450 TTTTTTTTTTTGCTA
1 TTTTTTTTTTTGCTA
15542465 TTTTTTTTT
1 TTTTTTTTT
15542474 GTTTCAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.07, C:0.03, G:0.03, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTGCTA
Found at i:15542872 original size:20 final size:20
Alignment explanation
Indices: 15542847--15542884 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15542837 GATTTAGGAA
15542847 TTTTTTTGAATTTTTTTAGG
1 TTTTTTTGAATTTTTTTAGG
**
15542867 TTTTTTTGGGTTTTTTTA
1 TTTTTTTGAATTTTTTTA
15542885 ATAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.16, T:0.74
Consensus pattern (20 bp):
TTTTTTTGAATTTTTTTAGG
Found at i:15543273 original size:20 final size:19
Alignment explanation
Indices: 15543250--15543290 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15543240 AGGTTTTTTC
15543250 TTTTTCA-TTTTATTTTTAT
1 TTTTTCACTTTTA-TTTTAT
*
15543269 TTTTTGACTTTTATTTTAT
1 TTTTTCACTTTTATTTTAT
15543288 TTT
1 TTT
15543291 ATTTTAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTCACTTTTATTTTAT
Found at i:15544423 original size:29 final size:29
Alignment explanation
Indices: 15544368--15544424 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
15544358 TGTAAGAGAT
* *
15544368 CTACTTAAGTTACAAAAATATATAAAATC
1 CTACTTAAATTACAAAAATATAAAAAATC
15544397 CTACTTAAATTACAAAACA-ATAAAAAAT
1 CTACTTAAATTACAAAA-ATATAAAAAAT
15544425 AATTTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (29 bp):
CTACTTAAATTACAAAAATATAAAAAATC
Found at i:15545051 original size:20 final size:18
Alignment explanation
Indices: 15545011--15545056 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
15545001 AATATGAAGC
15545011 AAATAAAAAAATAGTTAA
1 AAATAAAAAAATAGTTAA
15545029 AAATAAACAATAATA-TTAGA
1 AAATAAA-AA-AATAGTTA-A
15545049 AAATAAAA
1 AAATAAAA
15545057 TTAACTCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.28
19 6 0.24
20 12 0.48
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATAAAAAAATAGTTAA
Found at i:15545391 original size:38 final size:38
Alignment explanation
Indices: 15545349--15545427 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
15545339 TCTACGAAGA
* * * *
15545349 TATT-GAAATTTTTAAATTTAAAAGAGATATATGTATAT
1 TATTGGAAAATTTT-AATTTAAAAGAAATATATCTAAAT
*
15545387 TATTGGAAAATTTTATTTTAAAAGAAATATATCTAAAT
1 TATTGGAAAATTTTAATTTAAAAGAAATATATCTAAAT
15545425 TAT
1 TAT
15545428 ATTTAATTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 27 0.77
39 8 0.23
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (38 bp):
TATTGGAAAATTTTAATTTAAAAGAAATATATCTAAAT
Found at i:15545963 original size:18 final size:17
Alignment explanation
Indices: 15545923--15545966 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15545913 AATATATTTA
* *
15545923 AATAATATCTTATCTAT
1 AATAATATCTAATCAAT
15545940 AGATAATATCTAATCAAAT
1 A-ATAATATCTAATC-AAT
15545959 AATAATAT
1 AATAATAT
15545967 TTAAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (17 bp):
AATAATATCTAATCAAT
Found at i:15546583 original size:17 final size:18
Alignment explanation
Indices: 15546557--15546598 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
15546547 AAGTTTATGA
15546557 TAAATATTTATTTAAATT
1 TAAATATTTATTTAAATT
*
15546575 TAAAT-TTTATTTTAATT
1 TAAATATTTATTTAAATT
*
15546592 CAAATAT
1 TAAATAT
15546599 ATCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATATTTATTTAAATT
Found at i:15547060 original size:2 final size:2
Alignment explanation
Indices: 15547049--15547078 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15547039 TTACATGTGT
15547049 TA TA -A TA 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 T
15547079 GATTTCATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15547629 original size:17 final size:16
Alignment explanation
Indices: 15547596--15547639 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 16
15547586 AAGTAGAATA
*
15547596 TTATTAAATATTTTAT
1 TTATTAATTATTTTAT
15547612 TTATT-A-TA-TTTAT
1 TTATTAATTATTTTAT
15547625 TTATTAATTATTTTA
1 TTATTAATTATTTTA
15547640 AATTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.40
14 3 0.12
15 3 0.12
16 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTAATTATTTTAT
Found at i:15550071 original size:80 final size:80
Alignment explanation
Indices: 15549933--15550097 Score: 312
Period size: 80 Copynumber: 2.1 Consensus size: 80
15549923 ACAAATTGCT
*
15549933 CTTGTTGGCATACATGCATTAGTTTAATTTCATATTTCTTTTTTAATTTACTCACCAATAAACAC
1 CTTGATGGCATACATGCATTAGTTTAATTTCATATTTCTTTTTTAATTTACTCACCAATAAACAC
*
15549998 ACTCATTCTTTATCC
66 ACTCATTCATTATCC
15550013 CTTGATGGCATACATGCATTAGTTTAATTTCATATTTCTTTTTTAATTTACTCACCAATAAACAC
1 CTTGATGGCATACATGCATTAGTTTAATTTCATATTTCTTTTTTAATTTACTCACCAATAAACAC
15550078 ACTCATTCATTATCC
66 ACTCATTCATTATCC
15550093 CTTGA
1 CTTGA
15550098 CTTAGGTACG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (80 bp):
CTTGATGGCATACATGCATTAGTTTAATTTCATATTTCTTTTTTAATTTACTCACCAATAAACAC
ACTCATTCATTATCC
Found at i:15553702 original size:23 final size:20
Alignment explanation
Indices: 15553648--15553692 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
15553638 TAATTTTATA
*
15553648 TTTATATTAAAAAATAATAT
1 TTTATATTTAAAAATAATAT
15553668 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
15553688 TTTAT
1 TTTAT
15553693 GAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:15556667 original size:2 final size:2
Alignment explanation
Indices: 15556649--15556685 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
15556639 GGTAAGAATG
*
15556649 AT AT A- AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15556686 CCAGGGTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15562119 original size:6 final size:6
Alignment explanation
Indices: 15562108--15562132 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15562098 AATGTTATGA
15562108 TGGAAT TGGAAT TGGAAT TGGAAT T
1 TGGAAT TGGAAT TGGAAT TGGAAT T
15562133 TGGATGTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGAAT
Found at i:15563790 original size:2 final size:2
Alignment explanation
Indices: 15563783--15563807 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15563773 AGCTGCAGCA
15563783 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 A
15563808 ACGAACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15567947 original size:23 final size:23
Alignment explanation
Indices: 15567920--15567980 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
15567910 TGATACAAAT
*
15567920 ATAATAAAATATAAAATATAAAA
1 ATAATTAAATATAAAATATAAAA
* * * *
15567943 ATAATTTAATTTAAAATTTAATA
1 ATAATTAAATATAAAATATAAAA
*
15567966 ATAATTATATATAAA
1 ATAATTAAATATAAA
15567981 TTCAGTAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATTAAATATAAAATATAAAA
Found at i:15568981 original size:23 final size:23
Alignment explanation
Indices: 15568933--15568981 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
15568923 AAATAAAATG
* * *
15568933 AAAAAATTACTTATAATTTGTTA
1 AAAAAATTACTGATAATTTATAA
15568956 AAAAAATTA-TGATAATTATATAA
1 AAAAAATTACTGATAATT-TATAA
15568979 AAA
1 AAA
15568982 TGAATAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (23 bp):
AAAAAATTACTGATAATTTATAA
Found at i:15569206 original size:24 final size:23
Alignment explanation
Indices: 15569179--15569238 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
15569169 TATAAATATG
15569179 ATAAAATTTA-AAA-TT-ATAATA
1 ATAAAATTTATAAATTTAATAA-A
15569200 ATAATAATTTATAAATTTAATAAA
1 ATAA-AATTTATAAATTTAATAAA
15569224 ATAAAAAATTTATAA
1 AT--AAAATTTATAA
15569239 CATATAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 3 0.09
24 5 0.15
25 13 0.39
26 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATTTATAAATTTAATAAA
Found at i:15582086 original size:3 final size:3
Alignment explanation
Indices: 15582078--15582103 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15582068 AAAGGACAAA
15582078 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15582104 ACACAGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15583805 original size:24 final size:24
Alignment explanation
Indices: 15583763--15583818 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
15583753 TAAATTCAAA
*
15583763 TTTAATTATATGTGGATTTGATT-G
1 TTTAATTATATGTGAATTT-ATTAG
* *
15583787 TTTAATTATATTTTAATTTATTAG
1 TTTAATTATATGTGAATTTATTAG
15583811 -TTAATTAT
1 TTTAATTAT
15583819 TTAATGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (24 bp):
TTTAATTATATGTGAATTTATTAG
Found at i:15597694 original size:16 final size:16
Alignment explanation
Indices: 15597670--15597708 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15597660 ATTATTATAT
15597670 AATTAATTA-ATAAATA
1 AATTAATTATAT-AATA
*
15597686 AATTTATTATATAATA
1 AATTAATTATATAATA
15597702 AATTAAT
1 AATTAAT
15597709 AAATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAATTATATAATA
Found at i:15597795 original size:19 final size:19
Alignment explanation
Indices: 15597748--15597795 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
15597738 CTATTATTTG
15597748 ATTTTA-AAA-AATTAATA
1 ATTTTATAAATAATTAATA
* * *
15597765 ATTTTTTTAATAATTATTA
1 ATTTTATAAATAATTAATA
15597784 ATTTTATAAATA
1 ATTTTATAAATA
15597796 TCAAGTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 5 0.21
18 2 0.08
19 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTATAAATAATTAATA
Found at i:15598880 original size:25 final size:26
Alignment explanation
Indices: 15598838--15598889 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15598828 GAATTCAATG
* *
15598838 TGAGATTAATTTTGATAA-AATTAAA
1 TGAGATTAATATTGATAATAATAAAA
15598863 TGAGATTAAATATT-ATAATAATAAAA
1 TGAGATT-AATATTGATAATAATAAAA
15598889 T
1 T
15598890 TAAAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (26 bp):
TGAGATTAATATTGATAATAATAAAA
Found at i:15600858 original size:21 final size:21
Alignment explanation
Indices: 15600829--15600869 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15600819 TTATCTTAAG
15600829 CTTGATTTGCATTCAATCGTA
1 CTTGATTTGCATTCAATCGTA
* *
15600850 CTTGGTTTGGATTCAATCGT
1 CTTGATTTGCATTCAATCGT
15600870 GCCGCTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (21 bp):
CTTGATTTGCATTCAATCGTA
Found at i:15601140 original size:18 final size:18
Alignment explanation
Indices: 15601119--15601153 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15601109 TAATATTTAT
15601119 AAAATTAATAAATTATTA
1 AAAATTAATAAATTATTA
*
15601137 AAAATTATTAAATTATT
1 AAAATTAATAAATTATT
15601154 TTTAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTAATAAATTATTA
Found at i:15601757 original size:18 final size:18
Alignment explanation
Indices: 15601720--15601758 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15601710 ACTATTTTTT
*
15601720 AATTATTTTTATTAATAA
1 AATTATTTTTATTAAAAA
15601738 AATTATTATTTA-TAAAAA
1 AATTATT-TTTATTAAAAA
15601756 AAT
1 AAT
15601759 AGTTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTATTTTTATTAAAAA
Found at i:15603956 original size:21 final size:21
Alignment explanation
Indices: 15603904--15603960 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
15603894 ACCCATCAAA
15603904 AAACACAAAAAAGCAAAAAAAT
1 AAACACAAAAAA-CAAAAAAAT
*
15603926 AAAAAC-AAAAACAAAAAAA-
1 AAACACAAAAAACAAAAAAAT
*
15603945 AATCCACAAAAAACAA
1 AA-ACACAAAAAACAA
15603961 TCCTCCCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 13 0.43
22 5 0.17
ACGTcount: A:0.79, C:0.16, G:0.02, T:0.04
Consensus pattern (21 bp):
AAACACAAAAAACAAAAAAAT
Found at i:15605083 original size:15 final size:14
Alignment explanation
Indices: 15605063--15605151 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 14
15605053 CCCTAAAATT
*
15605063 TAAAATCTCAAACCC
1 TAAAATC-CAAAACC
15605078 TAAAATCCAAAACC
1 TAAAATCCAAAACC
**
15605092 TAAAAATCCAAATTTC
1 T-AAAATCCAAA-ACC
*
15605108 TAAAAACCCCTAAAATCC
1 T-AAAA-TCC-AAAA-CC
15605126 -AAAATCCAAAACC
1 TAAAATCCAAAACC
15605139 TAAAAATCCAAAA
1 T-AAAATCCAAAA
15605152 GTCTAAAGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.03
14 11 0.18
15 30 0.50
16 11 0.18
17 2 0.03
18 4 0.07
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAATCCAAAACC
Found at i:15607229 original size:13 final size:13
Alignment explanation
Indices: 15607213--15607250 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15607203 AATGATTAAA
15607213 TAAAAATTGAAAT
1 TAAAAATTGAAAT
*
15607226 TAAAAATTAAAAT
1 TAAAAATTGAAAT
15607239 TAATAAA-TGAAA
1 TAA-AAATTGAAA
15607251 AGATGTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
TAAAAATTGAAAT
Found at i:15612158 original size:63 final size:63
Alignment explanation
Indices: 15612051--15612171 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 63
15612041 ATATAACAAA
* * *
15612051 ATAAAAGAATTGTTTAAGGTATTTTTGTACAACAAAAACTTTAAATAATAATTTTATATACAC
1 ATAAAAGAATTATTTAAGATATTTTTGTACAACAAAAACCTTAAATAATAATTTTATATACAC
* * * * * *
15612114 ATAAAAGGATTATTTAAGATATTTTTTGTA-TAGAAATACCTTAAATGATCATTTTATA
1 ATAAAAGAATTATTTAAGATA-TTTTTGTACAACAAAAACCTTAAATAATAATTTTATA
15612172 AATAAATTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
63 40 0.83
64 8 0.17
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (63 bp):
ATAAAAGAATTATTTAAGATATTTTTGTACAACAAAAACCTTAAATAATAATTTTATATACAC
Found at i:15614778 original size:14 final size:14
Alignment explanation
Indices: 15614759--15614788 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15614749 TTTCATAGTC
15614759 ATTATATATATTTT
1 ATTATATATATTTT
15614773 ATTATATATATTTT
1 ATTATATATATTTT
15614787 AT
1 AT
15614789 GTAAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATATATATTTT
Found at i:15618980 original size:34 final size:34
Alignment explanation
Indices: 15618937--15619006 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
15618927 AGTGAGTTGG
* **
15618937 TTATTAAAAATGTATAATTGGACTTTGGATTAAA
1 TTATTAAAAAAGTATAATTAAACTTTGGATTAAA
*
15618971 TTATTAAAAAAGTATAATTAAATTTTGGATTAAA
1 TTATTAAAAAAGTATAATTAAACTTTGGATTAAA
15619005 TT
1 TT
15619007 TTGAGTAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.43
Consensus pattern (34 bp):
TTATTAAAAAAGTATAATTAAACTTTGGATTAAA
Found at i:15620107 original size:23 final size:23
Alignment explanation
Indices: 15620081--15620129 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
15620071 AAATAAAAAG
15620081 ATAATTATAAA-AAGTTCCTATAA
1 ATAATTATAAAGAA-TTCCTATAA
*
15620104 ATAATTATAAAGCATTCCTATAA
1 ATAATTATAAAGAATTCCTATAA
15620127 ATA
1 ATA
15620130 CTAAAAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAATTATAAAGAATTCCTATAA
Found at i:15621679 original size:20 final size:19
Alignment explanation
Indices: 15621652--15621690 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
15621642 GTAAAATTTA
* *
15621652 AAATTTTTTTGATATATAT
1 AAATTTTTTAGATAGATAT
15621671 AAATATTTTTAGATAGATAT
1 AAAT-TTTTTAGATAGATAT
15621691 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
AAATTTTTTAGATAGATAT
Found at i:15621984 original size:59 final size:59
Alignment explanation
Indices: 15621921--15622071 Score: 196
Period size: 59 Copynumber: 2.6 Consensus size: 59
15621911 TTAATTTTTT
* * *
15621921 GTTATAAATTTGTTGAAATTTGTTAGGGTTTTTGTTACCAATGTGTTGAGTTTTTGTTA
1 GTTATATATTTGTTGAAATTTGTTAGGGTTTTGGTTACCAATGTGTTAAGTTTTTGTTA
* * * * *
15621980 GTTATTTATTTGTTAAAATTTATTTGGGTTTTGGTTACCAATTTGTTAAGTTTTTGTTA
1 GTTATATATTTGTTGAAATTTGTTAGGGTTTTGGTTACCAATGTGTTAAGTTTTTGTTA
* *
15622039 ATTTTATATTTGTTGAAATTTGTTTA-GGTTTTG
1 GTTATATATTTGTTGAAATTTG-TTAGGGTTTTG
15622072 ATTATATATT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 75 0.97
60 2 0.03
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (59 bp):
GTTATATATTTGTTGAAATTTGTTAGGGTTTTGGTTACCAATGTGTTAAGTTTTTGTTA
Found at i:15622071 original size:36 final size:33
Alignment explanation
Indices: 15622019--15622095 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 33
15622009 TTTGGTTACC
* *
15622019 AATTTGTTAAGTTTTTGTTAATTTTATATTTGTT-GA
1 AATTTGTTAAGGTTTTG---ATTATATATTT-TTCGA
*
15622055 AATTTGTTTAGGTTTTGATTATATATTTTTCGA
1 AATTTGTTAAGGTTTTGATTATATATTTTTCGA
15622088 AATTTGTT
1 AATTTGTT
15622096 GGTTATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 2 0.05
33 20 0.54
36 15 0.41
ACGTcount: A:0.25, C:0.01, G:0.14, T:0.60
Consensus pattern (33 bp):
AATTTGTTAAGGTTTTGATTATATATTTTTCGA
Found at i:15627070 original size:11 final size:11
Alignment explanation
Indices: 15627051--15627088 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15627041 ATCACTGGCA
*
15627051 TTTCATTTTTT
1 TTTCTTTTTTT
15627062 TTTC-TTTTTT
1 TTTCTTTTTTT
*
15627072 TTTCTTTTATT
1 TTTCTTTTTTT
15627083 TTTCTT
1 TTTCTT
15627089 CCCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:15627071 original size:10 final size:10
Alignment explanation
Indices: 15627051--15627088 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
15627041 ATCACTGGCA
15627051 TTTCATTTTTT
1 TTTC-TTTTTT
15627062 TTTCTTTTTT
1 TTTCTTTTTT
15627072 TTTCTTTTATT
1 TTTCTTTT-TT
15627083 TTTCTT
1 TTTCTT
15627089 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 14 0.54
11 12 0.46
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:15630914 original size:3 final size:3
Alignment explanation
Indices: 15630906--15630977 Score: 90
Period size: 3 Copynumber: 24.0 Consensus size: 3
15630896 AACAAGAATT
* * * * *
15630906 TGA TGA TGA TGA TGC TAA TGA TGA TGA TGA TAA TGA TGA TAA TGC TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
*
15630954 TGG TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA
15630978 AACACATGAG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:15633706 original size:19 final size:20
Alignment explanation
Indices: 15633684--15633721 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15633674 AGGGTTCAAA
15633684 AATAATTACAAAT-TTTTTG
1 AATAATTACAAATGTTTTTG
*
15633703 AATAATTATAAATGTTTTT
1 AATAATTACAAATGTTTTT
15633722 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
AATAATTACAAATGTTTTTG
Found at i:15633762 original size:21 final size:19
Alignment explanation
Indices: 15633729--15633767 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
15633719 TTTATTTAAA
15633729 TTATTAATGAATTTGTACTT
1 TTATTAATGAATTT-TACTT
*
15633749 TTATTGATAGAATTTTACT
1 TTATTAAT-GAATTTTACT
15633768 ATCACTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTAATGAATTTTACTT
Found at i:15633916 original size:18 final size:19
Alignment explanation
Indices: 15633880--15633916 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
15633870 TGGATTTACT
15633880 GATAAAATTTTACTATTATC
1 GATAAAATTTTA-TATTATC
15633900 GATAAAATTTT-TATTAT
1 GATAAAATTTTATATTAT
15633917 TGTCGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
GATAAAATTTTATATTATC
Found at i:15633917 original size:21 final size:21
Alignment explanation
Indices: 15633880--15633939 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
15633870 TGGATTTACT
*
15633880 GATAAAA-TTTTACTATTATC
1 GATAAAATTTTTATTATTATC
*
15633900 GATAAAATTTTTATTATTGTC
1 GATAAAATTTTTATTATTATC
15633921 GAT-AAATTTATTGATTATT
1 GATAAAATTT-TT-ATTATT
15633940 TTTTTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.37
21 16 0.46
22 6 0.17
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (21 bp):
GATAAAATTTTTATTATTATC
Found at i:15635694 original size:22 final size:22
Alignment explanation
Indices: 15635669--15635710 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15635659 ACTTCTGTGC
* *
15635669 ATGCGTCTCGATTGGCTAATAT
1 ATGCGTATCGATTGGATAATAT
*
15635691 ATGCGTATTGATTGGATAAT
1 ATGCGTATCGATTGGATAAT
15635711 TATCTAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (22 bp):
ATGCGTATCGATTGGATAATAT
Found at i:15638339 original size:28 final size:27
Alignment explanation
Indices: 15638292--15638347 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
15638282 AGTTAATTTT
*
15638292 TAAAATTAAAAAATTCAATTTAATTAA
1 TAAAAATAAAAAATTCAATTTAATTAA
*
15638319 TAAAAATAAAATAATAT-AATTTGATTAA
1 TAAAAATAAAA-AAT-TCAATTTAATTAA
15638347 T
1 T
15638348 TTGATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 14 0.56
29 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAAATAAAAAATTCAATTTAATTAA
Found at i:15638370 original size:14 final size:15
Alignment explanation
Indices: 15638344--15638374 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15638334 ATAATTTGAT
15638344 TAATTTGATTTTAAA
1 TAATTTGATTTTAAA
*
15638359 TAATTTGATTTAAAA
1 TAATTTGATTTTAAA
15638374 T
1 T
15638375 TAATCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TAATTTGATTTTAAA
Found at i:15639338 original size:24 final size:24
Alignment explanation
Indices: 15639311--15639363 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
15639301 AGGAGCTGGA
*
15639311 GTTGGAGAT-GGGTTTGGGGTTGGG
1 GTTGGAGATAGGG-TTGGGGTTGGC
*
15639335 GTTGGAGATAGGGTTGGTGTTGGC
1 GTTGGAGATAGGGTTGGGGTTGGC
15639359 GTTGG
1 GTTGG
15639364 TGTTGCTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.09, C:0.02, G:0.55, T:0.34
Consensus pattern (24 bp):
GTTGGAGATAGGGTTGGGGTTGGC
Found at i:15639407 original size:36 final size:36
Alignment explanation
Indices: 15639367--15639440 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
15639357 GCGTTGGTGT
*
15639367 TGCTGTTGGGGAAGGTGTTGGAGTAGCAACTGGCGA
1 TGCTGTTGGGGAAGGCGTTGGAGTAGCAACTGGCGA
*
15639403 TGCTGTTGGGGAAGGCGTTGGAGTAGCAGCTGGCGA
1 TGCTGTTGGGGAAGGCGTTGGAGTAGCAACTGGCGA
15639439 TG
1 TG
15639441 GTGAAGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.18, C:0.12, G:0.46, T:0.24
Consensus pattern (36 bp):
TGCTGTTGGGGAAGGCGTTGGAGTAGCAACTGGCGA
Found at i:15645887 original size:25 final size:26
Alignment explanation
Indices: 15645858--15645916 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
15645848 AAATCTATTT
*
15645858 AATAAAAAATAAAGTTAA-AAAATTA
1 AATAAAAAATAAAGTTAATAAAATAA
*
15645883 AATAAAAAATAAATTTAATTAAAATAA
1 AATAAAAAATAAAGTTAA-TAAAATAA
15645910 AATAAAA
1 AATAAAA
15645917 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.57
27 13 0.43
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
AATAAAAAATAAAGTTAATAAAATAA
Found at i:15645889 original size:11 final size:11
Alignment explanation
Indices: 15645858--15645896 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
15645848 AAATCTATTT
15645858 AATAAAAAATA
1 AATAAAAAATA
15645869 AAGTTAAAAAATTA
1 AA--TAAAAAA-TA
15645883 AATAAAAAATA
1 AATAAAAAATA
15645894 AAT
1 AAT
15645897 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 7 0.28
12 7 0.28
13 7 0.28
14 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:15645910 original size:5 final size:5
Alignment explanation
Indices: 15645888--15645947 Score: 61
Period size: 5 Copynumber: 12.2 Consensus size: 5
15645878 AATTAAATAA
* * *
15645888 AAAAT AAATT TAATT AAAAT AAAAT AAAAT AAAAT AAAAT AACAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT
*
15645938 TAAA- AAAAT A
1 AAAAT AAAAT A
15645948 GAGTTTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
4 5 0.11
5 39 0.85
6 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:15646451 original size:16 final size:15
Alignment explanation
Indices: 15646420--15646459 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
15646410 ATTTTTATTT
15646420 TATAAAACTT-GAATA
1 TATAAAA-TTAGAATA
15646435 TATATAAATTAGAATA
1 TATA-AAATTAGAATA
15646451 TATAAAATT
1 TATAAAATT
15646460 CGATTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (15 bp):
TATAAAATTAGAATA
Found at i:15647734 original size:3 final size:3
Alignment explanation
Indices: 15647728--15647753 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15647718 TTTATTATTA
15647728 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
15647754 ATTATTTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:15650483 original size:21 final size:21
Alignment explanation
Indices: 15650445--15650484 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15650435 CTTCCAATAA
*
15650445 TTATTGTCACTAATAAATTAG
1 TTATTGTCACTAAAAAATTAG
15650466 TTATTGTCAC-AACAAAATT
1 TTATTGTCACTAA-AAAATT
15650485 TGTCAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (21 bp):
TTATTGTCACTAAAAAATTAG
Found at i:15662101 original size:24 final size:26
Alignment explanation
Indices: 15662069--15662118 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
15662059 GACCAATATA
15662069 TAATATATTTGAAGACT-TA-TAAAAT
1 TAATATA-TTGAAGACTGTAGTAAAAT
*
15662094 TAAT-TATTGTAGACTGTAGTAAAAT
1 TAATATATTGAAGACTGTAGTAAAAT
15662119 GAAAGTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 8 0.36
24 4 0.18
25 10 0.45
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (26 bp):
TAATATATTGAAGACTGTAGTAAAAT
Found at i:15663410 original size:22 final size:21
Alignment explanation
Indices: 15663362--15663411 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
15663352 AAAGAGTGAC
*
15663362 AAAAATATAATAAAGCCAAAT
1 AAAAATATAATAAAACCAAAT
15663383 AGAAAATATAATAAAACCTAAACT
1 A-AAAATATAATAAAACC-AAA-T
15663407 AAAAA
1 AAAAA
15663412 ATGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 15 0.60
23 7 0.28
24 2 0.08
ACGTcount: A:0.68, C:0.10, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAAATATAATAAAACCAAAT
Found at i:15663424 original size:29 final size:29
Alignment explanation
Indices: 15663392--15663453 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
15663382 TAGAAAATAT
15663392 AATAAAACCTAAACTAAAAAA-TGAAAAAA
1 AATAAAACCTAAACTAAAAAAGT-AAAAAA
* * * *
15663421 AATAAAGCTTAAATTAATAAAGTAAAAAA
1 AATAAAACCTAAACTAAAAAAGTAAAAAA
15663450 AATA
1 AATA
15663454 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.19
Consensus pattern (29 bp):
AATAAAACCTAAACTAAAAAAGTAAAAAA
Found at i:15663699 original size:14 final size:14
Alignment explanation
Indices: 15663680--15663710 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15663670 TCATTAATTA
*
15663680 AAAAAGTATTTCTT
1 AAAAAGGATTTCTT
15663694 AAAAAGGATTTCTT
1 AAAAAGGATTTCTT
15663708 AAA
1 AAA
15663711 TAAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (14 bp):
AAAAAGGATTTCTT
Found at i:15666017 original size:29 final size:30
Alignment explanation
Indices: 15665975--15666041 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
15665965 GCACTGAGGT
15665975 TGAT-AATCTGTAAAAGTACATCAATAGT-A
1 TGATAAAT-TGTAAAAGTACATCAATAGTGA
* *
15666004 TGATAAATTGTAAAATTATATCAATAGTGA
1 TGATAAATTGTAAAAGTACATCAATAGTGA
15666034 -GATAAATT
1 TGATAAATT
15666042 ATGACTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.34
Consensus pattern (30 bp):
TGATAAATTGTAAAAGTACATCAATAGTGA
Found at i:15669365 original size:34 final size:34
Alignment explanation
Indices: 15669327--15669405 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
15669317 TGGATTTATA
*
15669327 AGAAATCTTAAGGCTT-TTCAAAAATAGATATACG
1 AGAAATCTTAAGACTTCTT-AAAAATAGATATACG
* * *
15669361 AGAAATTTTAAGACTTCTTGAAAATAGATATATG
1 AGAAATCTTAAGACTTCTTAAAAATAGATATACG
*
15669395 AGAATTCTTAA
1 AGAAATCTTAA
15669406 AATTTTCTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 36 0.95
35 2 0.05
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (34 bp):
AGAAATCTTAAGACTTCTTAAAAATAGATATACG
Found at i:15671082 original size:18 final size:18
Alignment explanation
Indices: 15671035--15671083 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
15671025 CTTAGTTCTT
** *
15671035 GATACATTTGACATGGAT
1 GATACATTTGAGGTGGAG
15671053 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
15671071 GATACATTTGAGG
1 GATACATTTGAGG
15671084 ATGCTACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:15671092 original size:33 final size:35
Alignment explanation
Indices: 15671035--15671102 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 35
15671025 CTTAGTTCTT
15671035 GATACATTTGACATGGATGATACATTTGA-GGTGGAG
1 GATACATTTGA-ATGGATGATACATTT-ATGGTGGAG
*
15671071 GATACATTTG-A-GGATGCTACATTTATGGTGGA
1 GATACATTTGAATGGATGATACATTTATGGTGGA
15671103 TAATAACCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 1 0.03
33 18 0.60
34 1 0.03
36 10 0.33
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (35 bp):
GATACATTTGAATGGATGATACATTTATGGTGGAG
Found at i:15674606 original size:27 final size:28
Alignment explanation
Indices: 15674548--15674606 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
15674538 TTTTATCACA
* *
15674548 AATAATTTTCAATAATTATATAATAAAT
1 AATAATTTTCAATAATTACACAATAAAT
15674576 -ATAATTTTCAATAATTACACAA-AAAT
1 AATAATTTTCAATAATTACACAATAAAT
15674602 AATAA
1 AATAA
15674607 GAATTAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
AATAATTTTCAATAATTACACAATAAAT
Found at i:15674712 original size:16 final size:16
Alignment explanation
Indices: 15674691--15674722 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15674681 ATAAAATCAT
*
15674691 AAATTAATATATAATA
1 AAATTAAAATATAATA
15674707 AAATTAAAATATAATA
1 AAATTAAAATATAATA
15674723 TTTGATTTTA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAAATATAATA
Found at i:15677226 original size:21 final size:21
Alignment explanation
Indices: 15677201--15677242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15677191 GTTTGTTCGA
*
15677201 TAGAAACTTCAAAAAATAATT
1 TAGAAACGTCAAAAAATAATT
* *
15677222 TAGAAAGGTCGAAAAATAATT
1 TAGAAACGTCAAAAAATAATT
15677243 ATGTTTGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAGAAACGTCAAAAAATAATT
Found at i:15683079 original size:22 final size:22
Alignment explanation
Indices: 15683029--15683079 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
15683019 ATTCCAGCCG
*
15683029 TATTCCACCATTTGATTATTCA
1 TATTCCCCCATTTGATTATTCA
15683051 TATTCCCCCATTTGATTATTCA
1 TATTCCCCCATTTGATTATTCA
15683073 TATTCCC
1 TATTCCC
15683080 GGTGGGATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (22 bp):
TATTCCCCCATTTGATTATTCA
Found at i:15685619 original size:20 final size:18
Alignment explanation
Indices: 15685567--15685619 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
15685557 TTTTTAGTAT
15685567 AAAATGAAAAGTAAAAAAA
1 AAAAT-AAAAGTAAAAAAA
*
15685586 AAAATATGATAGTAAGAAGAAA
1 AAAATA--AAAGTAA-AA-AAA
15685608 AAAATAAAAGTA
1 AAAATAAAAGTA
15685620 TTAATCGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.04
19 5 0.18
20 11 0.39
21 2 0.07
22 9 0.32
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAATAAAAGTAAAAAAA
Found at i:15689178 original size:2 final size:2
Alignment explanation
Indices: 15689171--15689206 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15689161 CCGCAATTCC
15689171 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15689207 TGCCTTTCTA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15689564 original size:2 final size:2
Alignment explanation
Indices: 15689559--15689584 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15689549 CGTGTGTGTG
15689559 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
15689585 ATTTACTCTT
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):
TA
Found at i:15689890 original size:2 final size:2
Alignment explanation
Indices: 15689883--15689917 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
15689873 CAGGAAGACA
15689883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15689918 TGAGACAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15692759 original size:33 final size:33
Alignment explanation
Indices: 15692722--15692790 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
15692712 GAGGAAATCA
*
15692722 TAAGCTCTTCAGAAAGCTTGATAAGGTACTCAT
1 TAAGCTCTTCAGAAAGCTTGACAAGGTACTCAT
* *
15692755 TAAGCTCTTTAGAAAGCTTGACAGGGTACTCAT
1 TAAGCTCTTCAGAAAGCTTGACAAGGTACTCAT
15692788 TAA
1 TAA
15692791 TGAGAAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (33 bp):
TAAGCTCTTCAGAAAGCTTGACAAGGTACTCAT
Found at i:15694913 original size:894 final size:889
Alignment explanation
Indices: 15693266--15695161 Score: 2044
Period size: 894 Copynumber: 2.1 Consensus size: 889
15693256 AAGAGATTGA
* * * * * * * * *
15693266 TGTTAGAAATAGTGACTCAAATCTCATAACAGATTTGTTTAAGATTAGTTATATATTGCTTGATG
1 TGTTAGGAATAGGGACTCAAATCTCATAACAAATTTATTTAAAATTAGTTAGATATTACTTAATA
* * ** * * **** * * * ** * *
15693331 GATAAAAAGACTTGTAAAAAAGAATTCTAAG-AGAAATTTTTTTTTAATAGATAAATTTAACTTA
66 GACAAAAAAACTTACAAAAAAAAATTTTAAGAAGAAAAAGATTCTTAACAGGTAAGCTTGACTTG
* * * *
15693395 TAGAAGAAGAATTCTAAGAAAAAAAGATTCTAAATATGCAAGTTTGTATGATTATAAATAGGTAA
131 CAAAATAAGAATTCTAAGAAAAAAAGATTCTAAATAGGCAAGTTTGTATGATTATAAATAGGTAA
** * ** * * * *
15693460 AGTCTTTGTATGGTTAGGTATGAGAAAACAGATTTAAGAGAGTTGTAAGATTTTATGAGATAAAT
196 AGTCTTTACAGGGTTAAATATGAGAAAAAAGATATAAGAGAGTTATAAGATTTTATGAGATAAAC
* * * * ** *
15693525 ATCTCACAAAACTATTGAAGATTTACGTTTTATAAATGTGTATTTTTGTATATTTGTGAGTGGAT
261 ACCTCACAAAACTATTGAAGATTTACATATTATAAATGTGTATGTTTACATATTTGTGAGTGGAC
* * * *
15693590 TAAAAGAGACAGAGATGGTCTATATAGGTATGATGTATGGGTACATATAGGTATATATTTGTTTA
326 TAAAAGAGACAGAGAGGGTCCACATAGGTATGATATATGGGTACATATAGGTATATATTTGTTTA
* * * * * * * *
15693655 TGTTGAAAGGATGCACATGAGTATGTATTTGTTTGGGTTAAGAATACTCCATAAGACTAGAAGAG
391 TATTAAAAGGATACACATGAGTATGTATTTATTTAGATTAAGAACACTCCATAAGACTAAAAGAG
* * *
15693720 ATTGAGAGGGTCTATGGTTATTAATTATGAATGGTTGTTTTGATGTAATTCTCTACAACTAATGA
456 ATTGAGAGGATCTATGGTTATTAATTATAAATGATTGTTTTGATGTAATTCTCTACAACTAATGA
* * * *
15693785 ATCTTTTTTTTTATCTATGAACGTAAGTCAGTTAGATCAAACTACGTTAAATTATTATTTCTTAT
521 ATCATTTTTCTCATCTATGAACGTAAGTCAATTAGATCAAACTACGTTAAATTATTATTTCTTAT
* * * *
15693850 ATGATTGATTGATTATTTGATTTTACTTCTACTAGTGTGATTAGATTGAGACTTTTTAGCCTAAT
586 ATGATTGATTGATTATTTAATTTTACTTCCACTAGTGTAATTAGATTGAAACTTTTTAGCCTAAT
* ** ** * * **
15693915 AAGTAGTATCAAAGTTGAAGGTTTGAGATGTTAAAATAGATGAAAGTTTGAGCCATAAAAAAAAG
651 AAATAGTATCAAAACTGAAGGTTCAAGACGTGAAAATAGATGAAAGTTCAAGCCATAAAAAAAAG
* * * * * * * *
15693980 TAAGTCAAGAGGAACTCGATTTAAAAAAAAGTTTGAGTTCGTATTTTGAAGAATAGTTTGCA-TG
716 TAAGTCAAGAAGAACTCAACTTAAAAAAAAGTATGAGTTCATATTTTGAAGAACAATTTGCACAG
* * *
15694044 AAGCATGAAGACACACAAAAGAAGATGATTGTGAAACTTTCAATACAAG-TGGAGCCAAGCATGT
781 -AGCATGAAGACACACAAAAGAAGATGATTGTGAAACTTT-AATA-AAGATGAAGCCAAACATAT
*
15694108 CTAGCATGAAGACAGATGATTTGATAAAATTTAAGTCAAGGT-AGATTT
843 CTAACATGAAGACAGATGATTTGATAAAATTTAAGTCAAGGTAAGA--T
* * **
15694156 TGTTAGGAATAGGGACTTAAATCTCATAACAAATTTGTTTAAGTTTAGTTAGATATTACTTAATA
1 TGTTAGGAATAGGGACTCAAATCTCATAACAAATTTATTTAAAATTAGTTAGATATTACTTAATA
15694221 GACAAAAAAACTTACAGAAAAAAAATTTTAA-AAGAAAAGAGATTCTTAACAGGTAAGCTTGACT
66 GACAAAAAAACTTACA-AAAAAAAATTTTAAGAAGAAAA-AGATTCTTAACAGGTAAGCTTGACT
* * *
15694285 TGCAAAATAAGAATTCTAATAAGAAAAAGATTCTTAATAGGTAAGTTTGTAT-AGTTATAAATAG
129 TGCAAAATAAGAATTCTAAGAA-AAAAAGATTCTAAATAGGCAAGTTTGTATGA-TTATAAATAG
* * *
15694349 GTGAAGTCTTTACAGGGTTAAATATGA-AAAAAATATATAAGAGAGTTATAGGATTTTATGAGAT
192 GTAAAGTCTTTACAGGGTTAAATATGAGAAAAAAGATATAAGAGAGTTATAAGATTTTATGAGAT
* * * * ** *
15694413 AAACACC-CTATAAGACTATTGGAGATTTATATATTATAGGTGTGTATGTTTACATGTTTGTGAG
257 AAACACCTC-ACAAAACTATTGAAGATTTACATATTATAAATGTGTATGTTTACATATTTGTGAG
* ** * * **
15694477 TGGACTAGAAGAGATTGAGAGGGTCCACATATGTATGATATATTGGTGTATAT-GGATATATATT
321 TGGACTAAAAGAGACAGAGAGGGTCCACATAGGTATGATATATGGGTACATATAGG-TATATATT
* * * * *
15694541 TGTTTATATTAAAAAGG-TACATATATATGTATTTATTTATTTAGATTGAGAACACTTCATAAGA
385 TGTTTATATT-AAAAGGATACACAT-GA-GTATGTATTTATTTAGATTAAGAACACTCCATAAGA
* * *
15694605 CTAAAAGAGATTGAGAGGATTTATAGG-TATTAATTATAAATGATTGTTTTGATGTAATTTTTTA
447 CTAAAAGAGATTGAGAGGATCTAT-GGTTATTAATTATAAATGATTGTTTTGATGTAATTCTCTA
* * * * * * * *
15694669 CAATTAATGGATCATTTTTCTCATTTGTGGACGT-AGATCAATTGGATCGAACTATGTTAAATTA
511 CAACTAATGAATCATTTTTCTCATCTATGAACGTAAG-TCAATTAGATCAAACTACGTTAAATTA
* * *
15694733 TTATTTCTTATATGATTTATTGATTATTTAATTTTACTTCCACT-GATGTAATTGGATTGAAATT
575 TTATTTCTTATATGATTGATTGATTATTTAATTTTACTTCCACTAG-TGTAATTAGATTGAAACT
* * *
15694797 TTTTAGCCTAATAAATAGTATTAAAACTGAAGGTTCAAGACGTGAAAAGT-GTTGAAGGTTCAAG
639 TTTTAGCCTAATAAATAGTATCAAAACTGAAGGTTCAAGACGTGAAAA-TAGATGAAAGTTCAAG
* * *
15694861 CTAT-AAGAAAAGATAAGTCAA-AAGAGCTCAACTTAAGAAAATAA-TATGAGTTCATATTTTGA
703 CCATAAAAAAAAG-TAAGTCAAGAAGAACTCAACTTAA-AAAA-AAGTATGAGTTCATATTTTGA
* * * * * ** *
15694923 AGAACAATTTGCACAGAGCATGAAGATACATAAGAGAATATGATTGTGAGACTTTTTTATAGATG
765 AGAACAATTTGCACAGAGCATGAAGACACACAAAAGAAGATGATTGTGAAACTTTAATAAAGATG
* * *
15694988 AAGCCAAACATATCTAACATGAAGATAGATGATTTGATGAAATTTGAGTCAAGGTGAAGAT
830 AAGCCAAACATATCTAACATGAAGACAGATGATTTGATAAAATTTAAGTCAAGGT-AAGAT
* * * * *
15695049 TGTTAGGAATAGTGACTCAAATCTCATAATAAATTTATTTAAAATTGGTTAGATATTATTTAATG
1 TGTTAGGAATAGGGACTCAAATCTCATAACAAATTTATTTAAAATTAGTTAGATATTACTTAATA
* * * *
15695114 GATAAGAAGACTTGCAAAAAAAAATTTTAAGAAGAAAAAGATTCTTAA
66 GACAAAAAAACTTACAAAAAAAAATTTTAAGAAGAAAAAGATTCTTAA
15695162 TAGACAAGTT
Statistics
Matches: 825, Mismatches: 159, Indels: 42
0.80 0.15 0.04
Matches are distributed among these distances:
890 68 0.08
891 20 0.02
892 203 0.25
893 212 0.26
894 313 0.38
895 9 0.01
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (889 bp):
TGTTAGGAATAGGGACTCAAATCTCATAACAAATTTATTTAAAATTAGTTAGATATTACTTAATA
GACAAAAAAACTTACAAAAAAAAATTTTAAGAAGAAAAAGATTCTTAACAGGTAAGCTTGACTTG
CAAAATAAGAATTCTAAGAAAAAAAGATTCTAAATAGGCAAGTTTGTATGATTATAAATAGGTAA
AGTCTTTACAGGGTTAAATATGAGAAAAAAGATATAAGAGAGTTATAAGATTTTATGAGATAAAC
ACCTCACAAAACTATTGAAGATTTACATATTATAAATGTGTATGTTTACATATTTGTGAGTGGAC
TAAAAGAGACAGAGAGGGTCCACATAGGTATGATATATGGGTACATATAGGTATATATTTGTTTA
TATTAAAAGGATACACATGAGTATGTATTTATTTAGATTAAGAACACTCCATAAGACTAAAAGAG
ATTGAGAGGATCTATGGTTATTAATTATAAATGATTGTTTTGATGTAATTCTCTACAACTAATGA
ATCATTTTTCTCATCTATGAACGTAAGTCAATTAGATCAAACTACGTTAAATTATTATTTCTTAT
ATGATTGATTGATTATTTAATTTTACTTCCACTAGTGTAATTAGATTGAAACTTTTTAGCCTAAT
AAATAGTATCAAAACTGAAGGTTCAAGACGTGAAAATAGATGAAAGTTCAAGCCATAAAAAAAAG
TAAGTCAAGAAGAACTCAACTTAAAAAAAAGTATGAGTTCATATTTTGAAGAACAATTTGCACAG
AGCATGAAGACACACAAAAGAAGATGATTGTGAAACTTTAATAAAGATGAAGCCAAACATATCTA
ACATGAAGACAGATGATTTGATAAAATTTAAGTCAAGGTAAGAT
Found at i:15698850 original size:7 final size:7
Alignment explanation
Indices: 15698825--15698883 Score: 57
Period size: 7 Copynumber: 8.1 Consensus size: 7
15698815 TGTGATTTTT
15698825 TTTTAAA
1 TTTTAAA
* *
15698832 TGTTAGA
1 TTTTAAA
15698839 TTTTAAA
1 TTTTAAA
15698846 TTTT-AA
1 TTTTAAA
15698852 TTATTAAA
1 TT-TTAAA
*
15698860 ATTTAAA
1 TTTTAAA
15698867 TTTTGATAA
1 TTTT-A-AA
15698876 TTTTAAA
1 TTTTAAA
15698883 T
1 T
15698884 ATAAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 4 0.10
7 27 0.64
8 5 0.12
9 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (7 bp):
TTTTAAA
Done.